Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 166 of 210
Found at i:49929819 original size:21 final size:21
Alignment explanation
Indices: 49929793--49929832 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49929783 ATAACCTAAT
*
49929793 CCTAACCCTTAACCCCTAACC
1 CCTAACCCCTAACCCCTAACC
49929814 CCTAACCCCTAACCCCTAA
1 CCTAACCCCTAACCCCTAA
49929833 ACCTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAACCCCTAACCCCTAACC
Found at i:49930002 original size:7 final size:7
Alignment explanation
Indices: 49929941--49929985 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
49929931 TCTTAACATC
*
49929941 TAACCCC
1 TAACCCT
*
49929948 TAACCCC
1 TAACCCT
49929955 TAACCCT
1 TAACCCT
49929962 TAACCCT
1 TAACCCT
49929969 TAACCCT
1 TAACCCT
*
49929976 TAAACCT
1 TAACCCT
49929983 TAA
1 TAA
49929986 ATCACATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (7 bp):
TAACCCT
Found at i:49930481 original size:114 final size:114
Alignment explanation
Indices: 49930274--49930954 Score: 1175
Period size: 114 Copynumber: 6.0 Consensus size: 114
49930264 ATTTTAAATC
* * **
49930274 CCTGAGTATTAGCGGCGCTTACATAAAAACACCACTAAATCC-TCGAAAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGT
*
49930338 CGTTGGGTTGAAGTATTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGA
65 CGTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
49930388 CTTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCATC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
49930453 GTTGGGGTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
*
49930502 CCTGAGCATTAGTGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
* *
49930567 GTTGGATTGAAGTATTTTTGCGGAGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
*
49930616 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
49930681 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
49930730 CCTGACCAGTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTTAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
49930795 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
49930844 CCTGACCAGTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
*
49930909 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
66 GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
49930955 TGCTTATTTT
Statistics
Matches: 540, Mismatches: 26, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
114 538 1.00
115 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTC
GTTGGGTTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:49932173 original size:43 final size:45
Alignment explanation
Indices: 49932067--49932175 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 45
49932057 AACAATTCCT
*
49932067 TAAAAACTAGCCTAGAAAACGTGGATGACTAGAAAAAACAAATCAC
1 TAAAAACTAGCCTA-AAAATGTGGATGACTAGAAAAAACAAATCAC
* * * * * * *
49932113 TGAAAAGTAACTTAAAAATGTGGATGGCTA-AGAAAA-AAATCCC
1 TAAAAACTAGCCTAAAAATGTGGATGACTAGAAAAAACAAATCAC
49932156 TAAAAACTAGCCTAAAAATG
1 TAAAAACTAGCCTAAAAATG
49932176 CGGGTAGTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
43 22 0.43
44 5 0.10
45 14 0.27
46 10 0.20
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (45 bp):
TAAAAACTAGCCTAAAAATGTGGATGACTAGAAAAAACAAATCAC
Found at i:49939769 original size:44 final size:44
Alignment explanation
Indices: 49939716--49939831 Score: 205
Period size: 44 Copynumber: 2.6 Consensus size: 44
49939706 GATGTCATTG
*
49939716 TATCTTTCAACCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
49939760 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
* *
49939804 TATCTTTCAATCATGGTCTTTCCCTTTT
1 TATCTTTCAATCATGTTCTTTCCTTTTT
49939832 CTCAAATCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (44 bp):
TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
Found at i:49941754 original size:16 final size:16
Alignment explanation
Indices: 49941730--49941760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49941720 AGAAATTCCA
*
49941730 AAGAGAAAGAAGAAGG
1 AAGAAAAAGAAGAAGG
49941746 AAGAAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
49941761 AGAGTAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAGAAGG
Found at i:49946440 original size:43 final size:43
Alignment explanation
Indices: 49946387--49946711 Score: 344
Period size: 43 Copynumber: 7.7 Consensus size: 43
49946377 GTTTTTAGAA
* *
49946387 ACAAACGCCGCTAAAGAACAAGGCCTTTAGCGGCGCTTCTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
49946430 ACAAACGCCGCTAAAGACCAAGA-CTATTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCT-TTAGCGGCGCTTTTCCC
* * * * *
49946473 ACAAACGCTGCTAAATACCATGACCTTTAGCGGCACTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
49946516 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
49946559 ACAAACGCCACTAAAGACCAAGACCATTAGCGACGCTTTTTCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
49946602 ACAAACGCC-CTAAAG-ACAAAGACCTTTA---GCGCTTTTCCC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
* ** * * *
49946641 ACAAACGCTGCTAAAG-ACTGTGACTTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
*
49946684 AAAAACGCCGCTAAA-AACATA-ACCTTTA
1 ACAAACGCCGCTAAAGAACA-AGACCTTTA
49946712 AAAAAATTAT
Statistics
Matches: 240, Mismatches: 33, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
39 17 0.07
40 15 0.06
41 1 0.00
42 23 0.10
43 182 0.76
44 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
Found at i:49946501 original size:86 final size:85
Alignment explanation
Indices: 49946387--49946698 Score: 380
Period size: 86 Copynumber: 3.7 Consensus size: 85
49946377 GTTTTTAGAA
* *
49946387 ACAAACGCCGCTAAAGAACAAGGCCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
49946452 A-CTATTAGTGGCGCTTTTCCC
66 ACCT-TTAG-GGCGCTTTTCCC
* * * * * *
49946473 ACAAACGCTGCTAAATACCATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCATG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
49946538 ACCTTTAGCGGCGCTTTTCCC
66 ACCTTTAG-GGCGCTTTTCCC
* * * * * *
49946559 ACAAACGCCACTAAAGACCAAGACCATTAGCGACGCTTTTTCCACAAACGCC-CTAAAGACAAAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
49946623 ACCTTTA--GCGCTTTTCCC
66 ACCTTTAGGGCGCTTTTCCC
* *** * * *
49946641 ACAAACGCTGCTAAAGACTGTGACTTTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAA
49946699 AACATAACCT
Statistics
Matches: 193, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
82 51 0.26
83 5 0.03
85 17 0.09
86 118 0.61
87 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (85 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
ACCTTTAGGGCGCTTTTCCC
Found at i:49946588 original size:129 final size:125
Alignment explanation
Indices: 49946387--49946698 Score: 417
Period size: 129 Copynumber: 2.5 Consensus size: 125
49946377 GTTTTTAGAA
* * *
49946387 ACAAACGCCGCTAAAGAACAAGGCCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
* * * * * * *
49946452 ACTATTAGTGGCGCTTTTCCCACAAACGCTGCTAAATACCATGACCTTTAGCGGCACTTTTCCC
66 ACCATTAGCGACGCTTTTCCCACAAACGC-CCTAAAGACAAAGACCTTTAGC-G--CTTTTCCC
* *
49946516 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAG
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
*
49946581 ACCATTAGCGACGCTTTTTCCACAAACGCCCTAAAGACAAAGACCTTTAGCGCTTTTCCC
66 ACCATTAGCGACGCTTTTCCCACAAACGCCCTAAAGACAAAGACCTTTAGCGCTTTTCCC
* ** * * *
49946641 ACAAACGCTGCTAAAGACTGTGACTTTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAA
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAA
49946699 AACATAACCT
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
125 58 0.36
127 1 0.01
128 18 0.11
129 85 0.52
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (125 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAG
ACCATTAGCGACGCTTTTCCCACAAACGCCCTAAAGACAAAGACCTTTAGCGCTTTTCCC
Found at i:49948235 original size:25 final size:26
Alignment explanation
Indices: 49948207--49948261 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
49948197 CCAACAGTTG
49948207 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* **
49948232 AT-AATCCCTTACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
49948257 ATAAA
1 ATAAA
49948262 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:49958763 original size:50 final size:50
Alignment explanation
Indices: 49958649--49958841 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
49958639 GATCATAACA
* ** *
49958649 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ***
49958700 TGCCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49958750 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49958800 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49958842 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 98 0.75
51 33 0.25
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49958957 original size:13 final size:13
Alignment explanation
Indices: 49958936--49958965 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49958926 GCTTGGGTCA
49958936 TCATCAAATAAAT
1 TCATCAAATAAAT
*
49958949 TCATGAAATAAAT
1 TCATCAAATAAAT
49958962 TCAT
1 TCAT
49958966 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:49962446 original size:13 final size:14
Alignment explanation
Indices: 49962428--49962468 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
49962418 TTTTCAAAGA
49962428 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
49962441 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
49962455 TACGGTTTA-GACT
1 TATGGTTTAGGACT
49962468 T
1 T
49962469 TAGGGGTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:49962559 original size:25 final size:26
Alignment explanation
Indices: 49962525--49962576 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
49962515 TTGTTTGTGG
** *
49962525 TTTATGGGTTTAATTTTTATGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
49962551 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
