Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 233 of 284
Found at i:77632008 original size:48 final size:48
Alignment explanation
Indices: 77631964--77632189 Score: 242
Period size: 48 Copynumber: 4.7 Consensus size: 48
77631954 CTCATATCGG
* * *
77631964 TGACGATGCCATGCCCCCA-ACATGGACTTACACTTGCACACATATC-A
1 TGACGATGCCATG-TCCCAGACATGGTCTTACACTGGCACACATATCAA
* * *
77632011 TCACCGATGCCATGTCCCAGACATGGTCTTACACTGGGACAAATATCAA
1 TGA-CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
*
77632060 T-ACCAATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
1 TGA-CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* * * * * * *
77632108 CGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATCTCGGA
1 TGACGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AA
* * *
77632157 TGCCGACGCCATGTCCCAAACATGGTCTTACAC
1 TGACGATGCCATGTCCCAGACATGGTCTTACAC
77632190 GGGATCTCAT
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
47 6 0.04
48 115 0.75
49 32 0.21
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (48 bp):
TGACGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
Found at i:77632057 original size:96 final size:96
Alignment explanation
Indices: 77631969--77632143 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
77631959 ATCGGTGACG
* *
77631969 ATGCCATGCCCCCA-ACATGGACTTACACTTGCACACATATCATCACCGATGCCATGTCCCAGAC
1 ATGCCATG-CCCCAGACATGGACTTACACTGGCACACATATCAACACCGATGCCATGTCCCAGAC
*
77632033 ATGGTCTTACACTGGGACAAATATCAATACCA
65 ATGATCTTACACTGGGACAAATATCAATACCA
* * *
77632065 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACA
1 ATGCCATGCCCCAGACATGGACTTACACTGGCACACATATCAACACCGATGCCATGTCCCAGACA
77632130 TGATCTTACACTGG
66 TGATCTTACACTGG
77632144 CTCTCATCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
95 4 0.06
96 68 0.94
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (96 bp):
ATGCCATGCCCCAGACATGGACTTACACTGGCACACATATCAACACCGATGCCATGTCCCAGACA
TGATCTTACACTGGGACAAATATCAATACCA
Found at i:77632622 original size:3 final size:3
Alignment explanation
Indices: 77632614--77632651 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
77632604 ATGACATTAC
77632614 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
77632652 CACACGAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:77634722 original size:13 final size:13
Alignment explanation
Indices: 77634704--77634729 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77634694 CATAAGTATA
77634704 CCAAATTCATGAT
1 CCAAATTCATGAT
77634717 CCAAATTCATGAT
1 CCAAATTCATGAT
77634730 TGTTGGGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
CCAAATTCATGAT
Found at i:77634766 original size:19 final size:19
Alignment explanation
Indices: 77634742--77634780 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
77634732 TTGGGAAGAA
*
77634742 TGTCGTTCTGAAGGAGTTT
1 TGTCGTTATGAAGGAGTTT
77634761 TGTCGTTATGAAGGAGTTT
1 TGTCGTTATGAAGGAGTTT
77634780 T
1 T
77634781 TCAAAGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.31, T:0.44
Consensus pattern (19 bp):
TGTCGTTATGAAGGAGTTT
Found at i:77644023 original size:31 final size:31
Alignment explanation
Indices: 77643988--77644059 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
77643978 TGACTTTGGG
77643988 ACACGCCCGTGTAGGTAGGCCGTGTAGACAC
1 ACACGCCCGTGTAGGTAGGCCGTGTAGACAC
* * *
77644019 ACACGGCCGTGTAGGTAGGCTGTGTGGACAC
1 ACACGCCCGTGTAGGTAGGCCGTGTAGACAC
77644050 ACACGCCCGT
1 ACACGCCCGT
77644060 TTCCCTAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (31 bp):
ACACGCCCGTGTAGGTAGGCCGTGTAGACAC
Found at i:77656272 original size:40 final size:40
Alignment explanation
Indices: 77656227--77656374 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
77656217 ACTATTGAAC
77656227 GAATGCACATACGTGCCAC-TGTTTGTACTTTGGTACCCCT
1 GAATGCACATACGTGCC-CTTGTTTGTACTTTGGTACCCCT
* *
77656267 CAATGCACATACGTGCCCTTATTTGTACTTTGGTACCCCT
1 GAATGCACATACGTGCCCTTGTTTGTACTTTGGTACCCCT
*
77656307 GAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCT
1 GAATGCACATACGTGCCCTTGTTTGTACTTTGGTACCCCT
* * *
77656347 GAATGCACTTACATG-CCTTGTTTATACT
1 GAATGCACATACGTGCCCTTGTTTGTACT
77656375 CCAGTAACTC
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.13
40 86 0.87
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (40 bp):
GAATGCACATACGTGCCCTTGTTTGTACTTTGGTACCCCT
Found at i:77656653 original size:14 final size:14
Alignment explanation
Indices: 77656634--77656663 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77656624 GTAATAGGGA
*
77656634 TTTGGATGTTTATG
1 TTTGGAAGTTTATG
77656648 TTTGGAAGTTTATG
1 TTTGGAAGTTTATG
77656662 TT
1 TT
77656664 GATTTGATAA
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:0.17, C:0.00, G:0.27, T:0.57
Consensus pattern (14 bp):
TTTGGAAGTTTATG
Found at i:77658697 original size:18 final size:18
Alignment explanation
Indices: 77658663--77658697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77658653 ATCCGGTTCG
* *
77658663 TATTTTTATTTTTATTTC
1 TATTTTTATATTAATTTC
77658681 TATTTTTATATTAATTT
1 TATTTTTATATTAATTT
77658698 TGGATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTATATTAATTTC
Found at i:77661668 original size:2 final size:2
Alignment explanation
Indices: 77661663--77661692 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77661653 TTTTCCCGCC
77661663 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
77661693 GAGCTATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:77662427 original size:27 final size:30
Alignment explanation
Indices: 77662371--77662443 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 30
77662361 TTATACAAAT
*
77662371 AAAATAGTCCAAATGTTCATTATCAAAAAAA
1 AAAATAGTCCAAATGTTCAGTATC-AAAAAA
77662402 AAAATAGTCCAAATGTTC-GT-TC-AAAAA
1 AAAATAGTCCAAATGTTCAGTATCAAAAAA
77662429 AAAATAGTCCAAATG
1 AAAATAGTCCAAATG
77662444 AAATCATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 20 0.49
29 2 0.05
30 1 0.02
31 18 0.44
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.25
Consensus pattern (30 bp):
AAAATAGTCCAAATGTTCAGTATCAAAAAA
Found at i:77668391 original size:18 final size:18
Alignment explanation
Indices: 77668368--77668460 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
77668358 CCCAACTACT
*
77668368 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
77668386 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
* * *
77668404 ATATACGTAAATAGTATC
1 GTATACGTGAATAGTACC
**
77668422 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
77668440 GTATACGTGAATGGTACC
1 GTATACGTGAATAGTACC
77668458 GTA
1 GTA
77668461 AACGGTCATA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:77674535 original size:21 final size:22
Alignment explanation
Indices: 77674503--77674554 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
77674493 TTTTTACTAT
77674503 TTATT-TTAAATCATTATAT-TA
1 TTATTATT-AATCATTATATATA
* *
77674524 TTATTATTAATCTTTTTATATA
1 TTATTATTAATCATTATATATA
77674546 TT-TTATTAA
1 TTATTATTAA
77674555 AAGTTAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTATTAATCATTATATATA
Found at i:77683694 original size:24 final size:24
Alignment explanation
Indices: 77683649--77683694 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
77683639 TATTGAGCTG
* *
77683649 AAACAGTAAACTCTGACGAGCTAA
1 AAACAATAAACTCTGACAAGCTAA
* *
77683673 AAACAATAAGCTCTTACAAGCT
1 AAACAATAAACTCTGACAAGCT
77683695 GATATATCGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.20
Consensus pattern (24 bp):
AAACAATAAACTCTGACAAGCTAA
Found at i:77688038 original size:27 final size:26
Alignment explanation
Indices: 77687967--77688078 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
77687957 AGCATGGCTG
* *
77687967 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
77687993 -CAGATACAGATAATCGTGGTAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
77688020 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
77688047 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
77688075 CCAG
1 CCAG
77688079 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
25 4 0.06
26 10 0.14
27 36 0.50
28 22 0.31
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77689513 original size:24 final size:24
Alignment explanation
Indices: 77689486--77689556 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
77689476 CAAGATTTCC
**
77689486 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
77689510 TCCCTTATCAACTCCTAATTCCTA
1 TCCCTTATCAACTCCTAAATCCTA
77689534 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
77689557 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:77695916 original size:65 final size:65
Alignment explanation
Indices: 77695836--77695982 Score: 174
Period size: 65 Copynumber: 2.3 Consensus size: 65
77695826 TTGCGACTAC
*
77695836 CGCAGCTCTTTGTGAGCATCCTATTTAT-TGATC-GATTGTGAT-TCTGCATATGTTGCGGACAC
1 CGCAGCTCTTTGTGAGCATCCTA-TTATGTGATCGGATT-TGATCT-TGCATATGTTGCAGACAC
77695898 AAA
63 AAA
** * *
77695901 CGCAGCTCTTTGTGAGTGTGCTATTATGTGATCGGGTTTGATCTTGCATATGTTGCAGACACAAA
1 CGCAGCTCTTTGTGAGCATCCTATTATGTGATCGGATTTGATCTTGCATATGTTGCAGACACAAA
** *
77695966 TACAGCTCTTTATGAGC
1 CGCAGCTCTTTGTGAGC
77695983 GTCTTGATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
64 4 0.06
65 62 0.89
66 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (65 bp):
CGCAGCTCTTTGTGAGCATCCTATTATGTGATCGGATTTGATCTTGCATATGTTGCAGACACAAA
Found at i:77696088 original size:23 final size:24
Alignment explanation
Indices: 77696043--77696088 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
77696033 CCAGTTACAT
77696043 GGCTCTTTGTGAGCATTCCTGATA
1 GGCTCTTTGTGAGCATTCCTGATA
77696067 GGCTCTTTGTGAGC-TTCCTGAT
1 GGCTCTTTGTGAGCATTCCTGAT
77696089 TAAAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (24 bp):
GGCTCTTTGTGAGCATTCCTGATA
Found at i:77711635 original size:28 final size:29
Alignment explanation
Indices: 77711604--77711660 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
77711594 AAAGTGATTT
* *
77711604 TTGATAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
* *
77711632 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
77711661 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:77712290 original size:43 final size:43
Alignment explanation
Indices: 77712155--77712312 Score: 114
Period size: 43 Copynumber: 3.7 Consensus size: 43
77712145 AGATGAGATT
* * *
77712155 ACATGTAAGACCATGTCTGGGACATT-GCAT--TGTAT-TGCGTTT
1 ACATGTAAGACCAAGTCTGGGACATTGGCATCAT-TATAT--GATG
* *
77712197 ACATGTAAGACCATGTCTGGGACATTGGCATCATTATATGATT
1 ACATGTAAGACCAAGTCTGGGACATTGGCATCATTATATGATG
