Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 138 of 202
Found at i:42890164 original size:94 final size:94
Alignment explanation
Indices: 42890001--42890190 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 94
42889991 AAATTGCCAA
* *
42890001 GTAATAGTGCAGTAACTTGTAGTTTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAG
1 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
*
42890066 TCCTGTGAAATAGAATTCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
42890095 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
1 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
42890160 TCCTGTGAAATAGAAATCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
42890189 GT
1 GT
42890191 TTAAGAATGA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (94 bp):
GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
TCCTGTGAAATAGAAATCTGGTTAAACAG
Found at i:42892315 original size:129 final size:126
Alignment explanation
Indices: 42892068--42892327 Score: 330
Period size: 129 Copynumber: 2.0 Consensus size: 126
42892058 CAGACGGGGT
* * *
42892068 TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCTGCACTTAGTCCCT
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT
* * *
42892133 CAGAAAGGCTTCACTTGGGAGCAAGCGGTATTCGCAGTCACACAGCACATGGCAGTTTGAG
66 CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
* * *
42892194 TGGTGATGAAAATGATTCTGAAGTTAACAGAGAATCCTTGGGCTTGT-T-TGCAGCTCTTAATGG
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGG--TGTATCTGCAGCACTT-A-GG
* *
42892257 CCTCTCCGAAAGGCTTCA-TTGGGGAGCAGGCGGCATGCGCAGTAACACAAG-ACATGGCAGTTT
62 CC-CTCAGAAAGGCTTCACTT-GGGAGCAAGCGGCATGCGCAGTAACAC-AGCACATGGCAGTTT
42892320 GAG
124 GAG
42892323 TGGTG
1 TGGTG
42892328 GAAATGGAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
126 47 0.41
127 2 0.02
128 8 0.07
129 57 0.49
130 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (126 bp):
TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT
CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
Found at i:42894101 original size:2 final size:2
Alignment explanation
Indices: 42894094--42894128 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42894084 TTTTACTATT
42894094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42894129 TTGTTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42894288 original size:2 final size:2
Alignment explanation
Indices: 42894281--42894313 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
42894271 TATGAAATTA
42894281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42894314 ACTATCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42894486 original size:20 final size:20
Alignment explanation
Indices: 42894457--42894526 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
42894447 TTTGATTCGG
42894457 AAAA-AAATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
42894476 AAAATAAATTTCTAGGAT-TTC-
1 AAAATAAATTT-TA--ATGTTCA
** **
42894497 TTAATTTATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
42894517 AAAATAAATT
1 AAAATAAATT
42894527 AATTTAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 11
0.66 0.14 0.20
Matches are distributed among these distances:
18 2 0.05
19 7 0.19
20 14 0.38
21 9 0.24
22 3 0.08
23 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
AAAATAAATTTTAATGTTCA
Found at i:42898096 original size:43 final size:43
Alignment explanation
Indices: 42898025--42898116 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
42898015 TTATGTGGAA
* * *
42898025 AAACACCGCTATAGAACATGACCCTTAGCGGCGTTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
*
42898068 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
42898111 AAACGC
1 AAACGC
42898117 TACTAACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
Found at i:42919172 original size:106 final size:106
Alignment explanation
Indices: 42918987--42919200 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 106
42918977 CGTTTTTCAG
42918987 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
1 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
42919052 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
66 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
*
42919093 TGGTGTCAAAAATAGTGATTTCAGAATTACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
1 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
*
42919158 ATATTTATGAGTCAAATCTAGTAATATAATGAATCATGATT
66 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
42919199 TG
1 TG
42919201 ATAGAATTGT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (106 bp):
TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
Found at i:42923225 original size:53 final size:53
Alignment explanation
Indices: 42923148--42923307 Score: 230
Period size: 53 Copynumber: 3.0 Consensus size: 53
42923138 CCATGGCACT
* * * *
42923148 GAAGAACCATATCATGTTAGACCGTAACTGGTGGGTTATGACATCATATAAGAA
1 GAAG-ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* *
42923202 GAAGACCATATCGTGTAAAACCGTAATTGGTGGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* * *
42923255 GAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
42923308 ATTTAAGGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 91 0.96
54 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
Found at i:42923625 original size:31 final size:32
Alignment explanation
Indices: 42923551--42923627 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
42923541 CTCTAGATAC
* *
42923551 GAAAGCTTTTGTGGTGAGTACTGGATATTAAG
1 GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
*
42923583 GAAAGCTTTTGTGGTGAGTACTAGATGTAAAG
1 GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
*
42923615 G-ATGCTTTTGTGG
1 GAAAGCTTTTGTGG
42923628 CAAAACTCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 11 0.27
32 30 0.73
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.35
Consensus pattern (32 bp):
GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
Found at i:42923657 original size:92 final size:93
Alignment explanation
Indices: 42923489--42923659 Score: 213
Period size: 92 Copynumber: 1.8 Consensus size: 93
42923479 ACTCTGGATG
* * * *
42923489 GGAAAGCCTTTTTGGTTAGTACTAGGTATTAAAGAATGGTTTTATGGCACAACTCTAGATACGAA
1 GGAAAGCCTTTTTGGTGAGTACTAGGTATTAAAGAATGCTTTTATGGCAAAACTCTAGAAACGAA
* *
42923554 AGCTTTTGTGGTGAGTACTGGATATTAA
66 AGCCTTAGTGGTGAGTACTGGATATTAA
* * *
42923582 GGAAAG-CTTTTGTGGTGAGTACTA-G-ATGTAAAGGATGCTTTTGTGGCAAAACTCTAGAAAGG
1 GGAAAGCCTTTT-TGGTGAGTACTAGGTAT-TAAAGAATGCTTTTATGGCAAAACTCTAGAAACG
*
42923644 TAAGCCTTAGTGGTGA
64 AAAGCCTTAGTGGTGA
42923660 ACATTTAAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
91 2 0.03
92 47 0.71
93 17 0.26
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (93 bp):
GGAAAGCCTTTTTGGTGAGTACTAGGTATTAAAGAATGCTTTTATGGCAAAACTCTAGAAACGAA
AGCCTTAGTGGTGAGTACTGGATATTAA
Found at i:42934818 original size:18 final size:18
Alignment explanation
Indices: 42934795--42934833 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42934785 GCCGAGTGGG
42934795 CCACACGAGCGTGCGGGC
1 CCACACGAGCGTGCGGGC
* * *
42934813 CCACACGGGTGTGTGGGC
1 CCACACGAGCGTGCGGGC
42934831 CCA
1 CCA
42934834 TTTTTAGCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.38, T:0.10
Consensus pattern (18 bp):
CCACACGAGCGTGCGGGC
Found at i:42945282 original size:39 final size:39
Alignment explanation
Indices: 42945223--42945310 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
42945213 CATCATGACA
* *
42945223 TCACGAGATCATGACATCACAAAGTTAGGTTTCTCCATG
1 TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
**
42945262 TCACGACATCATGATGTCACAAAGTTAGGCTTCTCCATG
1 TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
42945301 TCACGACATC
1 TCACGACATC
42945311 GACCCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (39 bp):
TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
Found at i:42947379 original size:17 final size:17
Alignment explanation
Indices: 42947357--42947398 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
42947347 AAACTATAAT
42947357 CATTTCTAAATGTTTC-C
1 CATTTCTAAAT-TTTCAC
**
42947374 CATTTCTCCATTTTCAC
1 CATTTCTAAATTTTCAC
42947391 CATTTCTA
1 CATTTCTA
42947399 TCCATTTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CATTTCTAAATTTTCAC
Found at i:42963704 original size:32 final size:33
Alignment explanation
Indices: 42963639--42963711 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
42963629 CATTTTCTAA
* * *
42963639 GGCACCACCAGGGTGGGTCATCCCATTCTCTAT
1 GGCACCACCAGGGTGGGCCATCACATTCACTAT
42963672 GGCACCACCAGGGT-GGCCA-CGACATTCACTAT
1 GGCACCACCAGGGTGGGCCATC-ACATTCACTAT
42963704 GGCACCAC
1 GGCACCAC
42963712 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 21 0.58
33 14 0.39
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.18
Consensus pattern (33 bp):
GGCACCACCAGGGTGGGCCATCACATTCACTAT
Found at i:42965778 original size:50 final size:50
Alignment explanation
Indices: 42965662--42965855 Score: 264
Period size: 50 Copynumber: 3.9 Consensus size: 50
42965652 TGATAATAAA
** * *
42965662 ATGCCATA-GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCA-ACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTG
* * * **
42965713 ATGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
42965763 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
42965813 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42965856 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:42971591 original size:7 final size:7