49962576 T
1 T
49962577 GCGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (26 bp):
TTTATGGGTTTAAGATTTACGGTTAA
Found at i:49962645 original size:7 final size:7
Alignment explanation
Indices: 49962633--49962724 Score: 78
Period size: 7 Copynumber: 13.0 Consensus size: 7
49962623 GTTAATTGAC
49962633 GGGTTTA
1 GGGTTTA
49962640 GGGTTTA
1 GGGTTTA
* *
49962647 AGTTTTA
1 GGGTTTA
* * *
49962654 CGATTTG
1 GGGTTTA
*
49962661 GGGTTTG
1 GGGTTTA
49962668 GGGTTTA
1 GGGTTTA
*
49962675 GGG-TAA
1 GGGTTTA
49962681 GGGTTTATA
1 GGG-TT-TA
**
49962690 TAGTTTA
1 GGGTTTA
49962697 GGGTTTA
1 GGGTTTA
49962704 GGGTTTA
1 GGGTTTA
49962711 GGGTTTA
1 GGGTTTA
49962718 GGGTTTA
1 GGGTTTA
49962725 CGATTAATTA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
6 5 0.07
7 58 0.85
8 3 0.04
9 2 0.03
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:49963927 original size:16 final size:16
Alignment explanation
Indices: 49963906--49963937 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49963896 ACTTAGTAAT
49963906 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
49963922 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
49963938 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:49965008 original size:47 final size:47
Alignment explanation
Indices: 49964939--49965032 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
49964929 TGCTTCGATT
*
49964939 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
49964986 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
49965033 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:49965646 original size:9 final size:9
Alignment explanation
Indices: 49965632--49966062 Score: 199
Period size: 9 Copynumber: 46.6 Consensus size: 9
49965622 ATTAATATTA
*
49965632 TACATAAAT
1 TACATAACT
49965641 TACATAACT
1 TACATAACT
49965650 TA-ATTAA-T
1 TACA-TAACT
*
49965658 TA-AT-ATT
1 TACATAACT
49965665 ATACATAACT
1 -TACATAACT
*
49965675 TACCTAACT
1 TACATAACT
49965684 TA-ATTAA-T
1 TACA-TAACT
*
49965692 TA-AT-ATT
1 TACATAACT
49965699 ATACATAACT
1 -TACATAACT
49965709 TAC--AACT
1 TACATAACT
49965716 TACATAACT
1 TACATAACT
*
49965725 TACATTAATAT
1 TACA-TAA-CT
*
49965736 TACACATAAAT
1 T--ACATAACT
49965747 TACATAACT
1 TACATAACT
*
49965756 TACCTAACT
1 TACATAACT
49965765 TACATAACT
1 TACATAACT
*
49965774 TACATTAATAT
1 TACA-TAA-CT
*
49965785 TACACATAAAT
1 T--ACATAACT
49965796 TACATAACT
1 TACATAACT
*
49965805 TACATTAATATT
1 TACA-T-A-ACT
49965817 ATACATAACT
1 -TACATAACT
*
49965827 TACCTAACT
1 TACATAACT
49965836 TA-ATTAA-T
1 TACA-TAACT
*
49965844 TA-AT-ATT
1 TACATAACT
49965851 ATACATAACT
1 -TACATAACT
49965861 TAC--AACT
1 TACATAACT
49965868 TACATAACT
1 TACATAACT
*
49965877 TACATTAATAT
1 TACA-TAA-CT
*
49965888 TACACATAAAT
1 T--ACATAACT
49965899 TACATAACT
1 TACATAACT
*
49965908 TACATTAATATT
1 TACA-T-A-ACT
49965920 ATACATAACT
1 -TACATAACT
*
49965930 TACCTAACT
1 TACATAACT
49965939 TA-ATTAA-T
1 TACA-TAACT
*
49965947 TA-AT-ATT
1 TACATAACT
49965954 ATACATAACT
1 -TACATAACT
49965964 TAC--AACT
1 TACATAACT
49965971 TACATAACT
1 TACATAACT
*
49965980 TACATTAATAT
1 TACA-TAA-CT
49965991 TACACATAACT
1 T--ACATAACT
49966002 TACATAACT
1 TACATAACT
49966011 TAC--AACT
1 TACATAACT
49966018 TACATAACT
1 TACATAACT
*
49966027 TACATTAATATT
1 TACA-T-A-ACT
49966039 ATACATAACT
1 -TACATAACT
49966049 TACATAACT
1 TACATAACT
49966058 TACAT
1 TACAT
49966063 TAATACGACA
Statistics
Matches: 339, Mismatches: 27, Indels: 112
0.71 0.06 0.23
Matches are distributed among these distances:
6 4 0.01
7 36 0.11
8 25 0.07
9 175 0.52
10 29 0.09
11 25 0.07
12 21 0.06
13 24 0.07
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:49965885 original size:103 final size:103
Alignment explanation
Indices: 49965747--49966014 Score: 509
Period size: 103 Copynumber: 2.6 Consensus size: 103
49965737 ACACATAAAT
49965747 TACATAACTTACCTAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTA
1 TACATAACTTA-C-AACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTA
49965812 ATATTATACATAACTTACCTAACTTAATTAATTAATATTA
64 ATATTATACATAACTTACCTAACTTAATTAATTAATATTA
49965852 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAAT
1 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAAT
49965917 ATTATACATAACTTACCTAACTTAATTAATTAATATTA
66 ATTATACATAACTTACCTAACTTAATTAATTAATATTA
*
49965955 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAACTTACATAACTTACA
1 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACA
49966015 ACTTACATAA
Statistics
Matches: 162, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
103 150 0.93
104 1 0.01
105 11 0.07
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (103 bp):
TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAAT
ATTATACATAACTTACCTAACTTAATTAATTAATATTA
Found at i:49965894 original size:152 final size:154
Alignment explanation
Indices: 49965615--49966060 Score: 557
Period size: 152 Copynumber: 2.9 Consensus size: 154
49965605 NNNNNNNNAA
*
49965615 AACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACCT
1 AACTTACATTAATATTACACATAAATTACATAACTTAA-TAATTAATATTATACATAACTTACCT
49965680 AACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATTAATATTACACATAA
65 AACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATTAATATTACACATAA
49965745 ATTACATAACTTACCTAACTTACAT
130 ATTACATAACTTACCTAACTTACAT
*
49965770 AACTTACATTAATATTACACATAAATTACATAACTT-A-CATTAATATTATACATAACTTACCTA
1 AACTTACATTAATATTACACATAAATTACATAACTTAATAATTAATATTATACATAACTTACCTA
49965833 ACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATTAATATTACACATAAA
66 ACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATTAATATTACACATAAA
49965898 TTACATAACTTA-C--A-TTA-AT
131 TTACATAACTTACCTAACTTACAT
* * * * *
49965917 -ATTATACA-TAA-CTTAC-C-TAACTTA-ATTAA-TTAAT-ATTATACATAACTTAC--AACTT
1 AACT-TACATTAATATTACACATAAATTACA-TAACTTAATAATTA-ATATTA--TACATAACTT
* * *
49965972 ACATAACTTACATTAATATTACACATAACTTACATAACTTACAACTTACATAACTTACATTAATA
61 ACCTAACTTA-ATT-A-ATTA-ATATTA--TACATAACTTACAACTTACATAACTTACATTAATA
* *
49966037 TTATACATAACTTACATAACTTAC
120 TTACACATAAATTACATAACTTAC
49966061 ATTAATACGA
Statistics
Matches: 265, Mismatches: 12, Indels: 32
0.86 0.04 0.10
Matches are distributed among these distances:
142 3 0.01
143 14 0.05
144 19 0.07
145 7 0.03
146 9 0.03
147 10 0.04
148 7 0.03
149 1 0.00
150 56 0.21
151 1 0.00
152 102 0.38
154 1 0.00
155 35 0.13
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (154 bp):
AACTTACATTAATATTACACATAAATTACATAACTTAATAATTAATATTATACATAACTTACCTA
ACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATTAATATTACACATAAA
TTACATAACTTACCTAACTTACAT
Found at i:49965906 original size:47 final size:47
Alignment explanation
Indices: 49965852--49966061 Score: 123
Period size: 47 Copynumber: 4.3 Consensus size: 47
49965842 ATTAATATTA
49965852 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAAT
1 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAAT
* * * *
49965899 TACATAACTTACATTAATATTATACATAACTTAC-CTAA-CTT--A-ATTAAT
1 TACATAACTTAC----A-ACT-TACATAACTTACATTAATATTACACATAAAT
* *
49965947 TA-AT-ATTATACATAACTTAC--AACTTACATAACTTACATTAATATTACACATAACT
1 TACATAACT-TAC--AACTTACATAACTTAC---A-TTA----A-TATTACACATAAAT
* *
49966002 TACATAACTTACAACTTACATAACTTACATTAATATTATACATAACT
1 TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAAT
49966049 TACATAACTTACA
1 TACATAACTTACA
49966062 TTAATACGAC
Statistics
Matches: 124, Mismatches: 14, Indels: 50
0.66 0.07 0.27
Matches are distributed among these distances:
41 7 0.06
43 3 0.02
44 2 0.02
45 1 0.01
46 4 0.03
47 43 0.35
48 8 0.06
49 1 0.01
50 1 0.01
51 3 0.02
52 10 0.08
53 13 0.10
54 8 0.06
55 6 0.05
56 12 0.10
57 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (47 bp):
TACATAACTTACAACTTACATAACTTACATTAATATTACACATAAAT
Found at i:49965976 original size:16 final size:16
Alignment explanation
Indices: 49965955--49966030 Score: 86
Period size: 16 Copynumber: 4.8 Consensus size: 16
49965945 ATTAATATTA
49965955 TACATAACTTACAACT
1 TACATAACTTACAACT
49965971 TACATAACTTAC-A-T
1 TACATAACTTACAACT
** *
49965985 TA-ATATTACACATAACT
1 TACATA--ACTTACAACT
49966002 TACATAACTTACAACT
1 TACATAACTTACAACT
49966018 TACATAACTTACA
1 TACATAACTTACA
49966031 TTAATATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 4 0.08
16 33 0.67
17 3 0.06
18 3 0.06
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:49965998 original size:22 final size:22
Alignment explanation
Indices: 49965972--49966053 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
49965962 CTTACAACTT
49965972 ACATAACTTACATTAATATTAC
1 ACATAACTTACATTAATATTAC
**
49965994 ACATAACTTACA-TAACTTACAAC
1 ACATAACTTACATTAA--TATTAC
*
49966017 TTACATAACTTACATTAATATTAT
1 --ACATAACTTACATTAATATTAC
49966041 ACATAACTTACAT
1 ACATAACTTACAT
49966054 AACTTACATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
21 3 0.06
22 25 0.50
23 4 0.08
24 3 0.06
25 12 0.24
26 3 0.06
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (22 bp):
ACATAACTTACATTAATATTAC
Found at i:49966061 original size:31 final size:31
Alignment explanation
Indices: 49965712--49966014 Score: 173
Period size: 31 Copynumber: 9.5 Consensus size: 31
49965702 CATAACTTAC
49965712 AACTTACATAACTTACATTAATATTACACAT
1 AACTTACATAACTTACATTAATATTACACAT
* * *
49965743 AAATTACATAACTTAC-CTAA-CTT--ACAT
1 AACTTACATAACTTACATTAATATTACACAT
* *
49965770 AACTTACATTAATATTACACATAA-ATT--ACAT
1 AACTTACA-TAA-CTTACA-TTAATATTACACAT
* *
49965801 AACTTACATTAATATTATACA-TAA-CTTAC-C-T
1 AACTTACA-T-A-ACT-TACATTAATATTACACAT
* * * ** *
49965832 AACTTA-ATTAA-TTAATATTATACATAACTTAC
1 AACTTACA-TAACTT-ACATTA-ATATTACACAT
49965864 AACTTACATAACTTACATTAATATTACACAT
1 AACTTACATAACTTACATTAATATTACACAT
* *
49965895 AAATTACATAACTTACATTAATATTATACAT
1 AACTTACATAACTTACATTAATATTACACAT