* * * * **
77712240 TCGTGTAAAACCAAGTTTGGGATGTTGGCATCGA-TATATGATG
1 ACATGTAAGACCAAGTCTGGGACATTGGCATC-ATTATATGATG
*
77712283 ACATGTAAGACCATA-TCTGGGATA-TGGCAT
1 ACATGTAAGACCA-AGTCTGGGACATTGGCAT
77712313 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 32 0.33
43 57 0.59
44 5 0.05
45 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ACATGTAAGACCAAGTCTGGGACATTGGCATCATTATATGATG
Found at i:77713767 original size:21 final size:22
Alignment explanation
Indices: 77713743--77713787 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
77713733 TTAATGTATG
77713743 TGAATGAATGAT-ATGTTATAT
1 TGAATGAATGATAATGTTATAT
**
77713764 TGAATGTTTGATAAATGTTATAT
1 TGAATGAATGAT-AATGTTATAT
77713787 T
1 T
77713788 TTTCGGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (22 bp):
TGAATGAATGATAATGTTATAT
Found at i:77718244 original size:173 final size:173
Alignment explanation
Indices: 77718033--77718378 Score: 620
Period size: 173 Copynumber: 2.0 Consensus size: 173
77718023 TTAAGTCCTA
*
77718033 GATTCATTGGGTCGTACGAGATTGTTGAGCGTATTGGGCTGGTTGCTTATAAATTTTTGTTGCCA
1 GATTCATTGGGTCGTACGAGATTGTTGAGCGTATTGGGCCGGTTGCTTATAAATTTTTGTTGCCA
* *
77718098 CCTGAGTTAGAAAAGATTTATCATGTATTTCACGTATCAATGCTTCGATGTTACAGATCCGATCC
66 CCTGAGTTAGAAAAGATTTATAATGTATTTCACATATCAATGCTTCGATGTTACAGATCCGATCC
77718163 CTCGCATGTGATTTTTACCTCTGAGATTGAGATTCAATCCGAT
131 CTCGCATGTGATTTTTACCTCTGAGATTGAGATTCAATCCGAT
77718206 GATTCATTGGGTCGTACGAGATTGTTGAGCGTATTGGGCCGGTTGCTTATAAATTTTTGTTGCCA
1 GATTCATTGGGTCGTACGAGATTGTTGAGCGTATTGGGCCGGTTGCTTATAAATTTTTGTTGCCA
* * *
77718271 CTTGAGTTAGAAAAGATTTATAATGTATTTCACATATCATTGCTTTGATGTTACAGATCCGATCC
66 CCTGAGTTAGAAAAGATTTATAATGTATTTCACATATCAATGCTTCGATGTTACAGATCCGATCC
* *
77718336 CTCGGATGTGATTTTTACCTCTGAGATTGAGATTCAGTCCGAT
131 CTCGCATGTGATTTTTACCTCTGAGATTGAGATTCAATCCGAT
77718379 ATGACATACG
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 165 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (173 bp):
GATTCATTGGGTCGTACGAGATTGTTGAGCGTATTGGGCCGGTTGCTTATAAATTTTTGTTGCCA
CCTGAGTTAGAAAAGATTTATAATGTATTTCACATATCAATGCTTCGATGTTACAGATCCGATCC
CTCGCATGTGATTTTTACCTCTGAGATTGAGATTCAATCCGAT
Found at i:77719922 original size:43 final size:43
Alignment explanation
Indices: 77719801--77719925 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
77719791 TGAGATTACA
* * * * *
77719801 TGTATGACCATGTCTAGGACATTGGCATAGGAT-TGTG-TTTACG
1 TGTAAGACCACGTCTGGGACATTGGCAT-CGATATATGATTT-CG
* *
77719844 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTTCG
*
77719887 TGTAAGACCACGTCTGGGACATTGGGATCGATATATGAT
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATATGAT
77719926 GACAAGTAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 67 0.93
44 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTTCG
Found at i:77719935 original size:43 final size:43
Alignment explanation
Indices: 77719845--77719948 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
77719835 GTGTTTACGT
* ** **
77719845 GTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCGT
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATGATGACAA
* *
77719888 GTAAGACCACGTCTGGGACATTGGGATCGATATATGATGACAA
1 GTAAGACCATGTCTGGGACATTGGCATCGATATATGATGACAA
*
77719931 GTAAGACCATATCTGGGA
1 GTAAGACCATGTCTGGGA
77719949 TCTGACATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCGATATATGATGACAA
Found at i:77722872 original size:18 final size:18
Alignment explanation
Indices: 77722849--77722889 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
77722839 GTGATAGATT
77722849 AATAGTTAAATTTACCCA
1 AATAGTTAAATTTACCCA
77722867 AATAGTTAAATTTACCCA
1 AATAGTTAAATTTACCCA
77722885 AATAG
1 AATAG
77722890 ATCCAGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (18 bp):
AATAGTTAAATTTACCCA
Found at i:77734075 original size:40 final size:40
Alignment explanation
Indices: 77734031--77734253 Score: 228
Period size: 40 Copynumber: 5.6 Consensus size: 40
77734021 GCTCCTCGTT
*
77734031 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
** *
77734071 CAAATGCCTTCGGGACTTAATCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
77734111 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
77734151 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
77734190 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
77734231 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
77734254 ACAGCATTCA
Statistics
Matches: 159, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.28
40 103 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:77734150 original size:80 final size:79
Alignment explanation
Indices: 77734031--77734202 Score: 256
Period size: 80 Copynumber: 2.2 Consensus size: 79
77734021 GCTCCTCGTT
* * *
77734031 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAATCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGG
*
77734096 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
77734111 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGG
*
77734175 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
77734190 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77734203 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
79 34 0.40
80 48 0.57
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
ATTAGTAACTCGCA
Found at i:77734215 original size:79 final size:80
Alignment explanation
Indices: 77734031--77734254 Score: 280
Period size: 79 Copynumber: 2.8 Consensus size: 80
77734021 GCTCCTCGTT
* * **
77734031 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAATCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
77734095 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
77734111 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
77734175 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
77734190 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
77734251 CGGA
63 CGGA
77734255 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 59 0.46
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:77740104 original size:30 final size:30
Alignment explanation
Indices: 77740070--77740136 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
77740060 GGAGCAGACG
*
77740070 GTGTGTCCCACACGACCAAGACATATGCCC
1 GTGTGTCCCACACGACCAAGACACATGCCC
* *
77740100 GTGTGTCCCACACGGCCAAGACACATGCTC
1 GTGTGTCCCACACGACCAAGACACATGCCC
77740130 GTGTGTC
1 GTGTGTC
77740137 TAACCGTGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.19
Consensus pattern (30 bp):
GTGTGTCCCACACGACCAAGACACATGCCC
Found at i:77747535 original size:34 final size:34
Alignment explanation
Indices: 77747483--77747550 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
77747473 GTATTTTTGA
77747483 CACTGTACTAAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTAAGATGGGCTAAGGCCCAAGACTGT
*
77747516 CACTGATACTGAAGA-GGGCTTAGGCCCAAGACTGT
1 CACTG-TACT-AAGATGGGCTAAGGCCCAAGACTGT
77747551 TCAACTGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 5 0.16
34 17 0.55
35 9 0.29
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTAAGATGGGCTAAGGCCCAAGACTGT
Found at i:77757503 original size:221 final size:221
Alignment explanation
Indices: 77757120--77757564 Score: 872
Period size: 221 Copynumber: 2.0 Consensus size: 221
77757110 ATAATTTTGT
77757120 TCTCTCAATATGATCTTATTTTATCTCATGGTAACCATTACAATTTCTTTCATGAAAAGCCAATT
1 TCTCTCAATATGATCTTATTTTATCTCATGGTAACCATTACAATTTCTTTCATGAAAAGCCAATT
77757185 ATTATCAAATAGTAGTTAAGTCATTCACCAAACAGACAAACGATGGTAGCTACGATTACTTTTCA
66 ATTATCAAATAGTAGTTAAGTCATTCACCAAACAGACAAACGATGGTAGCTACGATTACTTTTCA
77757250 TATATCATGTAATAAAAATGAGATGATATGATTTATCCATTTCTAGGGCTATGAATTCCACTATT
131 TATATCATGTAATAAAAATGAGATGATATGATTTATCCATTTCTAGGGCTATGAATTCCACTATT
77757315 TTGAATCATTCTACATACTACAGAAG
196 TTGAATCATTCTACATACTACAGAAG
77757341 TCTCTCAATATGATCTTATTTTATCTCATGGTAACCATTACAATTTCTTTCATGAAAAGCCAATT
1 TCTCTCAATATGATCTTATTTTATCTCATGGTAACCATTACAATTTCTTTCATGAAAAGCCAATT
77757406 ATTATCAAATAGTAGTTAAGTCATTCACCAAACAGACAAACGATGGTAGCTACGATTACTTTTCA
66 ATTATCAAATAGTAGTTAAGTCATTCACCAAACAGACAAACGATGGTAGCTACGATTACTTTTCA
77757471 TATATCATGTAATAAAAATGAGATGATATGATTTATCCATTTCTAGGGCTATGAATTCCACTATT
131 TATATCATGTAATAAAAATGAGATGATATGATTTATCCATTTCTAGGGCTATGAATTCCACTATT
* *
77757536 TTGAATGATTCTACATACTGCAGAAG
196 TTGAATCATTCTACATACTACAGAAG
77757562 TCT
1 TCT
77757565 TATACCCAAT
Statistics
Matches: 222, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 222 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (221 bp):
TCTCTCAATATGATCTTATTTTATCTCATGGTAACCATTACAATTTCTTTCATGAAAAGCCAATT
ATTATCAAATAGTAGTTAAGTCATTCACCAAACAGACAAACGATGGTAGCTACGATTACTTTTCA
TATATCATGTAATAAAAATGAGATGATATGATTTATCCATTTCTAGGGCTATGAATTCCACTATT
TTGAATCATTCTACATACTACAGAAG
Found at i:77758105 original size:12 final size:12
Alignment explanation
Indices: 77758090--77758114 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77758080 AGTCAGACAA
77758090 ATGGAAACTTAT
1 ATGGAAACTTAT
77758102 ATGGAAACTTAT
1 ATGGAAACTTAT
77758114 A
1 A
77758115 GAATAAAAAG
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGAAACTTAT
Found at i:77762300 original size:37 final size:37
Alignment explanation
Indices: 77762250--77762328 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
77762240 TTATTACGAA
* * *
77762250 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
77762287 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
77762324 GTCTT
1 GTCTT
77762329 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:77762525 original size:47 final size:47
Alignment explanation
Indices: 77762449--77762622 Score: 215
Period size: 47 Copynumber: 3.7 Consensus size: 47
77762439 CTTCGGGACT
* * * * *
77762449 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
77762496 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
77762543 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
77762590 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATTCATCACAT
77762623 AGAATCCTAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 113 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:77762611 original size:94 final size:94
Alignment explanation
Indices: 77762447--77762622 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
77762437 CCCTTCGGGA
* * * * *
77762447 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
77762512 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATCCATCACATCGGCCATTAGGC
* * * * *
77762541 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
77762605 TGTTCACATCCATCACAT
66 T-TTCACATCCATCACAT