Alignment explanation
Indices: 42971577--42971605 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
42971567 CATAATTGAT
42971577 TTTA-TA
1 TTTAGTA
42971583 TTTAGTA
1 TTTAGTA
42971590 TTTAGTA
1 TTTAGTA
42971597 TTTAGTA
1 TTTAGTA
42971604 TT
1 TT
42971606 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (7 bp):
TTTAGTA
Found at i:42971598 original size:14 final size:13
Alignment explanation
Indices: 42971577--42971611 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
42971567 CATAATTGAT
42971577 TTTATATTTAGTA
1 TTTATATTTAGTA
42971590 TTTAGTATTTAGTA
1 TTTA-TATTTAGTA
42971604 TTATATAT
1 TT-TATAT
42971612 ATAACTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTATATTTAGTA
Found at i:42971742 original size:14 final size:13
Alignment explanation
Indices: 42971718--42971746 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42971708 AATGAACAGA
42971718 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
42971731 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
42971744 GGC
1 GGC
42971747 AGAAACTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.07
Consensus pattern (13 bp):
GGCCCAAAAAAAT
Found at i:42979695 original size:44 final size:44
Alignment explanation
Indices: 42979606--42980154 Score: 427
Period size: 44 Copynumber: 12.5 Consensus size: 44
42979596 GCAGATCAGT
* * * *
42979606 GAAGATCGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* *
42979650 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
42979694 GAAGAAAGCAGATCTTGTCTT-C---ATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
42979734 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * *
42979778 GAAGATGCAGATCTTGCCTTCCCATATTGGTGGTGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * * * *
42979822 CAATAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATG
1 GAA-GATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
42979866 GAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
42979911 AAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
** * * * *
42979955 GAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * ** *
42979999 GAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AAGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * *
42980043 CAAGATGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * ** * * *
42980087 GAAGAAAGTAAATCTTGTCTTTATGTATT-GAGGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* *
42980131 GAAGATAGCAAATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
42980155 GCACGGACAG
Statistics
Matches: 393, Mismatches: 94, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
39 1 0.00
40 27 0.07
41 6 0.02
43 69 0.18
44 204 0.52
45 86 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
Found at i:42980093 original size:132 final size:132
Alignment explanation
Indices: 42979606--42980140 Score: 819
Period size: 132 Copynumber: 4.1 Consensus size: 132
42979596 GCAGATCAGT
* *
42979606 GAAGATCGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* *
42979671 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTC----ATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
42979732 TC
131 TC
*
42979734 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* * * * *
42979799 CCATATTGGTGGTGGAGTAGATCCAATAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
*
42979864 TG
131 TC
* * * * *
42979866 GAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGCCTT
*
42979931 CCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
42979996 ATC
130 ATC
* *
42979999 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* * *
42980064 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGTATTGAG-GTGAAGTAG
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG-GCGTGAAGTAG
42980128 ATC
130 ATC
42980131 GAAGATAGCA
1 GAAGATAGCA
42980141 AATCTTGCCT
Statistics
Matches: 371, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
128 104 0.28
132 147 0.40
133 120 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:42980115 original size:265 final size:260
Alignment explanation
Indices: 42979618--42980137 Score: 826
Period size: 265 Copynumber: 2.0 Consensus size: 260
42979608 AGATCGCAGG
* *
42979618 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
* *
42979683 CGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
66 CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
* * * * *
42979748 TTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCCCATATTGGTGGTG
131 CTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGGTGGCG
* * * *
42979813 GAGTAGATCCAATAAAGCAGATCTTGTCTTCATGTATTG-GCGTGAAGTAGATGGAAGATAACAG
196 AAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAG-GTGAAGTAGATCGAAGATAACAG
42979877 A
260 A
*
42979878 TCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTG
1 TCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTG
42979943 GCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
65 GCGAAGTAGATCGAAGAAAACAGATCTTGTCTTC----ATTGGCGTGAAGTAGATCGAAGATAGC
42980008 AGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGG
126 AGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGG
* * *
42980073 TGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGTATTGAGGTGAAGTAGATCGAAGATA
191 TGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAGGTGAAGTAGATCGAAGATA
42980138 GCAAATCTTG
Statistics
Matches: 237, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
260 21 0.09
261 72 0.30
265 143 0.60
266 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (260 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
CTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGGTGGCG
AAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAGGTGAAGTAGATCGAAGATAACAGA
Found at i:42980265 original size:265 final size:265
Alignment explanation
Indices: 42979657--42980268 Score: 618
Period size: 265 Copynumber: 2.3 Consensus size: 265
42979647 ATCGAAGATG
* * * * * * * *
42979657 CAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT----
1 CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
* * * *
42979718 TGGCGTGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66 TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
* * * * *
42979783 TGCAGATCTTGCCTTCCCATATTGGTGGTGGAGTAGATCCAATAAAGCAGATCTTGTCTTCATGT
131 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
* * * * ** * **
42979848 ATTGGCGTGAAGTAGATGGAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAA
196 ATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGGCAGCGAAGCAGATCAA
**
42979913 AGATG
261 AGAAC
* * * * * * *
42979918 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTAT
1 CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
*
42979983 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
66 TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
* * *
42980048 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGT
131 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
* * *
42980113 ATTGAG-GTGAAGTAGATCGAAGATAGCAAATCTTGCCTTCCTGCA-CGGACAGCGAAGCAGATC
196 ATTG-GCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGG-CAGCGAAGCAGATC
*
42980176 GAAGACAC
259 AAAGA-AC
** * * * *
42980184 CAG-CCTTG-CCTCCC-TGGGTTGTAGCGGAGCAG-GCTAA-AAATAGCAGATCTT-TCCTTCCT
1 CAGACCTTGTCCTCCCAT-ACTGGTAGCGAAGCAGAGCGAAGAAA-A-CAGATCTTGT-CTTCAT
*
42980243 GCACTGACAGTGAAGCAGATCGAAGA
62 GCACTGAC-GTGAAGTAGATCGAAGA
42980269 CACCAACCTT
Statistics
Matches: 295, Mismatches: 44, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
261 58 0.20
262 3 0.01
263 6 0.02
264 34 0.12
265 190 0.64
266 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (265 bp):
CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
ATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGGCAGCGAAGCAGATCAA
AGAAC
Found at i:42980464 original size:88 final size:88
Alignment explanation
Indices: 42980135--42980452 Score: 456
Period size: 88 Copynumber: 3.6 Consensus size: 88
42980125 TAGATCGAAG
* *
42980135 ATAGCAAATCTTGCCTTCCTGCACGGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
42980200 GGTTGTAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * *
42980223 ATAGCAGATCTTTCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
42980288 GGTTGCAACGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * * * *
42980311 ATAGCAGATCTTACATTCCTGCACTGACAGTGAAGTAGATCTAAGACACCAGCCTTGCCTACCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
42980376 GGTTGCAGCGGAACAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * * *
42980399 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCC
42980453 CTATCTCCCT
Statistics
Matches: 204, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 204 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:42980517 original size:44 final size:44
Alignment explanation
Indices: 42980452--42980617 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
42980442 TGACCCCAGC
42980452 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
42980496 CCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
42980540 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
42980584 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTAAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTAAA
42980618 AATAGCAGAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 108 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:42980680 original size:88 final size:88