* * *
49965926 AACTTACCTAACTTAATTAATTAATATTATACATAACTTAC
1 AACTTACATAACTT-A--CATTAATA-T-TAC---AC--AT
49965967 AACTTACATAACTTACATTAATATTACACAT
1 AACTTACATAACTTACATTAATATTACACAT
49965998 AACTTACATAACTTACA
1 AACTTACATAACTTACA
49966015 ACTTACATAA
Statistics
Matches: 215, Mismatches: 30, Indels: 54
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.00
27 14 0.07
28 6 0.03
29 8 0.04
30 9 0.04
31 111 0.52
32 18 0.08
33 10 0.05
34 7 0.03
35 1 0.00
36 5 0.02
37 1 0.00
38 7 0.03
39 2 0.01
40 1 0.00
41 14 0.07
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.37
Consensus pattern (31 bp):
AACTTACATAACTTACATTAATATTACACAT
Found at i:49971855 original size:87 final size:87
Alignment explanation
Indices: 49971672--49971869 Score: 251
Period size: 87 Copynumber: 2.3 Consensus size: 87
49971662 ACACAACTTA
* *
49971672 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
1 AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
*
49971737 AAAGCAGATGCGGCAATGAGAG
66 AAAGCAGATGCGGCAACGAGAG
* * *
49971759 AAGCTGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGC
1 AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
* *
49971822 TTAAAGTAGATGCGGCAGCGAGAG
64 TTAAAGCAGATGCGGCAACGAGAG
*
49971846 AAG-TAGAGGCTAA-AGCGAGGGAAG
1 AAGCT-GAGGC-AACAGCGAGAGAAG
49971870 TAGAGGCTGC
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
86 2 0.02
87 90 0.93
88 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.32, T:0.13
Consensus pattern (87 bp):
AAGCTGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
AAAGCAGATGCGGCAACGAGAG
Found at i:49971884 original size:21 final size:21
Alignment explanation
Indices: 49971825--49971890 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
49971815 CAGCAGCTTA
* * *
49971825 AAGTAGATGCGGCAGCGAGAG
1 AAGTAGAGGCTGCAGCGAGGG
**
49971846 AAGTAGAGGCTAAAGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
*
49971867 AAGTAGAGGCTGCGGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
49971888 AAG
1 AAG
49971891 CAGAAAAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.09
Consensus pattern (21 bp):
AAGTAGAGGCTGCAGCGAGGG
Found at i:49972293 original size:43 final size:42
Alignment explanation
Indices: 49972200--49972627 Score: 522
Period size: 43 Copynumber: 10.1 Consensus size: 42
49972190 CAAAATTAGC
*
49972200 GGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGC-TAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972243 GGCTTTTTTTCCTAAGCGCCGCGAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972285 GGCGTTTTTCGCCTAAGCGCCGCAAAAGACCATAGTCTATAGT
1 GGCGTTTTTTG-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
49972328 GGTGTTTTTCGCCTAAGTGCTGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTG-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972371 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGTCTGTAGT
1 GGCGTTT-TTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972414 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCACGGTCTATAGT
1 GGCGTTT-TTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972457 GGCATTTTTT-TTAAGCGCCGCTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972498 GGCGTTTTTTGGTAAGCGCCACTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
49972540 GGCATTTTTT--TAAGCGCCGCTAAAGACCACGGTCTATAGT
1 GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49972580 GGCGTTTTTAT-TTAAGCGCCGCTAAAGAACATGGTCTATAGC
1 GGCGTTTTT-TGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
49972622 GGCGTT
1 GGCGTT
49972628 GTAAAAAAAA
Statistics
Matches: 347, Mismatches: 33, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
40 37 0.11
41 41 0.12
42 109 0.31
43 157 0.45
44 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:49975832 original size:18 final size:18
Alignment explanation
Indices: 49975809--49975847 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
49975799 TTTAGATTAA
49975809 TTAGAGTTTCATCATACT
1 TTAGAGTTTCATCATACT
49975827 TTAGAGTTTCATCATACT
1 TTAGAGTTTCATCATACT
49975845 TTA
1 TTA
49975848 TGATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (18 bp):
TTAGAGTTTCATCATACT
Found at i:49979898 original size:28 final size:27
Alignment explanation
Indices: 49979824--49979902 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
49979814 GAGATTCAAG
* * * **
49979824 TTTAGGTTTTGGATTTAGAGTTTGAGG
1 TTTATGTTTAGGATTTAGGGTTTGAAA
* * *
49979851 TTTATGTTCAGGGTTCAGGGTTTGAAA
1 TTTATGTTTAGGATTTAGGGTTTGAAA
49979878 TTTAATGTTTAGGATTTAGGGTTTG
1 TTT-ATGTTTAGGATTTAGGGTTTG
49979903 GGGTTCGAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (27 bp):
TTTATGTTTAGGATTTAGGGTTTGAAA
Found at i:49980680 original size:24 final size:24
Alignment explanation
Indices: 49980653--49980714 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
49980643 AAAATCATAT
49980653 ATAATAATTATAAAAAAATTAAAA
1 ATAATAATTATAAAAAAATTAAAA
* * * * *
49980677 ATAATATTTTTATAAAATTTTAAA
1 ATAATAATTATAAAAAAATTAAAA
49980701 ATATATAATTATAA
1 ATA-ATAATTATAA
49980715 TTTTTTTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATAATTATAAAAAAATTAAAA
Found at i:49988819 original size:66 final size:66
Alignment explanation
Indices: 49988730--49988884 Score: 238
Period size: 66 Copynumber: 2.3 Consensus size: 66
49988720 ATATACTTGA
* * **
49988730 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTTAACTGCACCCAACTCTCATTGATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
49988795 G
66 G
* ** *
49988796 CACCCAGTGCATCATCGGATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
49988861 G
66 G
49988862 CACCCAGTGCCTCATCGGATAAA
1 CACCCAGTGCCTCATCGGATAAA
49988885 CTGAAGTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 80 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (66 bp):
CACCCAGTGCCTCATCGGATAAATCAAAGTAATTCAACTGCACCCAACACTCATCAATGTATTTG
G
Found at i:49988902 original size:29 final size:29
Alignment explanation
Indices: 49988868--49988924 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
49988858 TTGGCACCCA
*
49988868 GTGCCTCATCGGATAAACTGAAGTTATTG
1 GTGCCTCATCGAATAAACTGAAGTTATTG
*
49988897 GTGCCTCATTGAATAAACTGAAGTTATT
1 GTGCCTCATCGAATAAACTGAAGTTATT
49988925 CAATTGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (29 bp):
GTGCCTCATCGAATAAACTGAAGTTATTG
Found at i:49988987 original size:66 final size:65
Alignment explanation
Indices: 49988917--49989039 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
49988907 GAATAAACTG
* **
49988917 AAGTTATTCAATTGCACCCAAC-GTTCATCAATGTATTTGGCACCTAGTTTCTCATCGGATATAT
1 AAGTTATTCAATTG-ACCCAACACTT-ATCAATGTATTTGGCACCTAGTGCCTCATCGGATATAT
49988981 CA
64 CA
* ** **
49988983 AAGTTATTTAATTGTGCCAACACTTATTGATGTATTTGGCACCTAGTGCCTCATCGG
1 AAGTTATTCAATTGACCCAACACTTATCAATGTATTTGGCACCTAGTGCCTCATCGG
49989040 GTAAACCGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
65 33 0.69
66 15 0.31
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (65 bp):
AAGTTATTCAATTGACCCAACACTTATCAATGTATTTGGCACCTAGTGCCTCATCGGATATATCA
Found at i:49988987 original size:95 final size:95
Alignment explanation
Indices: 49988814--49988990 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
49988804 GCATCATCGG
*
49988814 ATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
49988879 GATAAACTGAAGTTATTGGTGCCTCATTGA
66 GATAAACTAAAGTTATTGGTGCCTCATTGA
* ** * **
49988909 ATAAACTGAAGTTATTCAATTGCACCCAACGTTCATCAATGTATTTGGCACCTAGTTTCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
49988974 GATATA-TCAAAGTTATT
66 GATAAACT-AAAGTTATT
49988991 TAATTGTGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (95 bp):
ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
GATAAACTAAAGTTATTGGTGCCTCATTGA
Found at i:49990767 original size:2 final size:2
Alignment explanation
Indices: 49990760--49990787 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49990750 ATTAATAATA
49990760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49990788 TTCTTTCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49991815 original size:6 final size:6
Alignment explanation
Indices: 49991806--49991834 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49991796 AAATAAAATT
49991806 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
49991835 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:49991888 original size:9 final size:9
Alignment explanation
Indices: 49991869--49991949 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 9
49991859 ATTATGTAGT
49991869 GATTCAATTC
1 GATT-AATTC
49991879 GATTAATTC
1 GATTAATTC
*
49991888 GAGTAATTC
1 GATTAATTC
*
49991897 GGTTAATTC
1 GATTAATTC
** **
49991906 GGGTAACCC
1 GATTAATTC
*
49991915 GGTTAATTC
1 GATTAATTC
49991924 -AGTTAATTC
1 GA-TTAATTC
**
49991933 GGGTAATTC
1 GATTAATTC
49991942 GATTAATT
1 GATTAATT
49991950 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
9 51 0.93
10 4 0.07
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (9 bp):
GATTAATTC
Found at i:49991897 original size:18 final size:18
Alignment explanation
Indices: 49991874--49991949 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
49991864 GTAGTGATTC
*
49991874 AATTCGATTAATTCGAGT
1 AATTCGGTTAATTCGAGT
*
49991892 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGAGT
**
49991910 AACCCGGTTAATTC-AGTT
1 AATTCGGTTAATTCGAG-T
* *
49991928 AATTCGGGTAATTCGATT
1 AATTCGGTTAATTCGAGT
49991946 AATT
1 AATT
49991950 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.02
18 45 0.96
19 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (18 bp):
AATTCGGTTAATTCGAGT
Found at i:49991947 original size:27 final size:27
Alignment explanation
Indices: 49991882--49991949 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
49991872 TCAATTCGAT
* *
49991882 TAATTCGAGTAATTCGGTTAATTCGGG
1 TAATTCGATTAATTCAGTTAATTCGGG