77762623 AGAATCCTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 69 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATCCATCACATCGGCCATTAGGC
Found at i:77780775 original size:39 final size:40
Alignment explanation
Indices: 77780703--77780846 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
77780693 CTCGCACAAG
* * * * *
77780703 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
77780743 GCCTTCGGGACTTAGCCC-GATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
77780782 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
77780823 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
77780847 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 26 0.29
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:77780828 original size:41 final size:39
Alignment explanation
Indices: 77780667--77780846 Score: 166
Period size: 39 Copynumber: 4.5 Consensus size: 39
77780657 AATCAAGCAT
** ** * * *
77780667 CTTCGGGGTTTAGCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
* * * * *
77780705 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTT-AGCCGGATATAGTCGCTAGCACAAATGC
*
77780745 CTTCGGGACTTAGCCCGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
* *
77780784 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAG-CCGGATATAGTCGC-TAGCACAAATGC
77780825 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
77780847 CATTCGAGTA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
38 12 0.10
39 48 0.41
40 26 0.22
41 27 0.23
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTCGCTAGCACAAATGC
Found at i:77784799 original size:27 final size:27
Alignment explanation
Indices: 77784761--77784953 Score: 172
Period size: 27 Copynumber: 7.1 Consensus size: 27
77784751 GGCAAATCAA
*
77784761 TCATTTTACCTTACAGGAGTATTACAG
1 TCATTTTACCTTACAGGGGTATTACAG
*
77784788 TCATTTTACCTTATAGGGGTATTACAG
1 TCATTTTACCTTACAGGGGTATTACAG
* * * * *
77784815 TCATTTTAACTTATAAGGGCATTTCAG
1 TCATTTTACCTTACAGGGGTATTACAG
* * * *
77784842 TCATTTTACCCTATAAGGGTATTTA-GG
1 TCATTTTACCTTACAGGGGTA-TTACAG
* ** *
77784869 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCTTACAGGGGTATTACAG
* *
77784896 TCATTTTACCCTACAAGGGGTATTTCAG
1 TCATTTTACCTTAC-AGGGGTATTACAG
* ** *
77784924 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCTTACAGGGGTATTACAG
77784951 TCA
1 TCA
77784954 CCTTTTCGGC
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 115 0.80
28 27 0.19
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGTATTACAG
Found at i:77784939 original size:55 final size:54
Alignment explanation
Indices: 77784761--77784953 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
77784751 GGCAAATCAA
* * * * * * *
77784761 TCATTTTACCTTACAGGAGTATTACAGTCATTTTACCTTATAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTAAAGGGGTATTTCAG
* * * *
77784815 TCATTTTAACTTATAAGGGCATTTCAGTCATTTTACCCTATAA-GGGTATTT-AGG
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA-AAGGGGTATTTCA-G
*
77784869 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTACAAGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA-AAGGGGTATTTCAG
*
77784924 TCATTTTACCCTATGGGGGTATTTCAGTCA
1 TCATTTTACCCTATAGGGGTATTTCAGTCA
77784954 CCTTTTCGGC
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 78 0.65
55 40 0.33
56 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTAAAGGGGTATTTCAG
Found at i:77795510 original size:25 final size:25
Alignment explanation
Indices: 77795435--77795498 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
77795425 CCCTTATAAT
77795435 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTTTGCCCCTAG
*
77795460 GTGAAAATGACCATTTTGCCCGTAG
1 GTGAAAATGACCATTTTGCCCCTAG
77795485 GTGAAAATGACCAT
1 GTGAAAATGACCAT
77795499 CATACCCCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTTTGCCCCTAG
Found at i:77795565 original size:10 final size:10
Alignment explanation
Indices: 77795550--77795589 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
77795540 TTGTTTTGTA
77795550 CATGATATGC
1 CATGATATGC
*
77795560 CATGATATTC
1 CATGATATGC
*
77795570 ACCTGATATGC
1 -CATGATATGC
77795581 CATGATATG
1 CATGATATG
77795590 TTCATATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:77795692 original size:24 final size:24
Alignment explanation
Indices: 77795635--77795689 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
77795625 GAGGAAGTGC
*
77795635 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCCAG-TTATCG
*
77795660 AAAAGGGCTTTGCCCCAGTTAT-T
1 AAAAGGGCTTTGCCCCAGTTATCG
77795683 AAAAGGG
1 AAAAGGG
77795690 GCTACGCCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 4 0.14
25 17 0.61
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCG
Found at i:77802821 original size:26 final size:26
Alignment explanation
Indices: 77802792--77802899 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
77802782 TGGTACAAAT
77802792 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
77802818 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77802844 CGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
77802870 TGATAATGATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77802896 TGAT
1 TGAT
77802900 GGGAATTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77841023 original size:40 final size:40
Alignment explanation
Indices: 77840922--77841106 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
77840912 TATTCAAATG
* *
77840922 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * *
77840963 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * *
77841003 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
77841043 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
77841083 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
77841107 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 93 0.77
41 28 0.23
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:77844385 original size:37 final size:37
Alignment explanation
Indices: 77844333--77844405 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
77844323 AAATCAGAAG
*
77844333 ATCGAAAGGTGTTTAAATTTTCTAAGTTTTGAATCGT
1 ATCGAAAGGTCTTTAAATTTTCTAAGTTTTGAATCGT
77844370 ATCGAAAGGTCTTTAAATTTTCTAAGTTTTGAATCG
1 ATCGAAAGGTCTTTAAATTTTCTAAGTTTTGAATCG
77844406 GTTTCTTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (37 bp):
ATCGAAAGGTCTTTAAATTTTCTAAGTTTTGAATCGT
Found at i:77845127 original size:208 final size:208
Alignment explanation
Indices: 77844769--77845183 Score: 767
Period size: 208 Copynumber: 2.0 Consensus size: 208
77844759 AAAAGAGAGA
77844769 ATTAGAAGACCTTTTTAAAAAAGGGAGAAGGGAAATGAAATTAAAAAAATTAGTTTATATAGGCC
1 ATTAGAAGACCTTTTTAAAAAAGGGAGAAGGGAAATGAAATTAAAAAAATTAGTTTATATAGGCC
* *
77844834 GACAAAACGCGCCATTTTTCCTGGCCCTTTTAAAACCCAGAAACGGCACCGTTTAGGCGCGACCC
66 GACAAAACGCGCCATTTTGCCCGGCCCTTTTAAAACCCAGAAACGGCACCGTTTAGGCGCGACCC
*
77844899 GAAGACCCGACCCGTCTTACCCTGGGATCCGCGTGTTTTTTCTCTTAGGGGCTAATTGCATGCCC
131 GAAGACCCGACCCGTCTTACCCTGGGATCCGCGTGTTTTTGCTCTTAGGGGCTAATTGCATGCCC
77844964 GGTCCTTCCGCTG
196 GGTCCTTCCGCTG
77844977 ATTAGAAGACCTTTTTAAAAAAGGGAGAAGGGAAATGAAATTAAAAAAATTAGTTTATATAGGCC
1 ATTAGAAGACCTTTTTAAAAAAGGGAGAAGGGAAATGAAATTAAAAAAATTAGTTTATATAGGCC
* * * *
77845042 GGCAAAATGCGCCGTTTTGCCCGGCCCTTTTAAAACCCAGAAACGGCGCCGTTTAGGCGCGACCC
66 GACAAAACGCGCCATTTTGCCCGGCCCTTTTAAAACCCAGAAACGGCACCGTTTAGGCGCGACCC
77845107 GAAGACCCGACCCGTCTTACCCTGGGATCCGCGTGTTTTTGCTCTTAGGGGCTAATTGCATGCCC
131 GAAGACCCGACCCGTCTTACCCTGGGATCCGCGTGTTTTTGCTCTTAGGGGCTAATTGCATGCCC
77845172 GGTCCTTCCGCT
196 GGTCCTTCCGCT
77845184 TTTTATATGT
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 200 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (208 bp):
ATTAGAAGACCTTTTTAAAAAAGGGAGAAGGGAAATGAAATTAAAAAAATTAGTTTATATAGGCC
GACAAAACGCGCCATTTTGCCCGGCCCTTTTAAAACCCAGAAACGGCACCGTTTAGGCGCGACCC
GAAGACCCGACCCGTCTTACCCTGGGATCCGCGTGTTTTTGCTCTTAGGGGCTAATTGCATGCCC
GGTCCTTCCGCTG
Found at i:77845907 original size:57 final size:59
Alignment explanation
Indices: 77845837--77845960 Score: 209
Period size: 59 Copynumber: 2.2 Consensus size: 59
77845827 TATTATATCG
77845837 TGTATAT-CATTTT-A-TTATAGTTTTATATATTGTAAATATCACATTATGTTTTACCA
1 TGTATATACATTTTAATTTATAGTTTTATATATTGTAAATATCACATTATGTTTTACCA
* *
77845893 TGTATATACATTTTAATTTATAGTTTTATATATTGTAAATGTCATATTATGTTTTACCA
1 TGTATATACATTTTAATTTATAGTTTTATATATTGTAAATATCACATTATGTTTTACCA
77845952 TGTATATAC
1 TGTATATAC
77845961 CTTTCTATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
56 7 0.11
57 6 0.10
58 1 0.02
59 49 0.78
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (59 bp):
TGTATATACATTTTAATTTATAGTTTTATATATTGTAAATATCACATTATGTTTTACCA
Found at i:77845993 original size:15 final size:15
Alignment explanation
Indices: 77845975--77846020 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
77845965 CTATATCTCA
77845975 TATATATATATATTT
1 TATATATATATATTT
*
77845990 TATATATATATA-TG
1 TATATATATATATTT
*
77846004 TATATTATGTATATTT
1 TATA-TATATATATTT
77846020 T
1 T
77846021 CCTTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 5 0.19
15 19 0.73
16 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:77845996 original size:19 final size:19
Alignment explanation
Indices: 77845974--77846017 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
77845964 TCTATATCTC
*
77845974 ATATATATATATATTTTAT
1 ATATATATATATATATTAT
*
77845993 ATATATATATGTATATTAT
1 ATATATATATATATATTAT
*
77846012 GTATAT
1 ATATAT
77846018 TTTCCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATATATATATATATATTAT
Found at i:77846441 original size:88 final size:88
Alignment explanation
Indices: 77846338--77846512 Score: 323
Period size: 88 Copynumber: 2.0 Consensus size: 88
77846328 GTTATTATAT
77846338 ATATTAATACCCTAATTTGCTTTATATTTTACTATAAATCACGTTTTTACTTAATATGTTAAAAA
1 ATATTAATACCCTAATTTGCTTTATATTTTACTATAAATCACGTTTTTACTTAATATGTTAAAAA
77846403 CAATTCTTTCATAAAAGTAATAC
66 CAATTCTTTCATAAAAGTAATAC
* *
77846426 ATATTAATACCCTAATTTTCTTTATATTTTACTATAAATCATGTTTTTACTTAATATGTTAAAAA
1 ATATTAATACCCTAATTTGCTTTATATTTTACTATAAATCACGTTTTTACTTAATATGTTAAAAA
*
77846491 CGATTCTTTCATAAAAGTAATA
66 CAATTCTTTCATAAAAGTAATA
77846513 TCTCGTATTA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.45
Consensus pattern (88 bp):
ATATTAATACCCTAATTTGCTTTATATTTTACTATAAATCACGTTTTTACTTAATATGTTAAAAA
CAATTCTTTCATAAAAGTAATAC
Found at i:77849505 original size:40 final size:40
Alignment explanation
Indices: 77849411--77849555 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
77849401 TACTCGAATG
*
77849411 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