Alignment explanation
Indices: 42980588--42980750 Score: 236
Period size: 88 Copynumber: 1.9 Consensus size: 88
42980578 GTGAATCCTA
* * *
42980588 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
42980653 GCAGATCGAAAACTCCAGCCTTG
66 GCAGATCGAAAACTCCAGCCTTG
* * * * * * *
42980676 TCTCCCTGAGCAGTAGTGGAATAGGTTGAAAATAGCAGGTCTTGTCTTCCTGTACTAGCAATGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
42980741 GCAGATCGAA
66 GCAGATCGAA
42980751 CTCATCAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
GCAGATCGAAAACTCCAGCCTTG
Found at i:42981367 original size:44 final size:44
Alignment explanation
Indices: 42981270--42981570 Score: 183
Period size: 44 Copynumber: 6.9 Consensus size: 44
42981260 TGCAATGGCG
* *
42981270 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTAAAGCGAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * **
42981314 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC-TTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * * *** *
42981357 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATC---T
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * * *
42981398 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAA-GCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACGAAT
* * * * ** *
42981442 AGTCTTATC-CTCTAGAAGTTGCAGT-AAGGCAGACTGAAGATGGCA-
1 AATCTTATCTCCCT-GAAGTTGCAGTGGA-GCAGA-TTAA-AACGAAT
* *
42981487 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCG-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACGAAT
* * * *
42981531 AATCCTATCTCCCTAAAGTTGCAGTGAAGCGGATTAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
42981571 CACAGATCTT
Statistics
Matches: 200, Mismatches: 42, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
40 21 0.10
41 9 0.05
43 18 0.09
44 120 0.60
45 28 0.14
46 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
Found at i:42981538 original size:217 final size:215
Alignment explanation
Indices: 42981263--42981723 Score: 627
Period size: 217 Copynumber: 2.1 Consensus size: 215
42981253 TTAACATTGC
* * *
42981263 AATGGCGAATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
1 AATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
* * **** * *
42981328 GAAGTTGCAGTGGAGCGGATTAAAACTTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
66 AAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCG
* * *
42981393 CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCTCTAGA
131 CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAGA
*
42981458 AGTTGCAGTAAGGCAGACTG
196 AATTGCAGTAAGGCAGACTG
42981478 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCG-ATAATCCTATCTC
1 -A-ATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAG-CGAATAATCCTATCTC
* *
42981542 CCTAAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGTAGAGTGCAAA
63 CCTAAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAA
* * * * *
42981607 TCGCATCTGGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGAAAGTCTTATCCCCC
128 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCC
** *
42981672 AGAAATTGCAGTGGGGCGGACTG
193 AGAAATTGCAGTAAGGCAGACTG
* * *
42981695 AATGAACAAATCCTATCTCCCTAAAGTTG
1 AATG-GCAAATCTTATCTCCCTGAAGTTG
42981724 TAGTGGAGTG
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
215 3 0.01
216 23 0.11
217 186 0.87
218 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (215 bp):
AATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
AAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCG
CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAGA
AATTGCAGTAAGGCAGACTG
Found at i:42981584 original size:44 final size:44
Alignment explanation
Indices: 42981487--42981585 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
42981477 GAAGATGGCA
* * * *
42981487 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
* * *
42981531 AATCCTATCTCCCTAAAGTTGCAGTGAAGCGGATTAAAACC-AC
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
42981574 AGATCTTATCTC
1 A-ATCTTATCTC
42981586 TCTGAAATTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.04
44 44 0.96
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
Found at i:42982240 original size:14 final size:14
Alignment explanation
Indices: 42982221--42982281 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
42982211 AATGGCAAGA
42982221 AAATCAAAGATTAC
1 AAATCAAAGATTAC
* *
42982235 AAATCAAATATGAGC
1 AAATCAAAGATTA-C
42982250 AAGAAAATCAAAGATTAC
1 ----AAATCAAAGATTAC
*
42982268 AAATCAAATATTAC
1 AAATCAAAGATTAC
42982282 CTTGAGGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 24 0.65
15 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AAATCAAAGATTAC
Found at i:42982257 original size:33 final size:33
Alignment explanation
Indices: 42982215--42982278 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
42982205 AACAGAAATG
42982215 GCAAGAAAATCAAAGATTACAAATCAAATATGA
1 GCAAGAAAATCAAAGATTACAAATCAAATATGA
42982248 GCAAGAAAATCAAAGATTACAAATCAAATAT
1 GCAAGAAAATCAAAGATTACAAATCAAATAT
42982279 TACCTTGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.58, C:0.12, G:0.11, T:0.19
Consensus pattern (33 bp):
GCAAGAAAATCAAAGATTACAAATCAAATATGA
Found at i:42988404 original size:11 final size:11
Alignment explanation
Indices: 42988388--42988416 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
42988378 TAATTTTTCA
42988388 TAAACCCTAAT
1 TAAACCCTAAT
42988399 TAAACCCTAAT
1 TAAACCCTAAT
42988410 TAAACCC
1 TAAACCC
42988417 AAATACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAACCCTAAT
Found at i:42994062 original size:50 final size:50
Alignment explanation
Indices: 42993946--42994286 Score: 382
Period size: 50 Copynumber: 6.8 Consensus size: 50
42993936 GAATATAACA
* * * * ** * * * *
42993946 TGCCAAAGCTATGTCCCGGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * ** *
42993995 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* ** *
42994045 TGCTC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
*
42994095 TGCCAACGCGATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* *
42994145 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * *
42994195 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
42994245 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42994287 TTACCCAAAT
Statistics
Matches: 249, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
49 37 0.15
50 211 0.85
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:42994218 original size:150 final size:149
Alignment explanation
Indices: 42993946--42994286 Score: 441
Period size: 150 Copynumber: 2.3 Consensus size: 149
42993936 GAATATAACA
* * * * ** * * * *
42993946 TGCCAAAGCTATGTCCCGGACATAGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
* ** * *
42994011 CAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCTCATGCCATGTCCCAGACATGGTCTTAC
66 CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCTCATGCCATATCCCAAACATGGTCTTAC
* *
42994076 GGGGGACCTCTCATCTTGG
131 AGGGGACCTCTCATCTCGG
* * *
42994095 TGCCAACGCGATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-ACTGCCAACGCCATATC
* *
42994160 CCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGC-CAATGCCATATCCCAAACATGGTCTT
65 CCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCTC-ATGCCATATCCCAAACATGGTCTT
* *
42994224 ACATGGGACCTCTTATCTCGG
129 ACAGGGGACCTCTCATCTCGG
42994245 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42994287 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
149 39 0.23
150 127 0.77
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (149 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCTCATGCCATATCCCAAACATGGTCTTAC
AGGGGACCTCTCATCTCGG
Found at i:42994287 original size:50 final size:50
Alignment explanation
Indices: 42993995--42994286 Score: 397
Period size: 50 Copynumber: 5.8 Consensus size: 50
42993985 TTTCTTGTAC
* * * * ** * *
42993995 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
42994045 TGCTC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
42994095 TGCCAACGCGATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
42994145 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
42994195 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
42994245 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42994287 TTACCCAAAT
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
49 1 0.00
50 212 0.99
51 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:43002192 original size:3 final size:3
Alignment explanation
Indices: 43002184--43002208 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43002174 AGTAAAAAAC
43002184 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
43002209 GGAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43004068 original size:20 final size:19
Alignment explanation
Indices: 43004026--43004068 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
43004016 CCGATGGTAG
* *
43004026 AATTTTTATATTTTGTTAT
1 AATTTTTATATTTTCTTAC
*
43004045 AATTTTTTTAGTTTTCTTAC
1 AATTTTTATA-TTTTCTTAC
43004065 AATT
1 AATT
43004069 ATGGTAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTTTCTTAC
Found at i:43007714 original size:27 final size:25
Alignment explanation
Indices: 43007684--43007772 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
43007674 CCCACAACTT
* * *
43007684 GTGTGAGCATGCCCATTTTCGTAGTTC
1 GTGTGAGCATACCCATTTAC--AGCTC
*
43007711 GTGTGAGCATACCGATTTACAGCTC
1 GTGTGAGCATACCCATTTACAGCTC