** *
49991909 TAACCCGGTTAATTCAGTTAATTCGGG
1 TAATTCGATTAATTCAGTTAATTCGGG
49991936 TAATTCGATTAATT
1 TAATTCGATTAATT
49991950 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (27 bp):
TAATTCGATTAATTCAGTTAATTCGGG
Found at i:49992749 original size:7 final size:7
Alignment explanation
Indices: 49992737--49992762 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49992727 GCAAAGGCGC
49992737 AGTAGAA
1 AGTAGAA
49992744 AGTAGAA
1 AGTAGAA
49992751 AGTAGAA
1 AGTAGAA
49992758 AGTAG
1 AGTAG
49992763 GGTTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTAGAA
Found at i:49992814 original size:2 final size:2
Alignment explanation
Indices: 49992807--49992837 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49992797 GATAAAAGCA
49992807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49992838 AAGTGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49993198 original size:16 final size:16
Alignment explanation
Indices: 49993185--49993230 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
49993175 ACTGTAATAG
* *
49993185 AATAGAGTTGTAATGT
1 AATAGAGATGTAATGA
49993201 AATAGAGATGTAATGA
1 AATAGAGATGTAATGA
*
49993217 AATAGAGCTGTAAT
1 AATAGAGATGTAAT
49993231 AATATTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.30
Consensus pattern (16 bp):
AATAGAGATGTAATGA
Found at i:49993394 original size:37 final size:35
Alignment explanation
Indices: 49993352--49993437 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 35
49993342 TTGTTATTCA
* *
49993352 ATTTTAATAGGATTATTATTAAAAATAATTTAATTAT
1 ATTTTAATA--ATAATTATTAAAAATAATTTAATAAT
*
49993389 ATTTTAAT-ATAATTATTAAATATAATTTAATAAT
1 ATTTTAATAATAATTATTAAAAATAATTTAATAAT
49993423 ATTTTTAAT-ATAATT
1 A-TTTTAATAATAATT
49993438 TTTATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 24 0.53
35 13 0.29
37 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (35 bp):
ATTTTAATAATAATTATTAAAAATAATTTAATAAT
Found at i:49993404 original size:34 final size:35
Alignment explanation
Indices: 49993366--49993437 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
49993356 TAATAGGATT
*
49993366 ATTATTAAAAATAATTTAATTATA-TTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
*
49993400 ATTATTAAATATAATTTAATAATATTTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
49993435 ATT
1 ATT
49993438 TTTATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.63
35 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTATTAAAAATAATTTAATAATATTTTTAATATA
Found at i:49993412 original size:13 final size:12
Alignment explanation
Indices: 49993370--49993439 Score: 53
Period size: 11 Copynumber: 6.2 Consensus size: 12
49993360 AGGATTATTA
*
49993370 TTAAAAATAA-T
1 TTAAATATAATT
*
49993381 TTAATTAT-ATT
1 TTAAATATAATT
49993392 TT-AATATAATT
1 TTAAATATAATT
49993403 ATTAAATATAA-T
1 -TTAAATATAATT
49993415 TT-AATA-ATATT
1 TTAAATATA-ATT
*
49993426 TTTAATATAATT
1 TTAAATATAATT
49993438 TT
1 TT
49993440 TATATTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
9 1 0.02
10 10 0.21
11 17 0.35
12 12 0.25
13 8 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATATAATT
Found at i:49993430 original size:23 final size:23
Alignment explanation
Indices: 49993380--49993438 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
49993370 TTAAAAATAA
* *
49993380 TTTAATTATATTTTAATATAATT
1 TTTAAATATAATTTAATATAATT
*
49993403 ATTAAATATAATTTAATA-ATATT
1 TTTAAATATAATTTAATATA-ATT
49993426 TTT-AATATAATTT
1 TTTAAATATAATTT
49993439 TTATATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATATAATTTAATATAATT
Found at i:49993444 original size:11 final size:12
Alignment explanation
Indices: 49993390--49993441 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
49993380 TTTAATTATA
49993390 TTTTAATATAAT
1 TTTTAATATAAT
*
49993402 TATTAAATATAA-
1 T-TTTAATATAAT
49993414 -TTTAATA-ATAT
1 TTTTAATATA-AT
49993425 TTTTAATATAAT
1 TTTTAATATAAT
49993437 TTTTA
1 TTTTA
49993442 TATTAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
12 15 0.45
13 10 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAATATAAT
Found at i:49996280 original size:18 final size:19
Alignment explanation
Indices: 49996257--49996292 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49996247 AGGAAAACTA
49996257 TTTTA-TCTTTTTAATTTC
1 TTTTATTCTTTTTAATTTC
*
49996275 TTTTATTCTTTTTCATTT
1 TTTTATTCTTTTTAATTT
49996293 TTTAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTCTTTTTAATTTC
Found at i:49996589 original size:31 final size:31
Alignment explanation
Indices: 49996551--49996619 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
49996541 TATGAGGAAC
49996551 AAACTTAGGGTTTCATCTCAACAATATGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
*
49996582 AAACTTAGGGTTTCATCTCAACAATCTGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
49996613 AAACTTA
1 AAACTTA
49996620 AGGCTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (31 bp):
AAACTTAGGGTTTCATCTCAACAATATGTAA
Found at i:49998164 original size:23 final size:21
Alignment explanation
Indices: 49998124--49998166 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
49998114 AGAAGTAGAA
*
49998124 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
49998145 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
49998167 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:50003106 original size:23 final size:21
Alignment explanation
Indices: 50003066--50003108 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
50003056 AGAAGTAGAA
*
50003066 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
50003087 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
50003109 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:50011800 original size:13 final size:13
Alignment explanation
Indices: 50011761--50011800 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
50011751 AGTTTGGCAT
*
50011761 TGCTTTTGAAAAT
1 TGCTTTTGAAAAG
*
50011774 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
50011787 TGCTCTTGAAAAG
1 TGCTTTTGAAAAG
50011800 T
1 T
50011801 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:50013442 original size:26 final size:27
Alignment explanation
Indices: 50013386--50013440 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
50013376 TTTCCTTTGC
50013386 AAGAAATCTTTTCTTAATTCTTTTAAA
1 AAGAAATCTTTTCTTAATTCTTTTAAA
*
50013413 AAGAAATTTTTTCTTAATTCTTTTAAA
1 AAGAAATCTTTTCTTAATTCTTTTAAA
50013440 A
1 A
50013441 GAGTTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (27 bp):
AAGAAATCTTTTCTTAATTCTTTTAAA
Found at i:50014033 original size:12 final size:12
Alignment explanation
Indices: 50014005--50014039 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
50013995 TTATTATATA
*
50014005 TCAAATAGTACTT
1 TCAAAT-GTAATT
50014018 TCAAATGTAATT
1 TCAAATGTAATT
50014030 TCAAATGTAA
1 TCAAATGTAA
50014040 GATATTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (12 bp):
TCAAATGTAATT
Found at i:50014206 original size:121 final size:122
Alignment explanation
Indices: 50014073--50014320 Score: 471
Period size: 123 Copynumber: 2.0 Consensus size: 122
50014063 CACGAGAGTT
50014073 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATA-TATATAAATGTATAT
1 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTATATAAATGTATAT
50014137 ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
66 ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
50014194 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTTATATAAATGTATA
1 AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATA-TTATATAAATGTATA
*
50014259 TATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAGCATTACATCAAGTTTTTG
65 TATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
50014317 AAGT
1 AAGT
50014321 AAATAAGCAA
Statistics
Matches: 124, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
121 49 0.40
123 75 0.60
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (122 bp):
AAGTGGTTAATAGGTCAAGATAAAACAAGTTGTAGGGATAATTATTATATTATATAAATGTATAT
ATTTATAAAGTCGTAAGGAATGAGCATGGACAAAAGCAACATTACATCAAGTTTTTG
Found at i:50016213 original size:8 final size:8
Alignment explanation
Indices: 50016200--50016238 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
50016190 TAATTATTTT
50016200 TTAAAAAA
1 TTAAAAAA
50016208 TTAAAAAA
1 TTAAAAAA
50016216 TTTAAAAAA
1 -TTAAAAAA
50016225 TATATAAAAA
1 T-TA-AAAAA
50016235 TTAA
1 TTAA
50016239 TTATTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 10 0.36
9 12 0.43
10 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAA
Found at i:50016238 original size:18 final size:17
Alignment explanation
Indices: 50016199--50016236 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
50016189 TTAATTATTT
50016199 TTTAAAAAATTAAAAAA
1 TTTAAAAAATTAAAAAA
50016216 TTTAAAAAATATATAAAAA
1 TTTAAAAAAT-TA-AAAAA
50016235 TT
1 TT
50016237 AATTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAATTAAAAAA
Found at i:50016754 original size:21 final size:20
Alignment explanation
Indices: 50016716--50016754 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50016706 TATTTGAGAA
* *
50016716 TATTTTCAATTATTTTATTT
1 TATTTTAAATTATATTATTT
50016736 TATTTTAATATTATATTAT
1 TATTTTAA-ATTATATTAT
50016755 CCTCTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTAAATTATATTATTT
Found at i:50018170 original size:9 final size:9
Alignment explanation
Indices: 50018156--50018192 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50018146 TATAGTTTGA
50018156 TATTCGAAT
1 TATTCGAAT
50018165 TATTCGAAT
1 TATTCGAAT
*
50018174 TATTCGAGT
1 TATTCGAAT
50018183 TATTCGAAT
1 TATTCGAAT
50018192 T
1 T
50018193 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50022910 original size:23 final size:23
Alignment explanation
Indices: 50022884--50022934 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