77849452 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* *
77849492 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA-CTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGC-GACT
* *
77849532 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
77849556 CTTGTGTGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 2 0.02
40 61 0.66
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:77855735 original size:26 final size:26
Alignment explanation
Indices: 77855706--77855779 Score: 76
Period size: 34 Copynumber: 2.5 Consensus size: 26
77855696 TACCCAAACT
77855706 TATTTTCATAGGAACCTTGATGAATC
1 TATTTTCATAGGAACCTTGATGAATC
77855732 TATTTTCATATTTGTAAACGAACCTTGATGAATC
1 TATTTTCATA---G-----GAACCTTGATGAATC
77855766 TATTTTCATAGGAA
1 TATTTTCATAGGAA
77855780 AGTAACGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
26 13 0.32
29 1 0.03
31 1 0.03
34 25 0.62
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
TATTTTCATAGGAACCTTGATGAATC
Found at i:77858016 original size:37 final size:37
Alignment explanation
Indices: 77857958--77858098 Score: 246
Period size: 37 Copynumber: 3.8 Consensus size: 37
77857948 GCTCAGACGA
* * *
77857958 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
77857995 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
77858032 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
77858069 AATCTCCACACGTAGTCATCGGGTCTTACC
1 AATCTCCACACGTAGTCATCGGGTCTTACC
77858099 TGGAATATAT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:77858457 original size:51 final size:51
Alignment explanation
Indices: 77858311--77859389 Score: 1766
Period size: 51 Copynumber: 21.5 Consensus size: 51
77858301 ACACGTTTCG
* ** *
77858311 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
* * ** *
77858358 CATTGGCCATTCGGCCTTAT--CTC--ATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858405 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858456 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858507 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858558 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858609 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858660 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858711 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858762 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858813 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858864 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858915 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77858966 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
** *
77859017 CATTGGCCATTCGGCCTTATCACACATATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77859068 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
*** **
77859119 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
* *** *
77859166 CAGTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
*
77859213 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
*** *
77859264 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
*
77859311 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
77859362 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
77859390 CGCATGTTCA
Statistics
Matches: 987, Mismatches: 30, Indels: 26
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.00
46 1 0.00
47 187 0.19
49 2 0.00
51 793 0.80
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (51 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTTATCA
Found at i:77867397 original size:3 final size:3
Alignment explanation
Indices: 77867389--77867423 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
77867379 TTTATCTCTT
77867389 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
77867424 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:77871046 original size:3 final size:3
Alignment explanation
Indices: 77871038--77871135 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
77871028 TTTGTTAACT
77871038 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
77871086 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
77871134 TT
1 TT
77871136 TATTTGTTAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:77873530 original size:19 final size:20
Alignment explanation
Indices: 77873490--77873533 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
77873480 GTCTCTTTAG
* *
77873490 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
77873509 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
77873528 GCATTA
1 GCATTA
77873534 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:77878299 original size:42 final size:42
Alignment explanation
Indices: 77878252--77878387 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
77878242 GACAGCAGAT
77878252 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
* * * * ** * ** ** *
77878294 CTTGCCTTCATTG-GTT-GCAGTGGAGTTGGTTAAAGAAGTAGAT
1 CTTGCCTTC-CTGCGTTAACAGCGAAGCAGATCGAA-AACAAG-C
77878337 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
*
77878379 TTTGCCTTC
1 CTTGCCTTC
77878388 ATTGGTTACA
Statistics
Matches: 64, Mismatches: 25, Indels: 10
0.65 0.25 0.10
Matches are distributed among these distances:
41 10 0.16
42 26 0.41
43 18 0.28
44 10 0.16
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (42 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
Found at i:77878391 original size:85 final size:85
Alignment explanation
Indices: 77878240--77878424 Score: 325
Period size: 85 Copynumber: 2.2 Consensus size: 85
77878230 CAGATCAGTG
77878240 AAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
1 AAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
* *
77878305 TGGTTGCAGTGGAGTTGGTTA
65 TGGTTACAGTGGAGCTGGTTA
* *
77878326 AAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTCATT
1 AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
77878391 GGTTACAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
77878411 AAGAAGCAGATCTT
1 AAGAAGCAGATCTT
77878425 ATCTCCCTGA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 90 0.96
86 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (85 bp):
AAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
GGTTACAGTGGAGCTGGTTA
Found at i:77878443 original size:85 final size:85
Alignment explanation
Indices: 77878240--77878453 Score: 295
Period size: 85 Copynumber: 2.5 Consensus size: 85
77878230 CAGATCAGTG
* * *
77878240 AAGACAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
1 AAGA-AGCAGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
* *
77878305 TGGTTGCAGTGGAGTTGGTTA
65 TGGTTACAGTGGAGCTGGTTA
* * * * *
77878326 AAGAAGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTCATT
1 AAGAAGCAGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
77878391 GGTTACAGTGGAGCTGGTTA
66 GGTTACAGTGGAGCTGGTTA
* *
77878411 AAGAAGCAGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATC
1 AAGAAGCAGATCTTACCTCCCTGAG-TTAACAGCGAAGCAGATC
77878454 AAGGATAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 111 0.95
86 6 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (85 bp):
AAGAAGCAGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATT
GGTTACAGTGGAGCTGGTTA
Found at i:77878612 original size:46 final size:45
Alignment explanation
Indices: 77878393--77879132 Score: 344
Period size: 44 Copynumber: 17.3 Consensus size: 45
77878383 CCTTCATTGG
* * * *
77878393 TTACAGTGGAGCTGGTTAAAGAA-GCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
* * * * *
77878437 TTACAGCGGAGCAGATCAAGGATAGT-A-ATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGA-ATTCAGATCTTATCTCCCTGAGA
* * * *
77878481 TTACAATGGAGCGGATTAAAG------GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
* * * *
77878519 GTTACAGTAGAGAAGATC--A-CA-TCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
* *
77878561 TTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAGAA-TTCAGATCTTATCTCCCTGAGA
* * * * *
77878607 TTACAGCGGAGCAGATCAAAGATAGT-A-ATCCTATCTCCTTAAGA
1 TTACAGTGGAGCAGATCAAAGA-ATTCAGATCTTATCTCCCTGAGA
* * * *
77878651 TTACAATGGAGCGGATTAAAG------GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
* * * *
77878689 GTTACAGTAGAGAAGATC--A-CA-TCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
** *
77878731 TTACAGTGGAAAAGACCAAAGAATTTCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAGAA-TTCAGATCTTATCTCCCTGAGA
* * * *
77878777 TTACAGCGGAGCAGATC---GAAATCACTATCCTATCTCCCTGA-A
1 TTACAGTGGAGCAGATCAAAGAATTCA-GATCTTATCTCCCTGAGA
* * ** *
77878819 GTTACAGTGGAGCGGAT-TAA-AATAAAAGATCTTACCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGAAT-TCAGATCTTATCTCCCTGAGA
* * * *
77878864 TTACAGCGGAGCAGATC-AAGGA-T-AGGAATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGAATTCA-G-ATCTTATCTCCCTGAGA
* * * *
77878908 TTACAATGGAGCGGATTAAAG------GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
* * * *
77878946 GTTACAGTAGAGAAGATC--A-CA-TCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
** * * *
77878988 TTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGG
1 TTACAGTGGAGCAGATCAAAGAA-TTCAGATCTTATCTCCCTGAGA
** * *
77879034 TTACAGTGGAGCAGATTGAAGCCA--GAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG-AATTCAGATCTTATCTCCCTGAGA
* * * *
77879078 TTACAGCGGAGCAGATCGAA-AA--CACTATCCTATCTCCCTGA-A
1 TTACAGTGGAGCAGATCAAAGAATTCA-GATCTTATCTCCCTGAGA
77879120 GTTACAGTGGAGC
1 -TTACAGTGGAGC
77879133 GGATTAAAAT
Statistics
Matches: 524, Mismatches: 116, Indels: 113
0.70 0.15 0.15
Matches are distributed among these distances:
37 3 0.01
38 3 0.01
39 71 0.14
40 1 0.00
41 82 0.16
42 11 0.02
43 60 0.11
44 175 0.33
45 9 0.02
46 107 0.20
47 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (45 bp):
TTACAGTGGAGCAGATCAAAGAATTCAGATCTTATCTCCCTGAGA
Found at i:77878614 original size:170 final size:169
Alignment explanation
Indices: 77878417--77878839 Score: 735
Period size: 170 Copynumber: 2.5 Consensus size: 169
77878407 GTTAAAGAAG
77878417 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGAT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAA-GATAGTAATCCTATCTCCTTGAGAT
77878482 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
65 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
*
77878547 TTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTT
130 TTATCTCCCTGAGATTACAGTGGAAAAGACCAAAGAATTT
*
77878587 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTAAGAT
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGATAGTAATCCTATCTCCTTGAGAT