* *
43007736 GTGTGAGCATACCGATTCACAGCTC
1 GTGTGAGCATACCCATTTACAGCTC
*
43007761 GTGTGAGTATAC
1 GTGTGAGCATAC
43007773 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 39 0.70
27 17 0.30
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (25 bp):
GTGTGAGCATACCCATTTACAGCTC
Found at i:43007743 original size:25 final size:25
Alignment explanation
Indices: 43007709--43007772 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
43007699 TTTTCGTAGT
*
43007709 TCGTGTGAGCATACCGATTTACAGC
1 TCGTGTGAGCATACCGATTCACAGC
43007734 TCGTGTGAGCATACCGATTCACAGC
1 TCGTGTGAGCATACCGATTCACAGC
*
43007759 TCGTGTGAGTATAC
1 TCGTGTGAGCATAC
43007773 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
TCGTGTGAGCATACCGATTCACAGC
Found at i:43023298 original size:69 final size:69
Alignment explanation
Indices: 43023032--43023733 Score: 505
Period size: 69 Copynumber: 10.2 Consensus size: 69
43023022 GAGAAAAGCA
* * * * * * * *
43023032 GCAACCTCCAAAACAGTTAGTGAGATCAAAGCTCCCAACTATCATATTAGGGTTCACAGGTGAA-
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
**
43023096 AAAC
66 AGTC
* ** * * * ** * * * *
43023100 TGCAATCTCCAAAGCAATTAACGAAAGCAAAGCTCTTAGTTGTCATATTAAGGTTCGCAGGCAAA
1 -GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAA
43023165 GAGTC
65 GAGTC
** * * ** * * ** *
43023170 ATAATCTCTAAAATAGTTAGTAAGAG-AAAGCTCCTAGCTGTTATATTAAGGTTCTTAGGTGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
43023234 AGTC
66 AGTC
* * * * *
43023238 GTAACCTCCAAAATAGTTAGCGAGAGCAAAACTCCCAGCTGTAACATTAAGGTTCATAGGTGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
43023303 AGCC
66 AGTC
* * * * * **
43023307 GTAACTTCCAAAATAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGTAAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
43023372 ATTC
66 AGTC
* ** * * *
43023376 GCAACCTCTAAAATAGTTAATGAGGGCAAAGCTCCCAGCTGTAATAGTAAGGTTCACAGACGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
43023441 AGCC
66 AGTC
** * * * * ** * *
43023445 ATAACCTCTAAAATAATTAGCGAGAGTAAAGCTCTCAATTGTCATATTAAGGTTCACAAGCGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
43023510 A-TCC
66 AGT-C
* ** * * * * * ** ***
43023514 GCAACCTCTAAAGCAGTTATCGAGAGCAAAACTCCCCAGCTTTCATATTAAAGTTCGTAAAAGAA
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCT-CCCAGCTGTAATATTAAGGTTCACAGGCGAA
*
43023579 GAGCC
65 GAGTC
* * * *
43023584 GCAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAG-TCGTAATATTAAGG-CCAGCAGGCAA
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCT-GTAATATTAAGGTTCA-CAGGCGA
*
43023647 AGAGTT
64 AGAGTC
* * * ***
43023653 GCAACCTCCAAAATAGTTAGCGAGAGCAAAAGCTCCCAGCTATCATATTAAGGTTCGCAAAAGAA
1 GCAACCTCCAAAATAGTTAGCGAGAGC-AAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAA
43023718 GAGTC
65 GAGTC
*
43023723 CCAACCTCCAA
1 GCAACCTCCAA
43023734 GTGTAACAGC
Statistics
Matches: 490, Mismatches: 133, Indels: 19
0.76 0.21 0.03
Matches are distributed among these distances:
68 58 0.12
69 338 0.69
70 92 0.19
71 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (69 bp):
GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
AGTC
Found at i:43031069 original size:26 final size:25
Alignment explanation
Indices: 43031029--43031116 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
43031019 TAGGTATGCC
*
43031029 CATTCGAG-CATATAATCGTGAAGCT
1 CATTTGAGCCATATAATCG-GAAGCT
*
43031054 CTTTTGAGCCATATAA-CGGGAAGCT
1 CATTTGAGCCATATAATC-GGAAGCT
** *
43031079 CATTTGAGCTGTATAATAGGAAGCT
1 CATTTGAGCCATATAATCGGAAGCT
*
43031104 CATTAGAGCCATA
1 CATTTGAGCCATA
43031117 ATCAGAAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 43 0.84
26 8 0.16
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (25 bp):
CATTTGAGCCATATAATCGGAAGCT
Found at i:43036478 original size:18 final size:18
Alignment explanation
Indices: 43036452--43036486 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43036442 TAAAAAAGCC
*
43036452 AATTTTTTGCTCATTTAG
1 AATTCTTTGCTCATTTAG
43036470 AATTCTTTGCTCATTTA
1 AATTCTTTGCTCATTTA
43036487 TCCACTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (18 bp):
AATTCTTTGCTCATTTAG
Found at i:43036788 original size:92 final size:92
Alignment explanation
Indices: 43036631--43036814 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
43036621 TTGCTCATTT
43036631 ATCCACTCTCTCACACCAATTTTCTGTTGCTATTAAAACTCTTCTTTTCTTCTCCAAATTTTTCA
1 ATCCACTCTCTCACACCAATTTTCTGTTGCTATTAAAACTCTTCTTTTCTTCTCCAAATTTTTCA
43036696 AATGTTCTGGTGATAGAAAAAGGCAAC
66 AATGTTCTGGTGATAGAAAAAGGCAAC
43036723 ATCCACTCTCTCACACCAATTTTCTGTTGCTATTAAAACTCTTCTTTTCTTCTCCAAATTTTTCA
1 ATCCACTCTCTCACACCAATTTTCTGTTGCTATTAAAACTCTTCTTTTCTTCTCCAAATTTTTCA
43036788 AATGTTCTGGTGATAGAAAAAGGCAAC
66 AATGTTCTGGTGATAGAAAAAGGCAAC
43036815 GTTCATTCGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (92 bp):
ATCCACTCTCTCACACCAATTTTCTGTTGCTATTAAAACTCTTCTTTTCTTCTCCAAATTTTTCA
AATGTTCTGGTGATAGAAAAAGGCAAC
Found at i:43045080 original size:41 final size:42
Alignment explanation
Indices: 43044982--43045104 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 42
43044972 GTATATCCAA
* * *
43044982 GGGTACCGTAGTACAAACAGGGGCACGTATGTGCAATTTAGG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* *
43045024 GGGTACCAAAGTACAAACAAGGGCACATATGTGCAATTCA-G
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* *
43045065 GGGTACCGAAGTACAAATAGGGGCACATATGTGTAATTCA
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCA
43045105 ACATTATTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 37 0.51
42 35 0.49
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (42 bp):
GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
Found at i:43048813 original size:31 final size:32
Alignment explanation
Indices: 43048758--43048818 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
43048748 AATTACAAGG
43048758 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
1 GTAATTGAATCCTAATAAAAACTCTTTAAAGA
43048790 GTAATTGAATCCTAAT-AAAACTCTTTAAA
1 GTAATTGAATCCTAATAAAAACTCTTTAAA
43048819 ATTATCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (32 bp):
GTAATTGAATCCTAATAAAAACTCTTTAAAGA
Found at i:43054386 original size:9 final size:8
Alignment explanation
Indices: 43054374--43054439 Score: 57
Period size: 9 Copynumber: 8.2 Consensus size: 8
43054364 TTTTTTGCGC
43054374 TTTTTGCTT
1 TTTTTG-TT
43054383 TTTTTGTT
1 TTTTTGTT
*
43054391 TTTTT-TG
1 TTTTTGTT
43054398 TTTTT-TT
1 TTTTTGTT
**
43054405 TTTTTGCGC
1 TTTTTG-TT
43054414 TTTTTGCTT
1 TTTTTG-TT
43054423 TTTTTGTT
1 TTTTTGTT
43054431 TTTTT-TT
1 TTTTTGTT
43054438 TT
1 TT
43054440 AAGAATAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
7 16 0.33
8 14 0.29
9 19 0.39
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (8 bp):
TTTTTGTT
Found at i:43054386 original size:18 final size:18
Alignment explanation
Indices: 43054363--43054428 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
43054353 TAGGCAACTT
43054363 TTTTTTTGCGCTTTTTGC
1 TTTTTTTGCGCTTTTTGC
*** *
43054381 TTTTTTTGTTTTTTTTGTTTTT
1 TTTTTTTGCGCTTTTTG----C
43054403 TTTTTTTGCGCTTTTTGC
1 TTTTTTTGCGCTTTTTGC
43054421 TTTTTTTG
1 TTTTTTTG
43054429 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
18 22 0.61
22 14 0.39
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (18 bp):
TTTTTTTGCGCTTTTTGC
Found at i:43054409 original size:31 final size:31
Alignment explanation
Indices: 43054374--43054439 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
43054364 TTTTTTGCGC
** *
43054374 TTTTTGCTTTTTTTGTTTTTTTTGTTTTTTT
1 TTTTTGCGCTTTTTGCTTTTTTTGTTTTTTT
43054405 TTTTTGCGCTTTTTGCTTTTTTTGTTTTTTT
1 TTTTTGCGCTTTTTGCTTTTTTTGTTTTTTT
43054436 TTTT
1 TTTT
43054440 AAGAATAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (31 bp):
TTTTTGCGCTTTTTGCTTTTTTTGTTTTTTT
Found at i:43054413 original size:40 final size:40
Alignment explanation
Indices: 43054361--43054436 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
43054351 GGTAGGCAAC
43054361 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGTTT
1 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGTTT
43054401 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTT
1 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTT
43054437 TTTAAGAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (40 bp):
TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGTTT
Found at i:43055031 original size:31 final size:32
Alignment explanation
Indices: 43054972--43055036 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
43054962 GGAAAATTAC
43054972 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
43055004 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
43055035 AA
1 AA
43055037 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:43058095 original size:23 final size:23
Alignment explanation
Indices: 43058068--43058111 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
43058058 ACAAAATTAT
*
43058068 AAATTCATAACGAAAAAATCTGG
1 AAATTCATAAAGAAAAAATCTGG
**
43058091 AAATTTTTAAAGAAAAAATCT
1 AAATTCATAAAGAAAAAATCT
43058112 TTTGACTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (23 bp):
AAATTCATAAAGAAAAAATCTGG
Found at i:43058988 original size:25 final size:25
Alignment explanation
Indices: 43058954--43059003 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
43058944 AAATCGTTAC
*
43058954 AATATCATGGTTATATGGACGAATT
1 AATATCATGGCTATATGGACGAATT
43058979 AATATCATGGCTATATGGACGAATT
1 AATATCATGGCTATATGGACGAATT