50022874 AAATTCGAAT
* *
50022884 TTCGAGTTAAATGAATCGAGTTA
1 TTCGAGTTAAACGAATCAAGTTA
50022907 TTCGAGTTAAACGAATCAAGTTA
1 TTCGAGTTAAACGAATCAAGTTA
50022930 TTCGA
1 TTCGA
50022935 ATCAACTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (23 bp):
TTCGAGTTAAACGAATCAAGTTA
Found at i:50023004 original size:9 final size:9
Alignment explanation
Indices: 50022987--50023032 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
50022977 TGAGTTTTCG
50022987 AATTCGAAT
1 AATTCGAAT
*
50022996 AACTCGAAT
1 AATTCGAAT
50023005 AATTCGAAT
1 AATTCGAAT
50023014 AATTCGAAT
1 AATTCGAAT
50023023 AATTCGAAT
1 AATTCGAAT
50023032 A
1 A
50023033 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50024162 original size:5 final size:5
Alignment explanation
Indices: 50024152--50024177 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50024142 CTCGAAAATT
50024152 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
50024178 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:50030183 original size:32 final size:32
Alignment explanation
Indices: 50030144--50030345 Score: 133
Period size: 32 Copynumber: 6.6 Consensus size: 32
50030134 TTGAAATTTT
* *
50030144 AGTTTGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
50030177 A-TTTGTTAGATATTG-----ATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * *
50030203 AGCTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * * *
50030235 AGCTCGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
50030268 A-TTTGTTAGATATTG-----ATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * ** *
50030294 AGCTTGCTAGATATTGATTTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
*
50030326 AGCTTGTT-GCATATTGAAAT
1 AGTTTGTTAG-ATATTGAAAT
50030346 GATTGACAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
26 8 0.06
27 39 0.29
31 1 0.01
32 83 0.61
33 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
AGTTTGTTAGATATTGAAATTATTATGTTTGA
Found at i:50030251 original size:91 final size:91
Alignment explanation
Indices: 50030149--50030345 Score: 349
Period size: 91 Copynumber: 2.2 Consensus size: 91
50030139 ATTTTAGTTT
*
50030149 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
1 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
50030214 TATTGAATTTATTATGTTTTAAGCTC
66 TATTGAATTTATTATGTTTTAAGCTC
50030240 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
1 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
* *
50030305 TATTGATTTTATTATGTTTTAAGCTT
66 TATTGAATTTATTATGTTTTAAGCTC
* *
50030331 GTTGCATATTGAAAT
1 GTTGGATTTTGAAAT
50030346 GATTGACAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 101 1.00
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (91 bp):
GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGA
TATTGAATTTATTATGTTTTAAGCTC
Found at i:50030333 original size:59 final size:59
Alignment explanation
Indices: 50030192--50030342 Score: 153
Period size: 59 Copynumber: 2.5 Consensus size: 59
50030182 TTAGATATTG
* * *
50030192 ATTATGTTTTAAGCTTGTTAGATATTGAATTTATTATGTTTTAAGCTCGTTGGATTTTGAAATT
1 ATTATGTTTTAAGCTTGTTAGATATTG-----ATTATGTTTTAAGCTCGCTAGATATTGAAATT
* * * **
50030256 ATTATGTATTGAA-TTTGTTAGATATTGATTATGTTTTAAGCTTGCTAGATATTGATTTT
1 ATTATGT-TTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGCTAGATATTGAAATT
50030315 ATTATGTTTTAAGCTTGTT-GCATATTGA
1 ATTATGTTTTAAGCTTGTTAG-ATATTGA
50030343 AATGATTGAC
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
58 5 0.07
59 45 0.61
64 20 0.27
65 4 0.05
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (59 bp):
ATTATGTTTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGCTAGATATTGAAATT
Found at i:50032622 original size:44 final size:43
Alignment explanation
Indices: 50032573--50032679 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
50032563 TAACTACCCG
*
50032573 CATTTTTAGGCTAGTTTTTAGGGATTTTTTTTCTTAGCCATCCA
1 CATTTTTAGGCTAGATTTTAGGGA-TTTTTTTCTTAGCCATCCA
* * * * *
50032617 TATTTTTAAGTTA-CTTTTAGGGATTTTTTTCTTAGTCATCCA
1 CATTTTTAGGCTAGATTTTAGGGATTTTTTTCTTAGCCATCCA
50032659 CATTTTCTAGGCTAGATTTTA
1 CATTTT-TAGGCTAGATTTTA
50032680 AGGAATTGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 23 0.44
43 14 0.27
44 15 0.29
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (43 bp):
CATTTTTAGGCTAGATTTTAGGGATTTTTTTCTTAGCCATCCA
Found at i:50034760 original size:8 final size:9
Alignment explanation
Indices: 50034741--50034774 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
50034731 TATTTTTTTT
50034741 AAAATTTAA
1 AAAATTTAA
50034750 AAAATTTAA
1 AAAATTTAA
*
50034759 AAAATATATA
1 AAAATTTA-A
50034769 AAAATT
1 AAAATT
50034775 AATTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTTAA
Found at i:50037084 original size:12 final size:13
Alignment explanation
Indices: 50037047--50037087 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 13
50037037 ATTTTTTTAA
50037047 TTTTAAAATAC--
1 TTTTAAAATACTT
50037058 TTTTAAAATACTT
1 TTTTAAAATACTT
50037071 TTTTAAAAT--TT
1 TTTTAAAATACTT
50037082 TTTTAA
1 TTTTAA
50037088 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.68
13 9 0.32
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATACTT
Found at i:50037088 original size:41 final size:38
Alignment explanation
Indices: 50037037--50037114 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 38
50037027 TTATTTTTTT
50037037 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAA
1 ATTTTTTTAATTTT-AAATACTTTTAAAAT--TTTTTTAAA
*
50037078 ATTTTTTTAATTTTAAATATTTTTAAAATTTTTTTAA
1 ATTTTTTTAATTTTAAATACTTTTAAAATTTTTTTAA
50037115 TTATAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 8 0.22
40 14 0.39
41 14 0.39
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (38 bp):
ATTTTTTTAATTTTAAATACTTTTAAAATTTTTTTAAA
Found at i:50037100 original size:16 final size:17
Alignment explanation
Indices: 50037071--50037103 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50037061 TAAAATACTT
*
50037071 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
50037088 TTTT-AAATATTTTTAA
1 TTTTAAAATATTTTTAA
50037104 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:50037110 original size:28 final size:27
Alignment explanation
Indices: 50037070--50037148 Score: 122
Period size: 27 Copynumber: 2.8 Consensus size: 27
50037060 TTAAAATACT
50037070 TTTTTAAAATTTTTTTAATTTTAAATA
1 TTTTTAAAATTTTTTTAATTTTAAATA
*
50037097 TTTTTAAAATTTTTTTAATTATAAAATA
1 TTTTTAAAATTTTTTTAATT-TTAAATA
50037125 TTTTTAAAATACTTTTTTAATTTT
1 TTTTTAAAAT--TTTTTTAATTTT
50037149 TGTTTTAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
27 20 0.43
28 16 0.34
29 1 0.02
30 10 0.21
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTTAAAATTTTTTTAATTTTAAATA
Found at i:50037132 original size:11 final size:11
Alignment explanation
Indices: 50037047--50037141 Score: 50
Period size: 11 Copynumber: 9.4 Consensus size: 11
50037037 ATTTTTTTAA
*
50037047 TTTTAAAATAC
1 TTTTAAAATAT
50037058 TTTTAAAATACTT
1 TTTTAAAATA--T
50037071 TTTTAAAAT-T
1 TTTTAAAATAT
*
50037081 TTTT----TAA
1 TTTTAAAATAT
50037088 TTTT-AAATAT
1 TTTTAAAATAT
50037098 TTTTAAAAT-T
1 TTTTAAAATAT
*
50037108 TTTT----TAA
1 TTTTAAAATAT
*
50037115 TTATAAAATAT
1 TTTTAAAATAT
50037126 TTTTAAAATACT
1 TTTTAAAATA-T
50037138 TTTT
1 TTTT
50037142 TAATTTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 25
0.67 0.07 0.26
Matches are distributed among these distances:
6 2 0.03
7 7 0.11
10 16 0.25
11 25 0.39
12 5 0.08
13 9 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50043360 original size:17 final size:17
Alignment explanation
Indices: 50043338--50043370 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50043328 CTATTGATTT
50043338 TATTTAAAAAAAATTCA
1 TATTTAAAAAAAATTCA
*
50043355 TATTTAAAAGAAATTC
1 TATTTAAAAAAAATTC
50043371 TCTCTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
TATTTAAAAAAAATTCA
Found at i:50044704 original size:67 final size:68
Alignment explanation
Indices: 50044550--50044710 Score: 191
Period size: 68 Copynumber: 2.4 Consensus size: 68
50044540 CCGTGAAGGG
* * * * *** * *
50044550 TACCATTAGGAGTAGTACCGTGGATGGTAATGCAAATGGGTACCTTTAGGAGTTGTGTCGTGGAT
1 TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
50044615 AGA
66 AGA
* *
50044618 TACCATTAGGAGTTGTACCATGGGTGGT-ATCACAAATAGGTACCTTTTGGAGCCATATCGTAGA
1 TACCATTAGGAGTTGTACCATGGATGGTAAT-ACAAATAGGTACCTTTAGGAGCCATATCGTAGA
*
50044682 T-GC
65 TAGA
50044685 TACCATTAGGAGTTGTACCATGGATG
1 TACCATTAGGAGTTGTACCATGGATG
50044711 CTACCATGGA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
67 28 0.35
68 51 0.65
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (68 bp):
TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
AGA
Found at i:50044729 original size:40 final size:40
Alignment explanation
Indices: 50044685--50044796 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
50044675 TCGTAGATGC
* *
50044685 TACCATTAGGAGTTGTACCATGGATGCTACCATGGAAG-GG
1 TACCATTAGGAGTTGTAACATGGATGGTACCATGG-AGCGG
* ** *
50044725 TACCATTAGGAATTGTAACATGGGCGGTACCGTGGAGCGG
1 TACCATTAGGAGTTGTAACATGGATGGTACCATGGAGCGG
* *
50044765 TACCATTAGGAGTCGTATCATGGATGGTACCA
1 TACCATTAGGAGTTGTAACATGGATGGTACCA
50044797 GTAGGAGTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (40 bp):
TACCATTAGGAGTTGTAACATGGATGGTACCATGGAGCGG
Found at i:50049655 original size:20 final size:20
Alignment explanation
Indices: 50049630--50049669 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50049620 TAACGTATAC
50049630 GTATATAAATGTAT-AGATAT
1 GTATATAAAT-TATAAGATAT
50049650 GTATATAAATTATAAGATAT
1 GTATATAAATTATAAGATAT
50049670 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATATAAATTATAAGATAT
Found at i:50051706 original size:44 final size:44
Alignment explanation
Indices: 50051203--50051717 Score: 233
Period size: 44 Copynumber: 11.8 Consensus size: 44