77878652 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
65 TACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTC
77878717 TTATCTCCCTGAGATTACAGTGGAAAAGACCAAAGAATTT
130 TTATCTCCCTGAGATTACAGTGGAAAAGACCAAAGAATTT
* *
77878757 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-ATCACT-ATCCTATCTCCCTGA-A
1 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGAT-AGTAATCCTATCTCCTTGAGA
*
77878819 GTTACAGTGGAGCGGATTAAA
64 -TTACAATGGAGCGGATTAAA
77878840 ATAAAAGATC
Statistics
Matches: 243, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
168 1 0.00
169 34 0.14
170 206 0.85
171 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (169 bp):
CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGATAGTAATCCTATCTCCTTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAAAAGACCAAAGAATTT
Found at i:77879117 original size:257 final size:255
Alignment explanation
Indices: 77878545--77879132 Score: 856
Period size: 257 Copynumber: 2.3 Consensus size: 255
77878535 TCACATCAGG
* *
77878545 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAA-AA---CAGATCTTATCTCCCTGAGATTA
*
77878610 CAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTAAGATTACAATGGAGCGGATTAAAGGAT
62 CAGCGGAGCAGATCAAAGATAGGAATCCTATCTCCTTAAGATTACAATGGAGCGGATTAAAGGAT
77878675 CTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGG
127 CTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGG
* **
77878740 AAAAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAATCACTA
192 AAAAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAACCAAGA
* * * * *
77878804 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAAGATCTTACCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TCAAA-AACAGATCTTATCTCCCTGAGATTAC
* *
77878868 AGCGGAGCAGATCAAGGATAGGAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATC
63 AGCGGAGCAGATCAAAGATAGGAATCCTATCTCCTTAAGATTACAATGGAGCGGATTAAAGGATC
77878933 TTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGA
128 TTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGA
* * * * * *
77878998 ATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
193 AAAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAACCA-AGA
* * * *
77879062 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACACTATCCTATCTCCCTGA-AGTTACA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAAACA-GATCTTATCTCCCTGAGA-TTACA
*
77879126 GTGGAGC
64 GCGGAGC
77879133 GGATTAAAAT
Statistics
Matches: 293, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
256 4 0.01
257 229 0.78
258 28 0.10
259 27 0.09
260 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (255 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAAACAGATCTTATCTCCCTGAGATTACAGC
GGAGCAGATCAAAGATAGGAATCCTATCTCCTTAAGATTACAATGGAGCGGATTAAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAAAA
GACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAACCAAGA
Found at i:77879151 original size:87 final size:87
Alignment explanation
Indices: 77879021--77879182 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
77879011 TTTCGGATCT
* * ** *
77879021 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
77879086 GAGCAGATCGAAAACACTATCC
66 GAGCAGATCGAAAACACTATCC
* * * * *
77879108 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTATAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
77879172 AGAGTAGATCG
65 AGAGCAGATCG
77879183 CATCAAGTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
87 59 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAAACACTATCC
Found at i:77881911 original size:20 final size:19
Alignment explanation
Indices: 77881868--77881911 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
77881858 CTAGCCCAAT
* *
77881868 ACAAACACAAACCCACTAA
1 ACAAACACAAAACCAATAA
*
77881887 ACAAACCCAAAACCAATAA
1 ACAAACACAAAACCAATAA
77881906 AGCAAA
1 A-CAAA
77881912 AATGGGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.61, C:0.32, G:0.02, T:0.05
Consensus pattern (19 bp):
ACAAACACAAAACCAATAA
Found at i:77887241 original size:20 final size:20
Alignment explanation
Indices: 77887206--77887254 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
77887196 GAAGGATCAA
*
77887206 ATGCTAGAGTCCCAGAAAAAC
1 ATGCT-GAGTCACAGAAAAAC
*
77887227 ATGCTGAGTCACAGAACAAC
1 ATGCTGAGTCACAGAAAAAC
*
77887247 ATGATGAG
1 ATGCTGAG
77887255 CCAGCTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.16
Consensus pattern (20 bp):
ATGCTGAGTCACAGAAAAAC
Found at i:77893626 original size:47 final size:47
Alignment explanation
Indices: 77893563--77894614 Score: 1870
Period size: 47 Copynumber: 22.4 Consensus size: 47
77893553 CCCTTCGGGA
* * * * *
77893563 CTTATCACATTTATACACTTTCATATCCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* * * * *
77893610 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
77893657 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
77893704 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77893751 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
77893798 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
77893845 CTTATCACATATACACACTTTCACATTCCTCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
77893892 CTTATCACATATACACACTTTCACATTCATCACATTCGCCATTTGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
* *
77893939 CTTATCACATATATACACTTTCACATTCCTCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77893986 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894033 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894080 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894127 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894174 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894221 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894268 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894315 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894362 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894409 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894456 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
77894503 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
77894550 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
*
77894597 CTTATCACATATATACAC
1 CTTATCACATATACACAC
77894615 CTTGTACATC
Statistics
Matches: 973, Mismatches: 32, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 973 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:77896568 original size:33 final size:33
Alignment explanation
Indices: 77896526--77896592 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
77896516 TTTCTCCAAG
77896526 CTCTTTCCCTTCTTTTTCTTTCTTCTATTCGGC
1 CTCTTTCCCTTCTTTTTCTTTCTTCTATTCGGC
77896559 CTCTTTCCCTTCTTTTTCTTTCTTCTATTCGGC
1 CTCTTTCCCTTCTTTTTCTTTCTTCTATTCGGC
77896592 C
1 C
77896593 AAGTTGAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.03, C:0.34, G:0.06, T:0.57
Consensus pattern (33 bp):
CTCTTTCCCTTCTTTTTCTTTCTTCTATTCGGC
Found at i:77899852 original size:89 final size:89
Alignment explanation
Indices: 77899741--77900038 Score: 270
Period size: 89 Copynumber: 3.3 Consensus size: 89
77899731 ACATACCCGA
*
77899741 TCTTATCTTCATTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
*
77899806 GAGTGGAG-AGATTTCAGCCACCAG
66 GAGTGGAGCAGA-TTCAACCACCAG
* ** * *
77899830 TCTTATCTTCACTGAGCAGGAGTGGAGCAGAT----TTCAGCCATCAG-CTTTATCTTCACTGAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGC--GAGTC-TTATCTTCACTGAG
** * * *
77899890 CAGGAGTGGAGCAGGCTAAACATACCCG
63 CAGGAGTGGAGCAGATTCAAC-CACCAG
* * * *
77899918 ATCTTTTCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCA-TGTATC
1 -TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGC
* * *
77899982 -GGCAATGGAGCAGATTCTAATCATCAG
64 AGG-AGTGGAGCAGATTC-AACCACCAG
* *
77900009 CCTTATCTTCACTGAGTAGGAGTGAAGCAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAG
77900039 GCTAAGTATA
Statistics
Matches: 162, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
85 4 0.02
86 1 0.01
87 30 0.19
88 6 0.04
89 59 0.36
90 30 0.19
91 25 0.15
92 3 0.02
93 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (89 bp):
TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
GAGTGGAGCAGATTCAACCACCAG
Found at i:77899880 original size:44 final size:44
Alignment explanation
Indices: 77899785--77899903 Score: 206
Period size: 44 Copynumber: 2.7 Consensus size: 44
77899775 AATTTTGGCG
77899785 AGTCTTATCTTCACTGAGCAGGAGTGGAG-AGATTTCAGCCACC
1 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
*
77899828 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCATC
1 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
77899872 AG-CTTTATCTTCACTGAGCAGGAGTGGAGCAG
1 AGTC-TTATCTTCACTGAGCAGGAGTGGAGCAG
77899904 GCTAAACATA
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
43 30 0.41
44 43 0.59
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
Found at i:77900007 original size:135 final size:134
Alignment explanation
Indices: 77899852--77900218 Score: 443
Period size: 135 Copynumber: 2.7 Consensus size: 134
77899842 TGAGCAGGAG
* ** * * *
77899852 TGGAGCAGATTTCAGCCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCC
1 TGGAGCAGATTCCAATCATCAGC-TTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* *
77899917 GATCTTTTCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCATGTA-T
65 GATCTTATCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTACT
*
77899981 CGGCAA
130 -AGCAA
* * * *
77899987 TGGAGCAGATTCTAATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAGTATAGCA
1 TGGAGCAGATTCCAATCATCAG-CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* * * * * * *
77900052 GATCTTATCTTCGCTGAGCAGGAG-CAGAGTAGATCGAATTTTGGTGAATCTTATCTCCCTGTAC
65 GATCTTATCTTCACTGAACAGGAGTGA-AGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAC
*
77900116 TAGCGA
129 TAGCAA
*
77900122 TGGAGCAGATTCCAATCATCAGACTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATATCA
1 TGGAGCAGATTCCAATCATCAG-CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* *
77900187 GATCTTATC-TCTACTGAACAAGAGTGGAGCAG
65 GATCTTATCTTC-ACTGAACAGGAGTGAAGCAG
77900219 GTCAGATACA
Statistics
Matches: 195, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
134 3 0.02
135 190 0.97
136 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (134 bp):
TGGAGCAGATTCCAATCATCAGCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCAG
ATCTTATCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTACTA
GCAA
Found at i:77905884 original size:20 final size:20
Alignment explanation
Indices: 77905849--77905897 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