43059004 TATTCCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (25 bp):
AATATCATGGCTATATGGACGAATT
Found at i:43059368 original size:25 final size:25
Alignment explanation
Indices: 43059338--43059388 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
43059328 ATTATTATTA
* *
43059338 ATGATTAGTTTAAGTTAA-TTAAATT
1 ATGATTAGGTT-ACTTAAGTTAAATT
43059363 ATGATTAGGTTACTTAAGTTAAATT
1 ATGATTAGGTTACTTAAGTTAAATT
43059388 A
1 A
43059389 ATTAAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGATTAGGTTACTTAAGTTAAATT
Found at i:43060849 original size:28 final size:28
Alignment explanation
Indices: 43060801--43060932 Score: 158
Period size: 28 Copynumber: 4.7 Consensus size: 28
43060791 AACATGACAG
*
43060801 GAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* *
43060829 GAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* * *
43060857 GAAAGAATAAGCCTTTGGGGAGAA-TAAT
1 GAAAGAATAAACCTTTGTGGTGAACT-AT
* **
43060885 GAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
*
43060913 GAAAGAATAAGCCTTTGTGG
1 GAAAGAATAAACCTTTGTGG
43060933 CGGACTCCGT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 85 0.98
29 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (28 bp):
GAAAGAATAAACCTTTGTGGTGAACTAT
Found at i:43060887 original size:56 final size:56
Alignment explanation
Indices: 43060801--43060929 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 56
43060791 AACATGACAG
* * * **
43060801 GAAAGAATAAGCCTTTGTGGTGAACTATGAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
* *
43060857 GAAAGAATAAGCCTTTGGGGAGAA-TAATGAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACT-ATGAAAGAACAAACATTTATGGCAAACTAT
43060913 GAAAGAATAAGCCTTTG
1 GAAAGAATAAGCCTTTG
43060930 TGGCGGACTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 64 0.98
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (56 bp):
GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
Found at i:43062717 original size:25 final size:25
Alignment explanation
Indices: 43062689--43062754 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
43062679 CCCATTTCAC
43062689 AGCTTGTGTGAGCATTTACAGTTAT
1 AGCTTGTGTGAGCATTTACAGTTAT
** * *
43062714 AGCTCATGTGAGCAATTATAGTTAT
1 AGCTTGTGTGAGCATTTACAGTTAT
*
43062739 AACTTGTGTGAGCATT
1 AGCTTGTGTGAGCATT
43062755 ATTTCCGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
AGCTTGTGTGAGCATTTACAGTTAT
Found at i:43067296 original size:24 final size:24
Alignment explanation
Indices: 43067259--43067327 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
43067249 TTTACTACAA
* * * *
43067259 TATTGAGCGGCTTGACCTTAATGT
1 TATTGAGTGGCTTGACCATAAAGC
*
43067283 TATTGAGTGACTTGACCATAAAGC
1 TATTGAGTGGCTTGACCATAAAGC
*
43067307 TATTAAGTGGCTTGACCATAA
1 TATTGAGTGGCTTGACCATAA
43067328 CGTGCAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCATAAAGC
Found at i:43068415 original size:16 final size:16
Alignment explanation
Indices: 43068394--43068426 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43068384 ACATAAAATA
43068394 CTAAAA-TCATCGATTT
1 CTAAAATTC-TCGATTT
43068410 CTAAAATTCTCGATTT
1 CTAAAATTCTCGATTT
43068426 C
1 C
43068427 ACTAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (16 bp):
CTAAAATTCTCGATTT
Found at i:43077772 original size:18 final size:18
Alignment explanation
Indices: 43077732--43077787 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
43077722 TTCAGTGATA
*
43077732 AATAACATTTTGAAAATT
1 AATAACATTTTGAAAATG
*
43077750 TATAACATTTTGAAAGA-G
1 AATAACATTTTGAAA-ATG
* *
43077768 AATAAC-TTATGAATATG
1 AATAACATTTTGAAAATG
43077785 AAT
1 AAT
43077788 CACGTTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 19 0.61
19 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (18 bp):
AATAACATTTTGAAAATG
Found at i:43078037 original size:28 final size:28
Alignment explanation
Indices: 43077997--43078071 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
43077987 GCTCGATAGT
* * *
43077997 AAAGAATATGCCTTTGTGGTGAACTATT
1 AAAGAAGAAGCCTTTGTGGTGAACTATG
* *
43078025 AAAGAGGAAGCCTTTATGGTGAACTATG
1 AAAGAAGAAGCCTTTGTGGTGAACTATG
43078053 AAAGAAGAAGCCTTTGTGG
1 AAAGAAGAAGCCTTTGTGG
43078072 CAGACTCTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.28
Consensus pattern (28 bp):
AAAGAAGAAGCCTTTGTGGTGAACTATG
Found at i:43079810 original size:134 final size:134
Alignment explanation
Indices: 43079570--43079817 Score: 288
Period size: 134 Copynumber: 1.9 Consensus size: 134
43079560 AATGAACTGA
* *
43079570 AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATTGGCAAACTCTTTA
1 AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATCGGCAAACTCTTGA
* * * * *
43079635 TGAAGTGTTCATGATAATATATCAATAAATTGAAGTCGTGATCGTAAATCAATGAGGTTTAAAAA
66 TGAACTGTTCATGATAATAAATAAATAAACTGAAGTCGTGATCATAAATCAATGAGGTTTAAAAA
43079700 TGAT
131 TGAT
* * * ** *
43079704 AGTCGTGATCGTAAATCAGCGAAC-AGTTTAAGTGGA-T-ATACGATCATAAATCGGTGAAGTCT
1 AGTCGTGAACATAAATCAACGAACTA-TTTAAGTGGAGTCAT--GATCATAAATCGGCAAACTCT
** *
43079766 TGATGAACTGTTCATGATCTTAAATAAATGAACTGAAG-CAGTGATCATAAAT
63 TGATGAACTGTTCATGATAATAAATAAATAAACTGAAGTC-GTGATCATAAAT
43079818 TAGCATGACA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
132 2 0.02
133 3 0.03
134 89 0.95
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (134 bp):
AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATCGGCAAACTCTTGA
TGAACTGTTCATGATAATAAATAAATAAACTGAAGTCGTGATCATAAATCAATGAGGTTTAAAAA
TGAT
Found at i:43079877 original size:123 final size:123
Alignment explanation
Indices: 43079699--43079922 Score: 279
Period size: 123 Copynumber: 1.8 Consensus size: 123
43079689 AGGTTTAAAA
* * * * * * *
43079699 ATGATAGTCGTGATCGTAAATCAGCGAACAGTTTAAGTGGATATACGATCATAAATCGGTGAAGT
1 ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGATACACAAACATAAATCAGTGAACT
*
43079764 CTTGATGAACTGTTCATGATCTTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
66 CTTGATGAACTGTTCATGATCGTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
* * * *
43079822 ATGACAGTCGTGATCGTAAATTAGCAAACTGTTTAAGTGGAGT-CACAAACGTAAATTAGTGAAC
1 ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGA-TACACAAACATAAATCAGTGAAC
* * * * *
43079886 TCTTTATTAAGTGTTCATGATCGTAAATCAATTAACT
65 TCTTGATGAACTGTTCATGATCGTAAATAAATGAACT
43079923 CAAGTTGTGA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
123 82 0.99
124 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (123 bp):
ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGATACACAAACATAAATCAGTGAACT
CTTGATGAACTGTTCATGATCGTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
Found at i:43079981 original size:36 final size:38
Alignment explanation
Indices: 43079919--43080017 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 38
43079909 TAAATCAATT
* * * *
43079919 AACTCAAGTTGTGATCGTAAACCAACAAGCT-TT-AAA
1 AACTAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
43079955 AA-TGAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
1 AACT-AAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
*
43079993 AACTAATGGTCGTGATCGTAAATCA
1 AACTAA-AGTCGTGATCGTAAATCA
43080018 GTGGTTCGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
35 1 0.02
36 25 0.47
37 2 0.04
38 7 0.13
39 18 0.34
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (38 bp):
AACTAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
Found at i:43080032 original size:39 final size:39
Alignment explanation
Indices: 43079962--43080827 Score: 321
Period size: 39 Copynumber: 22.4 Consensus size: 39
43079952 AAAAATGAAA
* * * * *
43079962 GTCGTGATCGTAAATCAACAAACTGTTAAAAAA-CTAATG
1 GTCGTGATCGTAAATCAATAGACCG-TAAAAAAGCCAAAG
* * ** *
43080001 GTCGTGATCGTAAATCAGTGGTTCGTAAAAAAGCCAAAA
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
*
43080040 GTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* ** * * * *
43080079 GTCGTGATCGTAAATTAGCAAACAGTAAGAAAGCTAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
43080118 GTC-T--T-G---ATC-AT-GAACCGTAAAAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * * * * *
43080149 GCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* ** * * ***
43080188 GTCGTGATCATAAATCAGCAGACCATAAGAAAGTTGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * * ***
43080227 GTCGTCACCATAAATAAATAGACCATAGGAAAA-TTGAAG
1 GTCGTGATCGTAAATCAATAGACCGTA-AAAAAGCCAAAG
* ** * * * *
43080266 GTCATGATCGTAAATCAACGGACTGTAAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *** * * * * *
43080305 GTCATGATCATAAATTAGCGGATCATAAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
** * *
43080344 GTCGTGATCGTAAATCAACGGATCC-TAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGA-CCGTAAAAAAGCCAAAG
* * *** *
43080383 GTCGTGATTGTAAATCAATGGACCGTGGGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
43080422 GGCATGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAG
1 GTCGTGATCGT-AAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * * * * * *
43080461 ATCATGATCGTAAATTAGTGGGCCATAAGAAAGCCGACG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * *
43080500 TTCATGATCATAAATTAACATACCGTAAGAAAA--CAGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAA-AAAAGCCA-AAG
* * * * *
43080539 GTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *** * **
43080578 GTAGTGATCATAAATCAACAGATTTTAAGAAAGTTAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
43080617 GTCATGATCGTGATTCAGT-GAACCGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * * * *
43080656 GTCATGATCATAAATCAA-AGAACTGTAAGAAAGTCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * *** * *
43080695 GTTGTGATCGTGAATCAGCGGACCGTAAGAAATCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *
43080734 GTCATGATCGTAAATCAATGGACC-TAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
43080772 GTCGTGATCGTGAATCAA-CGAATCGTAAGAAAGCTAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* *
43080811 GTCATGATCATAAATCA
1 GTCGTGATCGTAAATCA
43080828 GCGAACCGTG
Statistics
Matches: 639, Mismatches: 162, Indels: 52
0.75 0.19 0.06
Matches are distributed among these distances:
31 17 0.03
32 3 0.00
34 1 0.00
35 2 0.00
36 1 0.00
37 1 0.00
38 52 0.08
39 550 0.86
40 12 0.02
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (39 bp):
GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
Found at i:43080112 original size:78 final size:78
Alignment explanation
Indices: 43079966--43080827 Score: 488
Period size: 78 Copynumber: 11.2 Consensus size: 78
43079956 ATGAAAGTCG
* * * * * **
43079966 TGATCGTAAATCAACAAACTGTTAA-AAAACTAATGGTCGTGATCGTAAATCAGTGGTTC-GTAA
1 TGATCGTAAATCAACAGACCG-TAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAA
* * *
43080029 AAAAGCCAAAAGTCG
64 GAAAGCCAAAGGTCA
* * **
43080044 TGATCGTAAATCAATAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATTAGCAAACAGTAAGA
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAGA
*
43080109 AAGCTAAAGGTC-
66 AAGCCAAAGGTCA
** * * * * *
43080121 T--T-G---ATCATGA-ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCA-TGAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAAG
* * *
43080178 AAAGTCGAAGGTCG
65 AAAGCCAAAGGTCA
* * * *** * * * * * * *
43080192 TGATCATAAATCAGCAGACCATAAGAAAGTTGAAGGTCGTCACCATAAATAAATAGACCA-TAGG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAAG
****
43080256 AAAATTGAAGGTCA
65 AAAGCCAAAGGTCA
* * * * * * * * *
43080270 TGATCGTAAATCAACGGACTGTAAGAAAGTCGAAGGTCATGATCATAAATTAGCGGATCA-TAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAG-TGAACAGTAAG
* * *
43080334 AAAGTCGAAGGTCG
65 AAAGCCAAAGGTCA
* * * * * * **
43080348 TGATCGTAAATCAACGGATCC-TAAGAAAGCCGAAGGTCGTGATTGTAAATCAATGGACCGTGGG
1 TGATCGTAAATCAACAGA-CCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
* *
43080412 AAAGCCGAAGGGCA
65 AAAGCCAAAGGTCA
* * * * * * **
43080426 TGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAGATCATGATCGTAAATTAGTGGGCCA-TAA
1 TGATCGT-AAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAA
* * *
43080489 GAAAGCCGACGTTCA
64 GAAAGCCAAAGGTCA
* * * * * * *
43080504 TGATCATAAATTAACATACCGTAAGAAA-ACAGAAGGTCGTGATCATAAATCAGTGGACTGTAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCA-AAGGTCGTGATCGTAAATCAGTGAACAGTAAG
43080568 AAAGCCAAAGGT-A
65 AAAGCCAAAGGTCA
* *** ** * * * *
43080581 GTGATCATAAATCAACAGATTTTAAGAAAGTTAAAGGTCATGATCGTGATTCAGTGAACCGTAAG
1 -TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
43080646 AAAGCCAAAGGTCA
65 AAAGCCAAAGGTCA
* * * * * * * *
43080660 TGATCATAAATCAA-AGAACTGTAAGAAAGTCAAAGGTTGTGATCGTGAATCAGCGGACCGTAAG
1 TGATCGTAAATCAACAG-ACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
*
43080724 AAATCCAAAGGTCA
65 AAAGCCAAAGGTCA
** * * **
43080738 TGATCGTAAATCAATGGACC-TAAGAAAGCCGAAGGTCGTGATCGTGAATCAACGAATC-GTAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAA-CAGTAAG
*
43080801 AAAGCTAAAGGTCA
65 AAAGCCAAAGGTCA
*
43080815 TGATCATAAATCA
1 TGATCGTAAATCA
43080828 GCGAACCGTG
Statistics
Matches: 617, Mismatches: 141, Indels: 53
0.76 0.17 0.07
Matches are distributed among these distances:
70 45 0.07
71 9 0.01
73 1 0.00
74 1 0.00
75 1 0.00
77 82 0.13
78 470 0.76
79 8 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (78 bp):
TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAGA
AAGCCAAAGGTCA
Found at i:43080126 original size:117 final size:117
Alignment explanation
Indices: 43079962--43080828 Score: 521
Period size: 117 Copynumber: 7.5 Consensus size: 117
43079952 AAAAATGAAA
* * * * * * **
43079962 GTCGTGATCGTAAATCAACAAACTGTTAA-AAAACTAATGGTCGTGATCGTAAATCAGTGGTTCG
1 GTCGTGATCATAAATCAGCAAACAG-TAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* * * *
43080026 TAAAAAAGCCAAAAGTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * *
43080079 GTCGTGATCGTAAATTAGCAAACAGTAAGAAAGCTAAAGGTC----T--T-GATCA-TGAACCGT
1 GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
* * * * * *
43080136 AAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAG
66 AAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * * * * * *
43080188 GTCGTGATCATAAATCAGCAGACCA-TAAGAAAGTTGAAGGTCGTCACCATAAATAAATAGACCA
1 GTCGTGATCATAAATCAGCA-AACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* **** ** * *
43080252 TAGGAAAATTGAAGGTCATGATCGTAAATCAACGGACTGTAAGAAAGTCGAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * * * **
43080305 GTCATGATCATAAATTAGCGGATCA-TAAGAAAG-TCGAAGGTCGTGATCGTAAATCAACGGATC
1 GTCGTGATCATAAATCAGC-AAACAGTAAGAAAGCT-AAAGGTCGTGATCATAAATCAGTGGA-C
* * * * **
43080368 C-TAAGAAAGCCGAAGGTCGTGATTGTAAATCAATGGACCGTGGGAAAGCCGAAG
63 CGTAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * ** ** * ** * * * * * *
43080422 GGCATGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAGATCATGATCGTAAATTAGTGGGCCA
1 GTCGTGATCAT-AAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* * * * * * * * *
43080486 TAAGAAAGCCGACGTTCATGATCATAAATTAACATACCGTAAGAAAACAGAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
*** * * * *** ***
43080539 GTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAGGTAGTGATCATAAATCAACAGATTTT
1 GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
** * * * *
43080604 AAGAAAGTTAAAGGTCATGATCGTGATTCAGT-GAACCGTAAGAAAGCCAAAG
66 AAGAAAGCCAAAGGTCATGATCGTAAATCAATAG-ACCGTAAGAAAGCCGAAG
* * * * * * *
43080656 GTCATGATCATAAATCA-AAGAACTGTAAGAAAG-TCAAAGGTTGTGATCGTGAATCAGCGGACC
1 GTCGTGATCATAAATCAGCA-AACAGTAAGAAAGCT-AAAGGTCGTGATCATAAATCAGTGGACC
* *
43080719 GTAAGAAATCCAAAGGTCATGATCGTAAATCAATGGACC-TAAGAAAGCCGAAG
64 GTAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * *
43080772 GTCGTGATCGTGAATCAACGAATC-GTAAGAAAGCTAAAGGTCATGATCATAAATCAG
1 GTCGTGATCATAAATCAGC-AAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAG
43080829 CGAACCGTGA
Statistics
Matches: 575, Mismatches: 150, Indels: 51
0.74 0.19 0.07
Matches are distributed among these distances:
109 84 0.15
110 7 0.01
111 1 0.00
113 1 0.00
115 1 0.00
116 66 0.11
117 410 0.71
118 5 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (117 bp):
GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
AAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
Found at i:43080155 original size:109 final size:109
Alignment explanation
Indices: 43080024--43080229 Score: 297
Period size: 109 Copynumber: 1.9 Consensus size: 109
43080014 ATCAGTGGTT
* * *
43080024 CGTAAAAAAGCCAAAAGTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAGGTCGTGATCG
1 CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
*
43080089 TAAATTAGCA-AACAGTAAGAAAGCTAAAGGTCTTGATCATGAAC
66 TAAATCAGCAGAACA-TAAGAAAGCTAAAGGTCTTGATCATGAAC
* * * *
43080133 CGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAGGTCGTGATCA
1 CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
* * *
43080198 TAAATCAGCAGACCATAAGAAAGTTGAAGGTC
66 TAAATCAGCAGAACATAAGAAAGCTAAAGGTC
43080230 GTCACCATAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 82 0.96
110 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.18
Consensus pattern (109 bp):
CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
TAAATCAGCAGAACATAAGAAAGCTAAAGGTCTTGATCATGAAC
Found at i:43080180 original size:70 final size:70
Alignment explanation
Indices: 43080061--43080198 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 70
43080051 AAATCAATAG
* * * * *
43080061 ACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATTAGCAAACAGTAAGAAAG-CTAAAGGTCTTGA
1 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACAAACAGTAAGAAAGTC-AAAGGTCGTGA
43080125 TCATGA
65 TCATGA
* * * *
43080131 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCA-TGAGAAAGTCGAAGGTCGTGA
1 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACA-AACAGTAAGAAAGTCAAAGGTCGTGA
43080195 TCAT
65 TCAT
43080199 AAATCAGCAG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (70 bp):
ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACAAACAGTAAGAAAGTCAAAGGTCGTGAT
CATGA
Found at i:43086863 original size:19 final size:22
Alignment explanation
Indices: 43086825--43086864 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
43086815 TTTTGAATAA
43086825 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
43086847 AATA-TATTAT-T-ATTATTA
1 AATATTATTATATGATTATTA
43086865 ACTAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:43086898 original size:13 final size:14
Alignment explanation
Indices: 43086872--43086900 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43086862 TTAACTAATG
43086872 AATAAAAGGAATAA
1 AATAAAAGGAATAA
43086886 AATAAAA-GAATAA
1 AATAAAAGGAATAA
43086899 AA
1 AA
43086901 GAAACAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AATAAAAGGAATAA
Found at i:43086911 original size:17 final size:17
Alignment explanation
Indices: 43086889--43086923 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43086879 GGAATAAAAT
*
43086889 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
43086906 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
43086923 A
1 A