50051193 ACTTGATGCG
* * * *
50051203 ATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
* * * ** *
50051247 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTA
* * * * **
50051291 GTCTACTCCACTGTAACTTCAGGGAGATAAGATTGGCCA-TA-TTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--CTATTACTTTA
* * *
50051336 ATCTGC-CTCACTGTAACTTCAGTCGG-GATAAGACCTGCTTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAG--GGAGATAAGATCT-ATTACTTTA
* * * * * * *
50051381 GTCTGCTCCACTGTAAATTCAGGGAGATAAGA-C-CTGA-TGTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
** * *
50051422 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
*** * **
50051466 ATCCT-CTCCACTATGACTTCAGGGAGATAGGAT-TATCGGCTTTA
1 AT-CTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTTA
* * **
50051510 ATCTGCTCCACT-CTAACTTCAGGGAGATAAGAT-TGGTCATCTTCG
1 ATCTGCTCCACTGC-AACTTCAGGGAGATAAGATCT-ATTA-CTTTA
* * *
50051555 ATCTGC-CTCAATGCAACTTCAGTCGG-GATAAGACCTTCTTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAG--GGAGATAAGATC-TATTACTTTA
* * * * * * *
50051600 GTCTGCTCCACTGTAACTTTAGGGAGATAAGA-C-CTGA-TGTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
** * *
50051641 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
*
50051685 ATCCT-CTCCACTACAACTTCAGGGAGATAAGAT
1 AT-CTGCTCCACTGCAACTTCAGGGAGATAAGAT
50051718 TTGCTTCTTC
Statistics
Matches: 347, Mismatches: 88, Indels: 72
0.68 0.17 0.14
Matches are distributed among these distances:
41 58 0.17
42 2 0.01
43 19 0.05
44 159 0.46
45 83 0.24
46 18 0.05
47 6 0.02
48 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTA
Found at i:50051760 original size:219 final size:219
Alignment explanation
Indices: 50051190--50051760 Score: 892
Period size: 219 Copynumber: 2.6 Consensus size: 219
50051180 TCTGGTCGGC
* * * * *
50051190 AAGACTTGATGCGATCTACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
*
50051255 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAGTCTACTCCACTGTAACTTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATA
* *
50051320 AGATTGGCCATATTCGATCTGCCTCACTGTAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
131 AGATTGGCCATATTCGATCTGCCTCAATGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
50051385 GCTCCACTGTAAATTCAGGGAGAT
196 GCTCCACTGTAAATTCAGGGAGAT
50051409 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
** * * *
50051474 CACTATGACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTCTAACTTCAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATA
* * *
50051539 AGATTGGTCATCTTCGATCTGCCTCAATGCAACTTCAGTCGGGATAAGACCTTCTTACTTAGTCT
131 AGATTGGCCATATTCGATCTGCCTCAATGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
* *
50051604 GCTCCACTGTAACTTTAGGGAGAT
196 GCTCCACTGTAAATTCAGGGAGAT
50051628 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
1 AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
* ** * * * * *
50051693 CACTACAACTTCAGGGAGATAAGATT-TGCTTCTTCAGTCTGCCCCACTGTGACCTCTGGGGGAT
66 CACTACAACTTCAGGGAGATAGGATTAT-CGGCTTCAGTCTGCTCCACTGTAACTTCAGGGAGAT
50051757 AAGA
130 AAGA
50051761 CTCGTGGCTT
Statistics
Matches: 320, Mismatches: 31, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
218 1 0.00
219 319 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (219 bp):
AAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAGTCTGCTCCACTGTAACTTCAGGGAGATA
AGATTGGCCATATTCGATCTGCCTCAATGCAACTTCAGTCGGGATAAGACCTGCTTACTTAGTCT
GCTCCACTGTAAATTCAGGGAGAT
Found at i:50051959 original size:43 final size:43
Alignment explanation
Indices: 50051895--50052062 Score: 230
Period size: 43 Copynumber: 3.9 Consensus size: 43
50051885 AGGACTTGTG
*
50051895 GCTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCC
* * *
50051938 GCTTAGATCTGTTTCCTTACT-CTTGGGAAAGATAAGATTCACC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAA-ATAAGATTCGCC
* * *
50051981 ACTTAGATCTGTTTCCCTACTGCTGGGGAAGATAAGATTCGCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCC
* * *
50052024 GCTTAGATTTGTTTCCCTACTCCTAGGGAAGATAAGATT
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAAATAAGATT
50052063 TTCCGTATTC
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 8 0.07
43 95 0.86
44 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (43 bp):
GCTTAGATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCC
Found at i:50052056 original size:86 final size:86
Alignment explanation
Indices: 50051896--50052062 Score: 264
Period size: 86 Copynumber: 1.9 Consensus size: 86
50051886 GGACTTGTGG
*
50051896 CTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGCTTAGATCTGTTTCCTTACTCT
1 CTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCT
*
50051961 TGGGAAAGATAAGATTCACCA
66 AGGGAAAGATAAGATTCACCA
* * * *
50051982 CTTAGATCTGTTTCCCTACTGCTGGGGAAGATAAGATTCGCCGCTTAGATTTGTTTCCCTACTCC
1 CTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGCTTAGATCTGTTTCCCTACT-C
50052047 TAGGG-AAGATAAGATT
65 TAGGGAAAGATAAGATT
50052063 TTCCGTATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
86 69 0.93
87 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (86 bp):
CTTAAATCTGTTTCCCTACTCCTGGGGAAAATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCT
AGGGAAAGATAAGATTCACCA
Found at i:50053305 original size:7 final size:7
Alignment explanation
Indices: 50053286--50053337 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
50053276 TTAGCCTCTC
50053286 CATTTTT
1 CATTTTT
50053293 -ACTTTTT
1 CA-TTTTT
50053300 CATTTTT
1 CATTTTT
50053307 CATTTTGT
1 CATTTT-T
50053315 CA-TTTT
1 CATTTTT
50053321 CA-TTTT
1 CATTTTT
50053327 CA-TTTT
1 CATTTTT
50053333 CATTT
1 CATTT
50053338 CATTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 16 0.39
7 21 0.51
8 4 0.10
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:50053305 original size:14 final size:13
Alignment explanation
Indices: 50053286--50053344 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
50053276 TTAGCCTCTC
50053286 CATTTTTACTTTTT
1 CATTTTT-CTTTTT
50053300 CATTTTTCATTTTGT
1 CATTTTTC-TTTT-T
*
50053315 CA-TTTTCATTTT
1 CATTTTTCTTTTT
*
50053327 CA-TTTTC-ATTT
1 CATTTTTCTTTTT
50053338 CATTTTT
1 CATTTTT
50053345 TTTGCTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 5 0.12
12 12 0.30
13 4 0.10
14 16 0.40
15 3 0.08
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:50053340 original size:5 final size:6
Alignment explanation
Indices: 50053296--50053343 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
50053286 CATTTTTACT
50053296 TTTTCA TTTTTCA TTTTGTCA TTTTCA TTTTCA TTTTCA -TTTCA TTTT
1 TTTTCA -TTTTCA -TTT-TCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
50053344 TTTTGCTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.13
6 18 0.46
7 13 0.33
8 3 0.08
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:50053344 original size:12 final size:12
Alignment explanation
Indices: 50053296--50053343 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 12
50053286 CATTTTTACT
50053296 TTTTCATTTTTCA
1 TTTTCA-TTTTCA
50053309 TTTTGTCATTTTCA
1 -TTT-TCATTTTCA
50053323 TTTTCATTTTCA
1 TTTTCATTTTCA
50053335 -TTTCATTTT
1 TTTTCATTTT
50053344 TTTTGCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.27
12 9 0.27
13 3 0.09
14 9 0.27
15 3 0.09
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTCATTTTCA
Found at i:50054312 original size:18 final size:18
Alignment explanation
Indices: 50054277--50054319 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
50054267 TTTCTTTTTC
*
50054277 TCATTTTCATTTTCATTT
1 TCATTTTCATCTTCATTT
* *
50054295 TCATTTTGATCTTGATTT
1 TCATTTTCATCTTCATTT
*
50054313 TGATTTT
1 TCATTTT
50054320 TTCTTCTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (18 bp):
TCATTTTCATCTTCATTT
Found at i:50054319 original size:6 final size:6
Alignment explanation
Indices: 50054277--50054301 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50054267 TTTCTTTTTC
50054277 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
50054302 GATCTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:50054358 original size:6 final size:6
Alignment explanation
Indices: 50054349--50054404 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
50054339 CTTTTTTGTT
* *
50054349 TTTTGA TTTTGA TTTTTTGA TTTTTTGA TTTTCA TTTTGA CTTTGA TTTTGA
1 TTTTGA TTTTGA --TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
50054401 TTTT
1 TTTT
50054405 TCTTTTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 30 0.68
8 14 0.32
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:50054358 original size:8 final size:8
Alignment explanation
Indices: 50054340--50054380 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
50054330 TTCTTTCTTC
50054340 TTTTTTG-
1 TTTTTTGA
50054347 TTTTTTGA
1 TTTTTTGA
50054355 --TTTTGA
1 TTTTTTGA
50054361 TTTTTTGA
1 TTTTTTGA
50054369 TTTTTTGA
1 TTTTTTGA
50054377 TTTT
1 TTTT
50054381 CATTTTGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.19
7 7 0.23
8 18 0.58
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (8 bp):
TTTTTTGA
Found at i:50054372 original size:22 final size:21
Alignment explanation
Indices: 50054340--50054386 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
50054330 TTCTTTCTTC
*
50054340 TTTTTTGTTTTTTGATTTTGA
1 TTTTTTGTTTTTTGATTTTCA
50054361 TTTTTTGATTTTTTGATTTTCA
1 TTTTTTG-TTTTTTGATTTTCA
50054383 TTTT
1 TTTT
50054387 GACTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.77
Consensus pattern (21 bp):
TTTTTTGTTTTTTGATTTTCA
Found at i:50058435 original size:20 final size:20
Alignment explanation
Indices: 50058410--50058449 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50058400 TAACTTATAC
50058410 GTATATAAATGTAT-AGATAT
1 GTATATAAAT-TATAAGATAT
50058430 GTATATAAATTATAAGATAT
1 GTATATAAATTATAAGATAT
50058450 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATATAAATTATAAGATAT
Found at i:50063949 original size:13 final size:13
Alignment explanation
Indices: 50063931--50063970 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
50063921 TTTAGATTAA
50063931 AATATTATTATAT
1 AATATTATTATAT
50063944 AATATTATTATAT
1 AATATTATTATAT
* *
50063957 TACATTATTA-AT
1 AATATTATTATAT
50063969 AA
1 AA
50063971 AAAAATAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATAT
Found at i:50064052 original size:13 final size:13
Alignment explanation
Indices: 50064034--50064058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50064024 AACAGAGAAG
50064034 GAAAGAAAGAAAT
1 GAAAGAAAGAAAT
50064047 GAAAGAAAGAAA
1 GAAAGAAAGAAA
50064059 AGGGAAATTG
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:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
GAAAGAAAGAAAT
Found at i:50064972 original size:25 final size:25
Alignment explanation
Indices: 50064922--50064976 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50064912 CTTTAGCGCT
* ***
50064922 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTACTAGCACGACAGTG
50064947 CTCTCTGATTACTAGCACGACAGTG
1 CTCTCTGATTACTAGCACGACAGTG
50064972 CTCTC
1 CTCTC
50064977 CGTTTAGCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (25 bp):
CTCTCTGATTACTAGCACGACAGTG
Found at i:50065016 original size:22 final size:23
Alignment explanation
Indices: 50064968--50065024 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
50064958 CTAGCACGAC
*
50064968 AGTGCTCTCCGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCACATCT
*
50064991 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATCT
50065012 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
50065025 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.42
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATCT
Found at i:50066516 original size:27 final size:27
Alignment explanation
Indices: 50066486--50066627 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
50066476 TACCTTATGG
50066486 GGGTATTTCAGTAATTTTACCCTTCGA
1 GGGTATTTCAGTAATTTTACCCTTCGA
** *
50066513 GGGTATTTTGGTAA--TTACCCTTCGG
1 GGGTATTTCAGTAATTTTACCCTTCGA
* *
50066538 GGGTATTTCGGTAATTTTACCCTTTGA
1 GGGTATTTCAGTAATTTTACCCTTCGA
*
50066565 GGGTATTTC-GATAATTTTACCCTTCGG
1 GGGTATTTCAG-TAATTTTACCCTTCGA
* **
50066592 GGGTATTTCAGTTATTTTACTATTCGA
1 GGGTATTTCAGTAATTTTACCCTTCGA
50066619 GGGTATTTC
1 GGGTATTTC
50066628 GATTTTTTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.23
26 1 0.01
27 74 0.75
28 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCCTTCGA
Found at i:50066553 original size:52 final size:53
Alignment explanation
Indices: 50066484--50066630 Score: 215
Period size: 54 Copynumber: 2.8 Consensus size: 53
50066474 TTTACCTTAT
* *
50066484 GGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTTGGTAA-TTACCCTTC
1 GGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTACCCTTC
* *
50066536 GGGGGTATTTCGGTAATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTC
1 GGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAA-TTTACCCTTC
* **
50066590 GGGGGTATTTCAGTTATTTTACTATTCGAGGGTATTTCGAT
1 GGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGAT
50066631 TTTTTTATTA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
52 39 0.46
54 45 0.54
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (53 bp):
GGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTACCCTTC
Found at i:50070885 original size:27 final size:27
Alignment explanation
Indices: 50070855--50071008 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
50070845 TTTGCCCTAT
50070855 GAGGGTATTTCGATAATTTTACCCTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
*
50070882 GAGGGTATTTCGATAA--TTACCCTTT
1 GAGGGTATTTCGATAATTTTACCCTTC
* * *
50070907 GAGAGCATTTCGGTAATTTTACCCTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
* *
50070934 GAAGGTATTTCGATAATTTTACCTTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
* * * *
50070961 G-GGGTATTTTGGTCATTTTACCCATC
1 GAGGGTATTTCGATAATTTTACCCTTC
* *
50070987 GAGGGTATTTCAATTATTTTAC
1 GAGGGTATTTCGATAATTTTAC
50071009 AACCTTTTCG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
25 21 0.20
26 20 0.19
27 63 0.61
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
GAGGGTATTTCGATAATTTTACCCTTC
Found at i:50070994 original size:53 final size:53
Alignment explanation
Indices: 50070861--50071008 Score: 176
Period size: 53 Copynumber: 2.8 Consensus size: 53
50070851 CTATGAGGGT
*
50070861 ATTTCGATAATTTTACCCTTCGAGGGTATTTCGATAA--TTACCCTTTGAGAGC
1 ATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTA-CCTTTGAGAGC
* * *
50070913 ATTTCGGTAATTTTACCCTTCGAAGGTATTTCGATAATTTTACCTTTCG-GGGT
1 ATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCTTT-GAGAGC
* * * * *
50070966 ATTTTGGTCATTTTACCCATCGAGGGTATTTCAATTATTTTAC
1 ATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTAC
50071009 AACCTTTTCG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
52 35 0.42
53 44 0.53
54 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (53 bp):
ATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCTTTGAGAGC
Found at i:50079904 original size:18 final size:17
Alignment explanation
Indices: 50079876--50079910 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50079866 GACAAAGAAT
50079876 CAATAAATACAAATAAG
1 CAATAAATACAAATAAG
*
50079893 CAATACAATACACATAAG
1 CAATA-AATACAAATAAG
50079911 AGCAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (17 bp):
CAATAAATACAAATAAG
Found at i:50080318 original size:28 final size:24
Alignment explanation
Indices: 50080267--50080319 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 24
50080257 AATAGGGTCC
*
50080267 TAGAAAATAAATTATATATATGTA
1 TAGAAAATAAATGATATATATGTA
50080291 TAGATAAATAAAATGATATAATAATGTA
1 TAGA-AAAT-AAATGATAT-AT-ATGTA
50080319 T
1 T
50080320 TATATACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
26 8 0.33
27 2 0.08
28 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (24 bp):
TAGAAAATAAATGATATATATGTA
Found at i:50080544 original size:14 final size:14
Alignment explanation
Indices: 50080525--50080562 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
50080515 GTGATAATAA
*
50080525 TAATAATCATAAAT
1 TAATAATAATAAAT
*
50080539 TAATAATAATAGAT
1 TAATAATAATAAAT
50080553 TAATAATAAT
1 TAATAATAAT
50080563 GTTACTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:50080559 original size:17 final size:16
Alignment explanation
Indices: 50080519--50080562 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
50080509 ATAGCGGTGA
50080519 TAATAATAATAATCAT
1 TAATAATAATAATCAT
* *
50080535 AAATTAATAATAATAGAT
1 TAA-TAATAATAAT-CAT
50080553 TAATAATAAT
1 TAATAATAAT
50080563 GTTACTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.09
17 17 0.74
18 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
TAATAATAATAATCAT
Found at i:50081695 original size:14 final size:14
Alignment explanation
Indices: 50081678--50081709 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50081668 TTTAATAGCC
50081678 TTATTTTATTATTT
1 TTATTTTATTATTT
50081692 TTATTTTATTATTT
1 TTATTTTATTATTT
50081706 TTAT
1 TTAT
50081710 ATTTTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTTTATTATTT
Found at i:50098971 original size:19 final size:19
Alignment explanation
Indices: 50098947--50098983 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50098937 ATGATGTGTC
50098947 AATAATATAAAAAAATTGA
1 AATAATATAAAAAAATTGA
* *
50098966 AATAATATTAAATAATTG
1 AATAATATAAAAAAATTG
50098984 GTAAGGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATATAAAAAAATTGA
Found at i:50100377 original size:43 final size:43
Alignment explanation
Indices: 50100307--50100618 Score: 464
Period size: 43 Copynumber: 7.3 Consensus size: 43
50100297 TTATAAAAAT
* * *
50100307 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * *
50100350 AAATGCCACTAAAGCCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * *
50100393 AAATGCCGCTAAAGGCCATGTTCTTCAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
50100436 AAACGCCGCTAAAGGCCATGTTCTTTAGTGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
50100479 AAATGCCGCTAAAGGCCATGTTCTTCAGCGGCGCTTTTCCCGA-
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCC-AC
*
50100522 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
50100565 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
50100608 AAACGCCGCTA
1 AAACGCCGCTA
50100619 TTGTTTGGTG
Statistics
Matches: 242, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
42 1 0.00
43 240 0.99
44 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:50101323 original size:46 final size:46
Alignment explanation
Indices: 50101268--50101424 Score: 154
Period size: 46 Copynumber: 3.3 Consensus size: 46
50101258 CAATTGTGTG
* *
50101268 AGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTAAATTATATA
* * * * *
50101314 AGTTATTAAGTTA-TATGGTATGACATATATATACGTATTATGTAAATTATGTG
1 AGTTATTAAGTTATTAAGTTATG---TA-A-GT---TATTATGTAAATTATATA
* *
50101367 AGTTGTTAAGTTGTTAAGTTATGTAAGTTATTATGTAAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTAAATTATATA
50101413 AGTTATTAAGTT
1 AGTTATTAAGTT
50101425 GGACCAAATT
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
45 7 0.08
46 39 0.45
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
53 26 0.30
54 7 0.08
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTAAATTATATA
Found at i:50101329 original size:17 final size:17
Alignment explanation
Indices: 50101274--50101329 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
50101264 TGTGAGTTGT
*
50101274 TAAGTTATTAAGTTATG
1 TAAGTTATTAAGTTATA
*
50101291 TAAGTTATTATGTGAATTATA
1 TAAGTTATTA----AGTTATA
50101312 TAAGTTATTAAGTTATA
1 TAAGTTATTAAGTTATA
50101329 T
1 T