77905839 GAAGGATCAA
*
77905849 ATGCTAGAGTCCCAGAAAAAC
1 ATGCT-GAGTCACAGAAAAAC
*
77905870 ATGCTGAGTCACAGAACAAC
1 ATGCTGAGTCACAGAAAAAC
*
77905890 ATGATGAG
1 ATGCTGAG
77905898 CCAGCTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.16
Consensus pattern (20 bp):
ATGCTGAGTCACAGAAAAAC
Found at i:77912269 original size:47 final size:47
Alignment explanation
Indices: 77912206--77912881 Score: 1109
Period size: 47 Copynumber: 14.4 Consensus size: 47
77912196 CCCTTCGGGA
* * *
77912206 CTTATCACATTTATACACTTTCATATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
77912253 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
77912300 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77912347 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77912394 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
77912441 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77912488 CTTATCACATATACACACTTTCACATTCCTCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
77912535 CTTATCACATATACACACTTTCACATTCATCACATTCGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
77912582 CTTATCACATATATACACTTTCACATTCCTCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77912629 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
77912676 CTTATCACATATATGCACTTTCACATTCCTCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77912723 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
77912770 CTTATCACATATATGCACTTTCACATTCCTCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77912817 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
77912864 CTTATCACATATATACAC
1 CTTATCACATATATACAC
77912882 CTTGTACATC
Statistics
Matches: 587, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 587 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:77918086 original size:89 final size:89
Alignment explanation
Indices: 77917975--77918272 Score: 270
Period size: 89 Copynumber: 3.3 Consensus size: 89
77917965 ACATACCCGA
*
77917975 TCTTATCTTCATTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
*
77918040 GAGTGGAG-AGATTTCAGCCACCAG
66 GAGTGGAGCAGA-TTCAACCACCAG
* ** * *
77918064 TCTTATCTTCACTGAGCAGGAGTGGAGCAGAT----TTCAGCCATCAG-CTTTATCTTCACTGAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGC--GAGTC-TTATCTTCACTGAG
** * * *
77918124 CAGGAGTGGAGCAGGCTAAACATACCCG
63 CAGGAGTGGAGCAGATTCAAC-CACCAG
* * * *
77918152 ATCTTTTCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCA-TGTATC
1 -TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGC
* * *
77918216 -GGCAATGGAGCAGATTCTAATCATCAG
64 AGG-AGTGGAGCAGATTC-AACCACCAG
* *
77918243 CCTTATCTTCACTGAGTAGGAGTGAAGCAG
1 TCTTATCTTCACTGAGCAGGAGTGAAGCAG
77918273 GCTAAGTATA
Statistics
Matches: 162, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
85 4 0.02
86 1 0.01
87 30 0.19
88 6 0.04
89 59 0.36
90 30 0.19
91 25 0.15
92 3 0.02
93 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (89 bp):
TCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTGAGCAG
GAGTGGAGCAGATTCAACCACCAG
Found at i:77918114 original size:44 final size:44
Alignment explanation
Indices: 77918019--77918137 Score: 206
Period size: 44 Copynumber: 2.7 Consensus size: 44
77918009 AATTTTGGCG
77918019 AGTCTTATCTTCACTGAGCAGGAGTGGAG-AGATTTCAGCCACC
1 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
*
77918062 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCATC
1 AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
77918106 AG-CTTTATCTTCACTGAGCAGGAGTGGAGCAG
1 AGTC-TTATCTTCACTGAGCAGGAGTGGAGCAG
77918138 GCTAAACATA
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
43 30 0.41
44 43 0.59
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTTCACTGAGCAGGAGTGGAGCAGATTTCAGCCACC
Found at i:77918241 original size:135 final size:134
Alignment explanation
Indices: 77918086--77918452 Score: 443
Period size: 135 Copynumber: 2.7 Consensus size: 134
77918076 TGAGCAGGAG
* ** * * *
77918086 TGGAGCAGATTTCAGCCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCC
1 TGGAGCAGATTCCAATCATCAGC-TTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* *
77918151 GATCTTTTCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCATGTA-T
65 GATCTTATCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTACT
*
77918215 CGGCAA
130 -AGCAA
* * * *
77918221 TGGAGCAGATTCTAATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAGTATAGCA
1 TGGAGCAGATTCCAATCATCAG-CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* * * * * * *
77918286 GATCTTATCTTCGCTGAGCAGGAG-CAGAGTAGATCGAATTTTGGTGAATCTTATCTCCCTGTAC
65 GATCTTATCTTCACTGAACAGGAGTGA-AGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAC
*
77918350 TAGCGA
129 TAGCAA
*
77918356 TGGAGCAGATTCCAATCATCAGACTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATATCA
1 TGGAGCAGATTCCAATCATCAG-CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCA
* *
77918421 GATCTTATC-TCTACTGAACAAGAGTGGAGCAG
65 GATCTTATCTTC-ACTGAACAGGAGTGAAGCAG
77918453 GTCAGATACA
Statistics
Matches: 195, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
134 3 0.02
135 190 0.97
136 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (134 bp):
TGGAGCAGATTCCAATCATCAGCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCAG
ATCTTATCTTCACTGAACAGGAGTGAAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTACTA
GCAA
Found at i:77926617 original size:26 final size:26
Alignment explanation
Indices: 77926560--77926618 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
77926550 ATATTTTAAC
* *
77926560 TAAAATAA-TAATGATATTAATTATT
1 TAAATTAATTAATGATATAAATTATT
77926585 TAAATTAATTAATGATA-AAATTATAT
1 TAAATTAATTAATGATATAAATTAT-T
*
77926611 TATATTAA
1 TAAATTAA
77926619 AATATAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TAAATTAATTAATGATATAAATTATT
Found at i:77933388 original size:34 final size:35
Alignment explanation
Indices: 77933322--77933389 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
77933312 TGTCCCATGA
*
77933322 AAATGTATCAATTGAATGATAATTTATCACTTTCT
1 AAATGTATCAATTAAATGATAATTTATCACTTTCT
** *
77933357 AAATGTATTTATTAAATTATAA-TTATCACTTTC
1 AAATGTATCAATTAAATGATAATTTATCACTTTC
77933390 CAAAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (35 bp):
AAATGTATCAATTAAATGATAATTTATCACTTTCT
Found at i:77950211 original size:18 final size:17
Alignment explanation
Indices: 77950172--77950214 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
77950162 CCTTTTGGGC
*
77950172 TGTGTGGGCTACACGAG
1 TGTGTGGGCCACACGAG
* *
77950189 CGTGTGGGCCCACACGGG
1 TGTGTGGG-CCACACGAG
77950207 TGTGTGGG
1 TGTGTGGG
77950215 ATTCTGGGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (17 bp):
TGTGTGGGCCACACGAG
Found at i:77958502 original size:41 final size:41
Alignment explanation
Indices: 77958445--77958526 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
77958435 TGTTGTTGTG
77958445 GAGCAATCGAAACATATACAACACATCAAAAAATTCTTAGA
1 GAGCAATCGAAACATATACAACACATCAAAAAATTCTTAGA
* * * *
77958486 GAGCAATTGGAACATATACAATACATCAAAAGATTCTTAGA
1 GAGCAATCGAAACATATACAACACATCAAAAAATTCTTAGA
77958527 TGGAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (41 bp):
GAGCAATCGAAACATATACAACACATCAAAAAATTCTTAGA
Found at i:77960932 original size:8 final size:8
Alignment explanation
Indices: 77960919--77960943 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77960909 GTTCAACCAG
77960919 AATAATAA
1 AATAATAA
77960927 AATAATAA
1 AATAATAA
77960935 AATAATAA
1 AATAATAA
77960943 A
1 A
77960944 TGGTTCTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:77962504 original size:23 final size:24
Alignment explanation
Indices: 77962478--77962525 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
77962468 AAAGGGGTTA
* *
77962478 TAAGGAA-ATGAAATGTGAAGAGT
1 TAAGGAATATGAAAGGTGAAAAGT
77962501 TAAGGAATATGAAAGGTGAAAAGT
1 TAAGGAATATGAAAGGTGAAAAGT
77962525 T
1 T
77962526 GATTATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (24 bp):
TAAGGAATATGAAAGGTGAAAAGT
Found at i:77964288 original size:11 final size:12
Alignment explanation
Indices: 77964263--77964294 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
77964253 ACTTATGTAT
77964263 AAATAATATTAA
1 AAATAATATTAA
77964275 AAATAATA-TAA
1 AAATAATATTAA
77964286 AAAT-ATATT
1 AAATAATATT
77964295 TATCATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 8 0.42
12 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATAATATTAA
Found at i:77968395 original size:46 final size:46
Alignment explanation
Indices: 77968340--77968559 Score: 431
Period size: 46 Copynumber: 4.8 Consensus size: 46
77968330 GGTTGAGCAT
*
77968340 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
77968386 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
77968432 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
77968478 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
77968524 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
77968560 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (46 bp):
CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:77970947 original size:31 final size:31
Alignment explanation
Indices: 77970909--77970977 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
77970899 TCCTGACCAT
* *
77970909 ATTAAATTACTGCAATAGTTAATACATCCCA
1 ATTAAATTACTACAATAGTTAATACATCACA
* * *
77970940 ATTAAATTATTACATTAGTTAATATATCACA
1 ATTAAATTACTACAATAGTTAATACATCACA
77970971 ATTAAAT
1 ATTAAAT
77970978 AAAAAAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (31 bp):
ATTAAATTACTACAATAGTTAATACATCACA
Found at i:77979416 original size:24 final size:24
Alignment explanation
Indices: 77979306--77979428 Score: 81
Period size: 24 Copynumber: 5.0 Consensus size: 24
77979296 GATTAAAGGT
* *
77979306 TCTTTGTGAACTTCCAGTTAATTGGC
1 TCTTTGTGAACTTCCCGAT-A-TGGC
*
77979332 TCTTTGTGAGCTTCCCGATA-GTGC
1 TCTTTGTGAACTTCCCGATATG-GC
* **
77979356 CCGCT-TGAACTTCCCGATATTGGC
1 TCTTTGTGAACTTCCCGATA-TGGC
* * * *
77979380 TATCTG-GAGCTTCCCGATATGGT
1 TCTTTGTGAACTTCCCGATATGGC
*
77979403 TCTTTGTGAACTTCCTGATTATGGC
1 TCTTTGTGAACTTCCCGA-TATGGC
77979428 T
1 T
77979429 GTTATGAGCT
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
23 21 0.28
24 29 0.39
25 8 0.11
26 16 0.22
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (24 bp):
TCTTTGTGAACTTCCCGATATGGC
Found at i:77979491 original size:23 final size:24
Alignment explanation
Indices: 77979462--77979512 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
77979452 CCCGAATAAT
* *
77979462 CTTCCCGATA-GGCTCTTTATGAG
1 CTTCCCGAAATGGCTCTGTATGAG