43086924 GAGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:43089795 original size:188 final size:187
Alignment explanation
Indices: 43089473--43089852 Score: 645
Period size: 188 Copynumber: 2.0 Consensus size: 187
43089463 GTTTTGAAGG
*
43089473 GAATTTATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
1 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
* * *
43089538 GTACCCCCCGAGAAAGCTTGATCTGTGTTGTTTCTCTACTGCAAGGAGAAGCATATTTGTGGTGG
66 GTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTGG
* *
43089603 GAATCTGTAA-TACGACATCTGCCTATAGAATAGGTGACATGAGACTTATTTCAAAAA
131 GAATCTGTAATTA-GACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
43089660 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAGAA
1 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTA-AA
* *
43089725 TGTACCACCCGAGAGAGCTTGATCTGTGCTGTTTCTCTACTGCAATGAGAAGCATATTTGCGGTG
65 TGTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTG
* *
43089790 GGAATCTGTAATTAGACATTTGCCTACAGAACAGGTGACATGGGACTTATTTCAAAAA
130 GGAATCTGTAATTAGACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
43089848 GAATT
1 GAATT
43089853 CCAGAAGAAA
Statistics
Matches: 181, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
187 61 0.34
188 118 0.65
189 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (187 bp):
GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
GTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTGG
GAATCTGTAATTAGACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
Found at i:43090756 original size:22 final size:21
Alignment explanation
Indices: 43090731--43090773 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
43090721 GAGTTGGGAA
*
43090731 AGTTAAAATCTGAAATGTCTAG
1 AGTTAAAAT-AGAAATGTCTAG
**
43090753 AGTTTTAATAGAAATGTCTAG
1 AGTTAAAATAGAAATGTCTAG
43090774 CCCTTTGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.35
Consensus pattern (21 bp):
AGTTAAAATAGAAATGTCTAG
Found at i:43094538 original size:19 final size:21
Alignment explanation
Indices: 43094499--43094543 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
43094489 TTTGTGAATA
43094499 AAATATTATTATATGATTATT
1 AAATATTATTATATGATTATT
43094520 ATAATA-TATTAT-T-ATTATT
1 A-AATATTATTATATGATTATT
43094539 AAATA
1 AAATA
43094544 ATGAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 1 0.04
21 7 0.30
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATTATTATATGATTATT
Found at i:43095654 original size:23 final size:24
Alignment explanation
Indices: 43095627--43095720 Score: 149
Period size: 23 Copynumber: 4.0 Consensus size: 24
43095617 GGCTTTGCCA
*
43095627 ATCAGGCACTTTATATGTCGTA-C
1 ATCAGGCACTTTATGTGTCGTATC
43095650 ATCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
*
43095674 -TCAGGCACTTTATGTGTCATATC
1 ATCAGGCACTTTATGTGTCGTATC
43095697 -TCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
43095720 A
1 A
43095721 GGCACCTCGT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (24 bp):
ATCAGGCACTTTATGTGTCGTATC
Found at i:43095723 original size:21 final size:21
Alignment explanation
Indices: 43095627--43095755 Score: 143
Period size: 23 Copynumber: 5.9 Consensus size: 21
43095617 GGCTTTGCCA
*
43095627 ATCAGGCACTTTATATGTCGT
1 ATCAGGCACTTTATGTGTCGT
43095648 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
*
43095671 ATCTCAGGCACTTTATGTGTCAT
1 A--TCAGGCACTTTATGTGTCGT
43095694 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* **
43095717 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
43095738 TTCAGGCAC-TTATGTGTC
1 ATCAGGCACTTTATGTGTC
43095756 ATATACTGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
20 7 0.07
21 26 0.27
23 62 0.65
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:43101197 original size:29 final size:29
Alignment explanation
Indices: 43101155--43101320 Score: 219
Period size: 29 Copynumber: 5.8 Consensus size: 29
43101145 TGAACACGTC
*
43101155 AGAAAATGGAAGTCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
*
43101184 AGAAAATGGAAGTCTTTGTGGCA-ATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
*
43101212 AGAAAATAGAAGCCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* * *
43101241 AGAAAATGAAAGCCTTTGTGGAAAAT-TA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* * *
43101269 AGAAAATTGAAGCCTTTGTGGCTTATTTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
43101298 TGAAAATGAAAGCCTTTGTGGCA
1 AGAAAATGGAAGCCTTTGTGGCA
43101321 AATTTTGTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
28 49 0.41
29 71 0.59
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (29 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTA
Found at i:43101324 original size:57 final size:57
Alignment explanation
Indices: 43101155--43101324 Score: 243
Period size: 57 Copynumber: 3.0 Consensus size: 57
43101145 TGAACACGTC
* * * *
43101155 AGAAAATGGAAGTCTTTGTGGCATATCTAAGAAAATGGAAGTCTTTGTGGC-AATCTA
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGAAAGCCTTTGTGGCAAAT-TA
*
43101212 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGAAAGCCTTTGTGGAAAATTA
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGAAAGCCTTTGTGGCAAATTA
* * * *
43101269 AGAAAATTGAAGCCTTTGTGGCTTATTTATGAAAATGAAAGCCTTTGTGGCAAATT
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGAAAGCCTTTGTGGCAAATT
43101325 TTGTAAAAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 99 0.97
58 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (57 bp):
AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGAAAGCCTTTGTGGCAAATTA
Found at i:43102566 original size:2 final size:2
Alignment explanation
Indices: 43102561--43102588 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43102551 ATATATATAT
43102561 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
43102589 GAAGAGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43106794 original size:23 final size:22
Alignment explanation
Indices: 43106751--43106794 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
43106741 TTCTAAGTCG
43106751 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
43106774 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
43106795 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:43107004 original size:51 final size:50
Alignment explanation
Indices: 43106938--43107121 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 50
43106928 TTGGTTCACA
* * * *
43106938 TAGTATCCTAAACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATTCGGTACACG
* * * * *
43106989 TAGTAGCCTACACATAGTACTACACACGTGATCGAAACTA-TCTGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATTC-GGTACACG
* * * *
43107040 TAGTAGCCTACAC--A-TACTACACATGCGACC-TATCATTCCGGTAAACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATACCATT-CGGTACACG
*
43107087 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
43107122 CACTTTCACT
Statistics
Matches: 104, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
46 2 0.02
47 19 0.18
48 13 0.12
49 2 0.02
50 16 0.15
51 50 0.48
52 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATACCATTCGGTACACG
Found at i:43107305 original size:14 final size:15
Alignment explanation
Indices: 43107286--43107318 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
43107276 TTCTTTCTTG
43107286 ATTTATAACAA-TAC
1 ATTTATAACAATTAC
43107300 ATTTATAACAATTAC
1 ATTTATAACAATTAC
43107315 ATTT
1 ATTT
43107319 TTGCCCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTTATAACAATTAC
Found at i:43113315 original size:9 final size:9
Alignment explanation
Indices: 43113301--43113349 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
43113291 TTTAGTTAAA
43113301 AATTAACCG
1 AATTAACCG
43113310 AATTAACCG
1 AATTAACCG
*
43113319 AATTACCCG
1 AATTAACCG
43113328 AATTAACCG
1 AATTAACCG
43113337 AATTAACCG
1 AATTAACCG
43113346 AATT
1 AATT
43113350 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:43117181 original size:17 final size:17
Alignment explanation
Indices: 43117139--43117219 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 17
43117129 AATTTAATTT
43117139 TAATATAAAT-ATTTAA
1 TAATATAAATAATTTAA
43117155 T-ATGACTAAATAATTTAA
1 TAAT-A-TAAATAATTTAA
*
43117173 TAATATAAATAATGTAA
1 TAATATAAATAATTTAA
*
43117190 -AATGTAAAATTTAATTTAA
1 TAATAT-AAA--TAATTTAA
43117209 TAATATAAATA
1 TAATATAAATA
43117220 GTAGATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
15 2 0.04
16 6 0.11
17 21 0.40
18 8 0.15
19 12 0.23
20 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.40
Consensus pattern (17 bp):
TAATATAAATAATTTAA
Found at i:43117477 original size:30 final size:30
Alignment explanation
Indices: 43117443--43117500 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
43117433 AGGTGGGATG
*
43117443 GGAAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGGGAATAAAAATTTTAGGGGAAAAGT
* *
43117473 GGAAGGGAGTAAAAATTTTGGGGGAAAA
1 GGAAGGGAATAAAAATTTTAGGGGAAAA
43117501 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (30 bp):
GGAAGGGAATAAAAATTTTAGGGGAAAAGT
Found at i:43117811 original size:9 final size:9
Alignment explanation
Indices: 43117794--43117824 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43117784 TCGAGTTGAT
43117794 TCGAATAAC
1 TCGAATAAC
*
43117803 TCGATTAAC
1 TCGAATAAC
43117812 TCGAATAAC
1 TCGAATAAC
43117821 TCGA
1 TCGA
43117825 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:43118380 original size:27 final size:29
Alignment explanation
Indices: 43118350--43118404 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
43118340 AGTGGAGAAC