50101330 GGTATGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TAAGTTATTAAGTTATA
Found at i:50101409 original size:21 final size:21
Alignment explanation
Indices: 50101349--50101420 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
50101339 TATATATACG
*
50101349 TATTATGTAAATTATGTGAGT
1 TATTATGTAAATTATGTAAGT
* *
50101370 TGTTAAGTTGTTAAGTTATGTAAGT
1 TATT-A--TG-TAAATTATGTAAGT
*
50101395 TATTATGTAAATTATATAAGT
1 TATTATGTAAATTATGTAAGT
50101416 TATTA
1 TATTA
50101421 AGTTGGACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
21 20 0.49
22 3 0.07
24 3 0.07
25 15 0.37
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.49
Consensus pattern (21 bp):
TATTATGTAAATTATGTAAGT
Found at i:50104229 original size:199 final size:199
Alignment explanation
Indices: 50103889--50104490 Score: 864
Period size: 199 Copynumber: 3.0 Consensus size: 199
50103879 CATTGCGGCT
* * * *
50103889 TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTGCGAAAACTGAGAAAAAAAA
1 TTTTTTAGTAGCACCACTAATGCCCAGGCAAAACGACACCGTTTTGCGAAAACTGAGAACAGAAC
* * * *
50103954 TTTATGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCTGCGTTTTTACCTTAGCGCCT
66 TTTACGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTCCCTTAGCGCCA
* *
50104019 CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCATTTTTTCTTCATTATTAAGAATATTTTAT
131 CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCATTTTGTCTTCATTATTAAGAATATTTTGT
*
50104084 AGCG
196 GGCG
** * *
50104088 TTTTTTAGTAGTTCCACTAATGCCCAGGCAAAACGACATCGTTTTACGAAAACTGAGAACAGAAC
1 TTTTTTAGTAGCACCACTAATGCCCAGGCAAAACGACACCGTTTTGCGAAAACTGAGAACAGAAC
* *
50104153 TTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTCCCTTAGCGCCG
66 TTTACGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTCCCTTAGCGCCA
50104218 CAAAACCCATTAAATTCGCAGCCAAAAACTGCA-CAGTTTTGTCTTCATTATTAAGAATATTTTG
131 CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCA-TTTTGTCTTCATTATTAAGAATATTTTG
* *
50104282 CGGTG
195 TGGCG
* * * * *
50104287 TTTTTTAGTAGCACCACTAATGCCCAGGAAAAATGACACCATTTTGCAAAAACTAAGAACAGAAC
1 TTTTTTAGTAGCACCACTAATGCCCAGGCAAAACGACACCGTTTTGCGAAAACTGAGAACAGAAC
* * * * * ** * *
50104352 CTTCCAGCGTTTTTTCCTTAGCACCGCTAATGACTACCCTTAGCGGCATTTTTCCCTTAACGCCA
66 TTTACGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTCCCTTAGCGCCA
* * *
50104417 CAAAACCCATTAAATTCACAGCCCAAAACTGCACCGTTTTGTCTTCATTATTAAGAATATTTTGT
131 CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCATTTTGTCTTCATTATTAAGAATATTTTGT
50104482 GGCG
196 GGCG
50104486 TTTTT
1 TTTTT
50104491 GTTCAAAACG
Statistics
Matches: 360, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
198 2 0.01
199 357 0.99
200 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (199 bp):
TTTTTTAGTAGCACCACTAATGCCCAGGCAAAACGACACCGTTTTGCGAAAACTGAGAACAGAAC
TTTACGGCGTTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTCCCTTAGCGCCA
CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCATTTTGTCTTCATTATTAAGAATATTTTGT
GGCG
Found at i:50104675 original size:48 final size:48
Alignment explanation
Indices: 50104599--50104706 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
50104589 TTTTAATGCA
* * **
50104599 TAGTTTTGTTTAGGTAATATTTATAAAAATTAGATAAAATTATCAATTT
1 TAGTTTT-TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAATTT
* *
50104648 TAGTTTTTTTAAGTAGTATTTATAAAAATTAGGTAAAAATAAAAATTT
1 TAGTTTTTTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAATTT
*
50104696 TAGTGTTTTTA
1 TAGTTTTTTTA
50104707 TTTCTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 45 0.87
49 7 0.13
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (48 bp):
TAGTTTTTTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAATTT
Found at i:50104735 original size:19 final size:20
Alignment explanation
Indices: 50104691--50104741 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
50104681 TAAAAATAAA
*
50104691 AATTTTAGTGTTTTTATTTCT
1 AATTTTA-TTTTTTTATTTCT
*
50104712 -TTTTTATTTTTTTATTT-T
1 AATTTTATTTTTTTATTTCT
50104730 AATTTTATTTTT
1 AATTTTATTTTT
50104742 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 20 0.77
20 5 0.19
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (20 bp):
AATTTTATTTTTTTATTTCT
Found at i:50104758 original size:8 final size:8
Alignment explanation
Indices: 50104745--50104780 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
50104735 TATTTTTATA
50104745 AATTTTAC
1 AATTTTAC
50104753 AATTTTAC
1 AATTTTAC
50104761 AATTTTTAC
1 AA-TTTTAC
50104770 AATTTTA-
1 AATTTTAC
50104777 AATT
1 AATT
50104781 ATTATATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.15
8 15 0.56
9 8 0.30
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTTAC
Found at i:50104758 original size:17 final size:17
Alignment explanation
Indices: 50104738--50104776 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50104728 TTAATTTTAT
*
50104738 TTTTATAAATTTTACAA
1 TTTTACAAATTTTACAA
*
50104755 TTTTACAATTTTTACAA
1 TTTTACAAATTTTACAA
50104772 TTTTA
1 TTTTA
50104777 AATTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTACAAATTTTACAA
Found at i:50104767 original size:9 final size:9
Alignment explanation
Indices: 50104736--50104775 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
50104726 TTTTAATTTT
*
50104736 ATTTTTATA
1 ATTTTTACA
*
50104745 AATTTTACA
1 ATTTTTACA
50104754 A-TTTTACA
1 ATTTTTACA
50104762 ATTTTTACA
1 ATTTTTACA
50104771 ATTTT
1 ATTTT
50104776 AAATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTTACA
Found at i:50104794 original size:21 final size:20
Alignment explanation
Indices: 50104769--50104823 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
50104759 ACAATTTTTA
50104769 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTCATA-T
*
50104789 CAAATTATTATA-TATTGCATAT
1 C-AATT-TTAAATTATT-CATAT
50104811 CAATTTTAAATTA
1 CAATTTTAAATTA
50104824 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTCATAT
Found at i:50104965 original size:82 final size:83
Alignment explanation
Indices: 50104872--50105059 Score: 254
Period size: 82 Copynumber: 2.3 Consensus size: 83
50104862 TATAAATAAC
* * * **
50104872 TTATTTAATATATAAATTAAAAAGT-ACTAATTAATCCAAATCTTAAACCCTA-ACCTGACCCCA
1 TTATTTAATATATAAATTAAAAA-TCACTAATTAATCCAAACCATAAACCCGACACCAAACCCCA
*
50104935 AATCCCTAACCCCTAAACT
65 AACCCCTAACCCCTAAACT
* * * *
50104954 TTATTTAATATATAAATTAAAAATCACTAATTAATCTAAACCATAAACCCGACCCCAAATCCCTA
1 TTATTTAATATATAAATTAAAAATCACTAATTAATCCAAACCATAAACCCGACACCAAACCCCAA
*
50105019 ACCCCTAACCCTTAAACT
66 ACCCCTAACCCCTAAACT
50105037 TTATTTAATATATAAATTAAAAA
1 TTATTTAATATATAAATTAAAAA
50105060 ATAGNNNNNN
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 46 0.49
83 46 0.49
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (83 bp):
TTATTTAATATATAAATTAAAAATCACTAATTAATCCAAACCATAAACCCGACACCAAACCCCAA
ACCCCTAACCCCTAAACT
Found at i:50106599 original size:114 final size:114
Alignment explanation
Indices: 50106394--50106948 Score: 842
Period size: 114 Copynumber: 4.9 Consensus size: 114
50106384 TAAATTATTT
* * *
50106394 TAAATCCCTGAGCATTAGCGGCGCTTACTTAAAAATGCCACTAAATCCCTGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
* * * *
50106459 GACGTCGTTGGGCTCAGGTATTTTTGCGGCACTTTCCCAAAAACGCTGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
50106508 GAAAGCCCTGAGCATTAGCAGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
50106573 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
50106622 TAAAGCCCGGAGCATTAGCGGCGCTTACTTAAAAATGCCAGTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
* *
50106687 GGCGTCGTTGAGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAATGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
50106736 TAAAGACCTGAGCATTAGCGGCGCTTACCTAAAAACCCCACTAAATCCCCAAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
50106801 GACGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCTCAAAAACACCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
50106850 TAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAT
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
*
50106915 GGCATCGTTGGGCTTAGGTA-TTTTGCGGCGCTTT
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTT
50106949 TTGGAAAACG
Statistics
Matches: 397, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
113 13 0.03
114 384 0.97
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:50107866 original size:23 final size:21
Alignment explanation
Indices: 50107807--50107866 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
50107797 CTCAAATCTA
*
50107807 TTAAT-TTGATTTAAATTTAT
1 TTAATATTGATTTAAAATTAT
* *
50107827 TTAGTAGTGCATTTAAAATTAT
1 TTAATATTG-ATTTAAAATTAT
50107849 TATAATATTGATTCTAAA
1 T-TAATATTGATT-TAAA
50107867 TTGTAGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.13
21 2 0.06
22 15 0.48
23 10 0.32
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (21 bp):
TTAATATTGATTTAAAATTAT
Found at i:50108298 original size:24 final size:24
Alignment explanation
Indices: 50108262--50108311 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
50108252 AATAGAAAAT
* *
50108262 AAAGAAGAAAAAA-AAAGAAAGTTA
1 AAAGAACAAAAAAGAAA-AAAATTA
*
50108286 AAAGAACATAAAAGAAAAAAATTA
1 AAAGAACAAAAAAGAAAAAAATTA
50108310 AA
1 AA
50108312 TTGCTCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (24 bp):
AAAGAACAAAAAAGAAAAAAATTA
Found at i:50111693 original size:43 final size:43
Alignment explanation
Indices: 50111632--50111717 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
50111622 CATGAAGGAG
*
50111632 TTACAATCCTATGAGTTGATGTTGAACGACGGTCAACCGATCC
1 TTACAATCCTATGAGTTGATGATGAACGACGGTCAACCGATCC
50111675 TTACAATCCTATGAGTTGATGATGAACGACGGTCAACCGATCC
1 TTACAATCCTATGAGTTGATGATGAACGACGGTCAACCGATCC
50111718 AAAAAGTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (43 bp):
TTACAATCCTATGAGTTGATGATGAACGACGGTCAACCGATCC
Done.