*
77979485 CTTCCCGAAATGGCTCTGTGTGAG
1 CTTCCCGAAATGGCTCTGTATGAG
77979509 CTTC
1 CTTC
77979513 TCGTTACAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (24 bp):
CTTCCCGAAATGGCTCTGTATGAG
Found at i:77982637 original size:17 final size:18
Alignment explanation
Indices: 77982615--77982648 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77982605 CACATTGAAG
77982615 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
77982632 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
77982649 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:77983793 original size:28 final size:29
Alignment explanation
Indices: 77983755--77983821 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
77983745 AAGTCTACAT
*
77983755 ACATGCATATGGCCCACTAGGACC-AATC
1 ACATTCATATGGCCCACTAGGACCAAATC
* * * *
77983783 TCATTCATATGGTCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGACCAAATC
77983812 ACATTCATAT
1 ACATTCATAT
77983822 ACATGCTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGACCAAATC
Found at i:77990627 original size:30 final size:30
Alignment explanation
Indices: 77990591--77990647 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
77990581 TAGGCACTTC
* *
77990591 CACACGGGTAAACCACATGCCCGTGTGAGG
1 CACACGGGCAAACCACACGCCCGTGTGAGG
**
77990621 CACACGGGCAGTCCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
77990648 TCATGGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.30, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGAGG
Found at i:77992842 original size:14 final size:13
Alignment explanation
Indices: 77992819--77992851 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
77992809 GGGATATCAA
77992819 AACAAGAATTAAG
1 AACAAGAATTAAG
77992832 AACACAGAATTAAG
1 AACA-AGAATTAAG
77992846 AACAAG
1 AACAAG
77992852 TTAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:77996601 original size:21 final size:22
Alignment explanation
Indices: 77996559--77996611 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
77996549 CCAGTAGCAC
*
77996559 CCTCCCCCTCATTTTCTTCCTT
1 CCTCCCCCTCATTTTCTACCTT
77996581 CCTCCCCCTTC-TTTTC-ACCTT
1 CCTCCCCC-TCATTTTCTACCTT
77996602 CTTCTCCCCC
1 C--CTCCCCC
77996612 GCAGGCCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.04, C:0.55, G:0.00, T:0.42
Consensus pattern (22 bp):
CCTCCCCCTCATTTTCTACCTT
Found at i:77996652 original size:11 final size:10
Alignment explanation
Indices: 77996636--77996684 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
77996626 TTCTCTTCCC
77996636 TTTCTTCCTT
1 TTTCTTCCTT
*
77996646 TTCTCTTTCTT
1 TT-TCTTCCTT
77996657 TTTC-TCCTCT
1 TTTCTTCCT-T
*
77996667 TTTCTTCCAT
1 TTTCTTCCTT
77996677 TTTCTTCC
1 TTTCTTCC
77996685 CTACGTCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 3 0.09
10 18 0.55
11 12 0.36
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCTTCCTT
Found at i:77998445 original size:15 final size:14
Alignment explanation
Indices: 77998413--77998471 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
77998403 TTTGAGTCCC
77998413 TTTTATTTT-TCTTAT
1 TTTTATTTTAT-TT-T
77998428 TTTTATTCTTATTTT
1 TTTTATT-TTATTTT
*
77998443 TTTAATTTTATTTT
1 TTTTATTTTATTTT
*
77998457 CCTTTA-TTTATTTT
1 -TTTTATTTTATTTT
77998471 T
1 T
77998472 GAAGACTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.41
15 17 0.46
16 4 0.11
17 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTATTTT
Found at i:77998471 original size:20 final size:20
Alignment explanation
Indices: 77998424--77998471 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
77998414 TTTATTTTTC
*
77998424 TTATTTTTATTCTTATTTTT
1 TTATTTTTATTCTTATTTAT
* *
77998444 TTAATTTTATT-TTCCTTTAT
1 TTATTTTTATTCTT-ATTTAT
77998464 TTATTTTT
1 TTATTTTT
77998472 GAAGACTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTTATTCTTATTTAT
Found at i:78000405 original size:19 final size:19
Alignment explanation
Indices: 78000368--78000405 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
78000358 CAAGTCAGAA
*
78000368 TTGCACACAGTTTGAGCAC
1 TTGCACACAGTGTGAGCAC
78000387 TTGCACACAGGTGTG-GCAC
1 TTGCACACA-GTGTGAGCAC
78000406 ACGGCCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (19 bp):
TTGCACACAGTGTGAGCAC
Found at i:78002182 original size:34 final size:33
Alignment explanation
Indices: 78002099--78002182 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
78002089 TATACTGCAC
* *
78002099 TGATTCTGTAATGGGCTTAGGCCCCACTAATAT
1 TGATTCTGAAATGGGCTCAGGCCCCACTAATAT
* * ** *
78002132 TG-TTACTGGATTGGGCTCAGGCCCACACTGTTTT
1 TGATT-CTGAAATGGGCTCAGGCCC-CACTAATAT
78002166 TGATTCTGAAATGGGCT
1 TGATTCTGAAATGGGCT
78002183 ATGGCCCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
32 2 0.05
33 18 0.45
34 18 0.45
35 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (33 bp):
TGATTCTGAAATGGGCTCAGGCCCCACTAATAT
Found at i:78005090 original size:48 final size:49
Alignment explanation
Indices: 78005035--78005238 Score: 244
Period size: 48 Copynumber: 4.3 Consensus size: 49
78005025 CATGTGAATA
* *
78005035 TGTGATTATGTGATCCCATATAAGACCATATCTGGGATATGGCATCGG-
1 TGTGATTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT
* * *
78005083 TGTGATTATATGTTTCCGTATAAGACCATATCTGGGATATGGCATCTGT
1 TGTGATTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT
*
78005132 ATGT-AATATGTGATTCCG-ATAAGA-C---TCTGGGATATGGCATCGGT
1 -TGTGATTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT
* * *
78005176 CTGTGA-AATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTT
1 -TGTGATTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGG-T
78005226 TGTGATTATGTGA
1 TGTGATTATGTGA
78005239 CTCTGTTTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
44 32 0.24
45 7 0.05
46 1 0.01
47 1 0.01
48 49 0.37
49 32 0.24
50 10 0.08
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (49 bp):
TGTGATTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGT
Found at i:78010706 original size:11 final size:12
Alignment explanation
Indices: 78010677--78010710 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
78010667 TGTTTGGTAT
78010677 TTTTGAAATTAG
1 TTTTGAAATTAG
78010689 TTTTGAAATTAG
1 TTTTGAAATTAG
78010701 -TTTGAAATTA
1 TTTTGAAATTA
78010711 AAAGGGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
TTTTGAAATTAG
Found at i:78011704 original size:48 final size:49
Alignment explanation
Indices: 78011639--78011792 Score: 170
Period size: 48 Copynumber: 3.1 Consensus size: 49
78011629 TGTGACTATA
* *
78011639 TGATTATGTG-ATCCCGTATAAGACCATATCTGGGATATGGCATCGGTG
1 TGATTATATGTATTCCGTATAAGACCATATCTGGGATATGGCATCGGTG
** * * *
78011687 TGATTATATGT-TTCCGTATAATTCCATAACTAGGATATGGCATCGGTA
1 TGATTATATGTATTCCGTATAAGACCATATCTGGGATATGGCATCGGTG
* * *
78011735 TG-TGATATGTAATTCCGTATCAGACCATATCTGGGCTATGGCATCGGTTTG
1 TGATTATATGT-ATTCCGTATAAGACCATATCTGGGATATGGCATCGG--TG
78011786 TGATTAT
1 TGATTAT
78011793 GTGACTTTGT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
47 7 0.08
48 42 0.50
49 29 0.35
51 3 0.04
52 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (49 bp):
TGATTATATGTATTCCGTATAAGACCATATCTGGGATATGGCATCGGTG
Found at i:78011775 original size:49 final size:48
Alignment explanation
Indices: 78011643--78011794 Score: 171
Period size: 49 Copynumber: 3.1 Consensus size: 48
78011633 ACTATATGAT
* * *
78011643 TATGTGATCCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATTA
1 TATGT-ATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATG-TGA
** * *
78011693 TATGT-TTCCGTATAATTCCATAACTAGGATATGGCATCGGTATGTGA
1 TATGTATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGA
* * *
78011740 TATGTAATTCCGTATCAGACCATATCTGGGCTATGGCATCGGTTTGTGA
1 TATGT-ATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGA
78011789 TTATGT
1 -TATGT
78011795 GACTTTGTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 7 0.08
48 33 0.39
49 35 0.41
50 10 0.12
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (48 bp):
TATGTATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGA
Found at i:78014385 original size:17 final size:17
Alignment explanation
Indices: 78014363--78014406 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
78014353 ATGTATCATG
78014363 ATGTTATAAAAGGTCTA
1 ATGTTATAAAAGGTCTA
78014380 ATGTTATAAAAGGTCTA
1 ATGTTATAAAAGGTCTA
*
78014397 ATGTGATAAA
1 ATGTTATAAA
78014407 TGATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (17 bp):
ATGTTATAAAAGGTCTA
Found at i:78029273 original size:19 final size:19
Alignment explanation
Indices: 78029249--78029313 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
78029239 CGCCAATTTG
78029249 TCTTATTCAGAGGATAAGC
1 TCTTATTCAGAGGATAAGC
*
78029268 TCTTATTCAAAGGAT-A--
1 TCTTATTCAGAGGATAAGC
*
78029284 -CTGATTCA-A-GATAAGC
1 TCTTATTCAGAGGATAAGC
78029300 TCTTATTCAGAGGA
1 TCTTATTCAGAGGA
78029314 GGAATAGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 7 0.19
17 7 0.19
18 2 0.05
19 16 0.43
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (19 bp):
TCTTATTCAGAGGATAAGC
Found at i:78038805 original size:19 final size:19
Alignment explanation
Indices: 78038781--78038845 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
78038771 CGCCAATTTG
78038781 TCTTATTCAGAGGATAAGC
1 TCTTATTCAGAGGATAAGC
78038800 TCTTATTCAGAGGAT-A--
1 TCTTATTCAGAGGATAAGC
*
78038816 -CTGATTCA-A-GATAAGC
1 TCTTATTCAGAGGATAAGC
78038832 TCTTATTCAGAGGA
1 TCTTATTCAGAGGA
78038846 GGAATAGACC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 7 0.18
17 7 0.18
18 2 0.05
19 17 0.45
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (19 bp):
TCTTATTCAGAGGATAAGC
Found at i:78040095 original size:221 final size:221
Alignment explanation
Indices: 78039712--78040154 Score: 868
Period size: 221 Copynumber: 2.0 Consensus size: 221
78039702 CAAGAGGAGG
78039712 ATACTCAACCCCCAACCGAAGATATGGCTGAAAACCAAGACAATCAGCTACCTCCTTAATCAAAA
1 ATACTCAACCCCCAACCGAAGATATGGCTGAAAACCAAGACAATCAGCTACCTCCTTAATCAAAA
78039777 TCTTGCTCCACACATTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTAATCGAGCATAGT
66 TCTTGCTCCACACATTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTAATCGAGCATAGT
*
78039842 TAGACCTGTTGTAGCTGCAAATACTTTTGAACTAAAGCCTAACACTATTCAAATGATACAGCAAT
131 TAGACCTGTTGTAGCTGCAAATACTTTTGAACTAAAACCTAACACTATTCAAATGATACAGCAAT
78039907 TTGTTCAGTTTGATGGTTTGCAAGAT
196 TTGTTCAGTTTGATGGTTTGCAAGAT
78039933 ATACTCAACCCCCAACCGAAGATATGGCTGAAAACCAAGACAATCAGCTACCTCCTTAATCAAAA
1 ATACTCAACCCCCAACCGAAGATATGGCTGAAAACCAAGACAATCAGCTACCTCCTTAATCAAAA
78039998 TCTTGCTCCACACATTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTAATCGAGCATAGT
66 TCTTGCTCCACACATTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTAATCGAGCATAGT
*
78040063 TAGACTTGTTGTAGCTGCAAATACTTTTGAACTAAAACCTAACACTATTCAAATGATACAGCAAT
131 TAGACCTGTTGTAGCTGCAAATACTTTTGAACTAAAACCTAACACTATTCAAATGATACAGCAAT
78040128 TTGTTCAGTTTGATGGTTTGCAAGAT
196 TTGTTCAGTTTGATGGTTTGCAAGAT
78040154 A
1 A
78040155 AGGATCCCAA
Statistics
Matches: 220, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 220 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (221 bp):
ATACTCAACCCCCAACCGAAGATATGGCTGAAAACCAAGACAATCAGCTACCTCCTTAATCAAAA
TCTTGCTCCACACATTATGTATGATTATGCTAAACCTTCTTTAACAGGAACTAATCGAGCATAGT
TAGACCTGTTGTAGCTGCAAATACTTTTGAACTAAAACCTAACACTATTCAAATGATACAGCAAT
TTGTTCAGTTTGATGGTTTGCAAGAT
Found at i:78044333 original size:16 final size:16
Alignment explanation
Indices: 78044314--78044346 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
78044304 TATTTCATCG
78044314 CCCTCGCGGTTCAGCA
1 CCCTCGCGGTTCAGCA
78044330 CCCTCGCGGTTCAGCA
1 CCCTCGCGGTTCAGCA
78044346 C
1 C
78044347 TAGACGGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.45, G:0.24, T:0.18
Consensus pattern (16 bp):
CCCTCGCGGTTCAGCA
Found at i:78046891 original size:13 final size:13
Alignment explanation
Indices: 78046875--78046907 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
78046865 TCGCACAAGG
78046875 GCGTGTCACACGA
1 GCGTGTCACACGA
*
78046888 GCGTGTCACACGG
1 GCGTGTCACACGA
78046901 GCGTGTC
1 GCGTGTC
78046908 CCTGCCGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.18
Consensus pattern (13 bp):
GCGTGTCACACGA
Found at i:78049184 original size:79 final size:80
Alignment explanation
Indices: 78049040--78049198 Score: 198
Period size: 79 Copynumber: 2.0 Consensus size: 80
78049030 GGTAAGGTGT
* * *
78049040 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGTCGATGCCATGTCCAAGAC
1 CGATGCCATGTCCCAGACATAGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCAAGAC
78049105 ATGGTCTTACAATAGC
66 AT-GTCTTACAATAGC
* * * * *
78049121 CGATG-CATGTCCCAGACA-AGTCTTACACTGGCTTACCTCTCGAGGCCGATG-CATGTCCCAGA
1 CGATGCCATGTCCCAGACATAGTCTTACACTGACTCACATCTC-AAGCCGATGCCATGTCCAAGA
*
78049183 CATGTCTTACACTAGC
65 CATGTCTTACAATAGC
78049199 TTTCGTCTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 12 0.18
79 31 0.46
80 20 0.29
81 5 0.07
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (80 bp):
CGATGCCATGTCCCAGACATAGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCAAGAC
ATGTCTTACAATAGC
Found at i:78049241 original size:48 final size:46
Alignment explanation
Indices: 78049119--78049289 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
78049109 TCTTACAATA
* * *
78049119 GCCGATGCATGTCCCAGACAAGTCTTACACTGGCTTACCTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTTCCTCTCAAG
* * *
78049165 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTTCCTCTCAAG
* * * * * * *
78049211 GTCGATGCCATGTCCTAGCCATGGTCTTACATTGGCTTTCATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTTCCT-CTCAAG
78049259 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
78049290 AGCTAACAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 55 0.53
47 24 0.23
48 23 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTTCCTCTCAAG
Found at i:78058672 original size:24 final size:22
Alignment explanation
Indices: 78058636--78058681 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
78058626 ATATAACGAG
78058636 CATATATAACACATCATTCATCAT
1 CATATATAACACAT-A-TCATCAT
**
78058660 CATATATTTCACATATCATCAT
1 CATATATAACACATATCATCAT
78058682 TGAATCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (22 bp):
CATATATAACACATATCATCAT
Found at i:78059117 original size:44 final size:42
Alignment explanation
Indices: 78059037--78059141 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 42
78059027 TCCCAGAAAA
* ** *
78059037 GGTCTTACACGAAATCATAAACGATGCCAATGTCCCATACAT
1 GGTCTTACACGAAATCACAAACGATGCCAACATCCCAAACAT
78059079 GGTCTTACACGTAAATCACAAATCGATGCCAACATCCCAAACAT
1 GGTCTTACACG-AAATCACAAA-CGATGCCAACATCCCAAACAT
78059123 GGTCTTACACGAAATCACA
1 GGTCTTACACGAAATCACA
78059142 TATCAAAATC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 11 0.19
43 17 0.30
44 29 0.51
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (42 bp):
GGTCTTACACGAAATCACAAACGATGCCAACATCCCAAACAT
Found at i:78065470 original size:40 final size:40
Alignment explanation
Indices: 78065425--78065576 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
78065415 ATAACCACAA
* * *
78065425 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
78065465 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
78065505 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
78065545 GCATAAATGCCTTCGGGACTTAGCCCAGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
78065577 CATTCAAATT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:78071165 original size:48 final size:48
Alignment explanation
Indices: 78071111--78071203 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
78071101 CTAAATTGTG
78071111 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGA
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGA
78071159 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
78071204 TGACGGGGCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (48 bp):
ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGA
Found at i:78071239 original size:47 final size:47
Alignment explanation
Indices: 78071107--78071253 Score: 150
Period size: 48 Copynumber: 3.1 Consensus size: 47
78071097 AATTCTAAAT
* * * *
78071107 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATA
* * * * *
78071154 TGCGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATA
** * * * *
78071202 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATA
78071249 TGTGA
1 TGTGA
78071254 TAAGTCCCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 41 0.47
48 46 0.53
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.26
Consensus pattern (47 bp):
TGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATA
Found at i:78071433 original size:38 final size:37
Alignment explanation
Indices: 78071376--78071454 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
78071366 CTGAGCTCTA
* *
78071376 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
78071414 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
78071451 AAGA
1 AAGA
78071455 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:78078247 original size:27 final size:27
Alignment explanation
Indices: 78078217--78078394 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78078207 ATATTGAGTC
* * * *
78078217 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78078244 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78078271 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
78078299 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78078326 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78078353 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78078380 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78078395 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78078356 original size:82 final size:81
Alignment explanation
Indices: 78078238--78078393 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78078228 TGCTATATAA
* *
78078238 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
78078303 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78078320 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78078384 CACTTAGTGC
65 CACTTAGTGC
78078394 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78082819 original size:125 final size:125
Alignment explanation
Indices: 78082592--78082841 Score: 401
Period size: 125 Copynumber: 2.0 Consensus size: 125
78082582 GCTATCATCG
* * * * * *
78082592 AGAAACCTTTGACAAATCGTCGGTAATAACCGGCGAGTCCCAAAAAGCTCCGAACCTCAGTAATA
1 AGAAACCTTTCACAAACCGGCGGTAACAAACGGCAAGTCCCAAAAAGCTCCGAACCTCAGTAATA
* * *
78082657 TTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCC
66 TTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCC
*
78082717 AGAAACCTTTCACAAACCGGCGGTAGCAAACGGCAAGTCCCAAAAAGCTCCGAACCTCAGTAATA
1 AGAAACCTTTCACAAACCGGCGGTAACAAACGGCAAGTCCCAAAAAGCTCCGAACCTCAGTAATA
*
78082782 TTTCTCGGTGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCC
66 TTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCC
78082842 GATGCGGATA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 114 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (125 bp):
AGAAACCTTTCACAAACCGGCGGTAACAAACGGCAAGTCCCAAAAAGCTCCGAACCTCAGTAATA
TTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCC
Found at i:78094567 original size:48 final size:48
Alignment explanation
Indices: 78094511--78094609 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
78094501 CCTTGCAAAG
*
78094511 AAGGGAAAGATCACGTGAATTAATAGCGCTTTGATAGGGTAAAGTACT
1 AAGGGAAAGAGCACGTGAATTAATAGCGCTTTGATAGGGTAAAGTACT
78094559 AAGGGAAAGAGCACGTGAATTAATAGCGCTTTGATAGGGTAAAGTACT
1 AAGGGAAAGAGCACGTGAATTAATAGCGCTTTGATAGGGTAAAGTACT
78094607 AAG
1 AAG
78094610 TAGCCCAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.23
Consensus pattern (48 bp):
AAGGGAAAGAGCACGTGAATTAATAGCGCTTTGATAGGGTAAAGTACT
Found at i:78097344 original size:48 final size:48
Alignment explanation
Indices: 78097229--78097554 Score: 287
Period size: 48 Copynumber: 6.9 Consensus size: 48
78097219 GTGAATTGCT
* * *
78097229 GATGCCATGTTCCAAACATGGTCTTACACT-G-TCTC--A-C-AGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAATGCC
* * * * *
78097271 GAGGACGATGTCTCAAACATGGTCTTACACTAGCTCTCATCTCAATGCC
1 GATG-CCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAATGCC
* * * * *
78097320 AATGCCATGTCCCAAACATGGTCTTACACTAGTTCTCATA--ATGTGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCA-AT-GCC
* ** * * *
78097368 GATGCCGTGTCCCAGGCATGGTTTTACACTGGCGCACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAATGCC
* * * *
78097416 GATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAC-AT-CAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAATGC-C
*
78097463 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCC
1 -GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAAT-GCC
* *
78097512 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCA
78097555 CCCAAATGTC
Statistics
Matches: 226, Mismatches: 42, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.01
43 23 0.10
44 1 0.00
45 4 0.02
46 2 0.01
47 4 0.02
48 180 0.80
49 7 0.03
50 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAATGCC
Done.