43118350 TAAAATAATT-TT-TTTTTATAAAATTGT
1 TAAAATAATTCTTCTTTTTATAAAATTGT
*
43118377 TAAAATGATTCTTCTTTTTATAAAATTG
1 TAAAATAATTCTTCTTTTTATAAAATTG
43118405 AAAGATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.36
28 2 0.08
29 14 0.56
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (29 bp):
TAAAATAATTCTTCTTTTTATAAAATTGT
Found at i:43120134 original size:15 final size:16
Alignment explanation
Indices: 43120105--43120137 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
43120095 TTAGGGGGAA
43120105 AATAAAAGTTTTGAGG
1 AATAAAAGTTTTGAGG
43120121 AATAAAAG-TTTGAGG
1 AATAAAAGTTTTGAGG
43120136 AA
1 AA
43120138 AGTAAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (16 bp):
AATAAAAGTTTTGAGG
Found at i:43120324 original size:30 final size:31
Alignment explanation
Indices: 43120285--43120344 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
43120275 GGAGGTGGGA
*
43120285 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
43120316 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
43120345 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:43120572 original size:9 final size:9
Alignment explanation
Indices: 43120558--43120594 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
43120548 TATAGTTTGA
43120558 TATTCGAAT
1 TATTCGAAT
43120567 TATTCGAAT
1 TATTCGAAT
*
43120576 TATTCGAGT
1 TATTCGAAT
43120585 TATTCGAAT
1 TATTCGAAT
43120594 T
1 T
43120595 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:43126620 original size:50 final size:51
Alignment explanation
Indices: 43126559--43126698 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 51
43126549 TATCATTCGA
* * *
43126559 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
* *
43126609 TTCACGTAGTAGCCTGCACATAGTAC-ACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
* * *
43126659 TACACATAGTAGCGTGT-ACATAGTACTACACATGTGACCA
1 TACACGTAGTAGCCT-TCACATAGTACTACACACGTGACCA
43126699 TTATCTATCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 14 0.18
50 51 0.66
51 12 0.16
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
Found at i:43134136 original size:12 final size:12
Alignment explanation
Indices: 43134119--43134151 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
43134109 GACGGGGTAC
43134119 TAGAGGCCGAGG
1 TAGAGGCCGAGG
43134131 TAGAGGCCGAGG
1 TAGAGGCCGAGG
43134143 TAGAGGCCG
1 TAGAGGCCG
43134152 TAGAGGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.48, T:0.09
Consensus pattern (12 bp):
TAGAGGCCGAGG
Found at i:43142172 original size:31 final size:30
Alignment explanation
Indices: 43142103--43142194 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
43142093 TTAACATCCT
* * *
43142103 AGTGACTTAAATAAAAACTTTTCAATAATTC
1 AGTGACTTAAATGAAAA-TTTTGAATAGTTC
43142134 AGTGACTTAAATGAAAATTTTAGAATAGTTC
1 AGTGACTTAAATGAAAATTTT-GAATAGTTC
**
43142165 AAG-GACTTGGATGAAAATTTTTGAATAGTT
1 -AGTGACTTAAATGAAAA-TTTTGAATAGTT
43142195 TAATGATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 4 0.08
31 43 0.81
32 6 0.11
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (30 bp):
AGTGACTTAAATGAAAATTTTGAATAGTTC
Found at i:43146408 original size:93 final size:93
Alignment explanation
Indices: 43146234--43146408 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
43146224 TTTAGCCCCA
* * * *
43146234 TGCCATTAACATGATTAAAAAAAATCAACAACCAATCAGATCATACCATGTGTCCCTATTGACTG
1 TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
*
43146299 TTAATGTCATCAATGACTTTTTGGTCCC
66 TTAATGTCACCAATGACTTTTTGGTCCC
* * **
43146327 TGCCATTAATAGGGTTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCTTTATTGACTG
1 TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
* * *
43146392 TTGATGTGACCGATGAC
66 TTAATGTCACCAATGAC
43146409 GTGGTCGTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (93 bp):
TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
TTAATGTCACCAATGACTTTTTGGTCCC
Found at i:43146483 original size:21 final size:22
Alignment explanation
Indices: 43146457--43146512 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
43146447 TGACCAAACC
43146457 AAAAATATTGTAAAA-AT-TATT
1 AAAAATATTGTAAAACATAT-TT
43146478 -AAAA-ATTGTAAGAACATATTT
1 AAAAATATTGTAA-AACATATTT
43146499 AAAAATATT-TAAAA
1 AAAAATATTGTAAAA
43146513 TTGTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 6 0.20
22 8 0.27
23 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAAATATTGTAAAACATATTT
Found at i:43146508 original size:10 final size:10
Alignment explanation
Indices: 43146457--43146512 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
43146447 TGACCAAACC
43146457 AAAAATATTGT
1 AAAAATATT-T
43146468 AAAAAT-TATT
1 AAAAATAT-TT
*
43146478 AAAAAT-TGT
1 AAAAATATTT
43146487 AAGAACATATTT
1 AA-AA-ATATTT
43146499 AAAAATATTT
1 AAAAATATTT
43146509 AAAA
1 AAAA
43146513 TTGTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 3 0.08
10 21 0.54
11 11 0.28
12 4 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (10 bp):
AAAAATATTT
Found at i:43146531 original size:17 final size:16
Alignment explanation
Indices: 43146509--43146559 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
43146499 AAAAATATTT
43146509 AAAATTGTAAAAAATA
1 AAAATTGTAAAAAATA
*
43146525 AACAATTG-AAAGTTAATA
1 AA-AATTGTAAA--AAATA
43146543 AAAATTGTAAAAGAATA
1 AAAATTGTAAAA-AATA
43146560 TTAAAAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 14 0.50
18 9 0.32
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (16 bp):
AAAATTGTAAAAAATA
Found at i:43146566 original size:20 final size:20
Alignment explanation
Indices: 43146541--43146654 Score: 83
Period size: 20 Copynumber: 5.7 Consensus size: 20
43146531 TGAAAGTTAA
43146541 TAAAAATTGTAAAAGAATAT
1 TAAAAATTGTAAAAGAATAT
* *
43146561 TAAAAATGGTAAAA-AGTATT
1 TAAAAATTGTAAAAGAATA-T
*
43146581 TAAAAA-TGTAAAATAAATTAT
1 TAAAAATTGTAAAA-GAA-TAT
* * *
43146602 TAAAAATTATAAAACATTAT
1 TAAAAATTGTAAAAGAATAT
*
43146622 ATAAAATTTGT--AAGAATTAT
1 -TAAAAATTGTAAAAGAA-TAT
*
43146642 TAAAAATAGTAAA
1 TAAAAATTGTAAA
43146655 TTATTAACAA
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
19 20 0.28
20 26 0.36
21 18 0.25
22 8 0.11
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAATTGTAAAAGAATAT
Found at i:43146585 original size:40 final size:42
Alignment explanation
Indices: 43146540--43146654 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 42
43146530 TTGAAAGTTA
*
43146540 ATAAAAATTGTAAAAGAA-TATTAAAAATGGTAAAA-AGTAT
1 ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAAACAGTAT
* * *
43146580 TTAAAAA-TGTAAAATAAATTATTAAAAATTA-TAAAACATTAT
1 ATAAAAATTGTAAAA-GAATTATTAAAAA-TAGTAAAACAGTAT
*
43146622 ATAAAATTTGT--AAGAATTATTAAAAATAGTAAA
1 ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAA
43146655 TTATTAACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
39 9 0.15
40 24 0.39
41 16 0.26
42 10 0.16
43 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (42 bp):
ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAAACAGTAT
Found at i:43146610 original size:10 final size:10
Alignment explanation
Indices: 43146595--43146648 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
43146585 AATGTAAAAT
43146595 AAATTATTAA
1 AAATTATTAA
43146605 AAATTA-TAA
1 AAATTATTAA
43146614 AACATTA-TATA
1 AA-ATTATTA-A
43146625 AAATT-TGTAA
1 AAATTAT-TAA
*
43146635 GAATTATTAA
1 AAATTATTAA
43146645 AAAT
1 AAAT
43146649 AGTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 5 0.14
10 26 0.70
11 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:43152179 original size:5 final size:5
Alignment explanation
Indices: 43152169--43152204 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
43152159 GGCCGAATAT
43152169 AGAAA AGAAAA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA
43152205 GGAGAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:43153125 original size:42 final size:42
Alignment explanation
Indices: 43153066--43153156 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
43153056 GCTGGTGTGA
* *
43153066 TATATCAGGCTAAAAGCCTAGCAGGCGTATTGCCGGTGAATT
1 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
43153108 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
1 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
*
43153150 TTTATCA
1 TATATCA
43153157 GGCTTGTGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
Found at i:43155574 original size:43 final size:43
Alignment explanation
Indices: 43155516--43155638 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
43155506 TATAAGATAT
* * * *
43155516 TATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* * * *
43155559 TATTATAGGATATTATCTCTTAGCAGTTTCATTCCTAATGAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* *
43155602 TATTATAAGAAATTATCTTTTAACAATTTGATTCCTA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTA
43155639 TGTAACTACT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (43 bp):
TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
Found at i:43155593 original size:99 final size:99
Alignment explanation
Indices: 43155412--43155617 Score: 313
Period size: 99 Copynumber: 2.1 Consensus size: 99
43155402 GGGGTGTTAG
*
43155412 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATGTTATAGGACATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
** *
43155477 TCTTATTAATTTGATTCCTAATAAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
* ** *
43155511 GATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGATATTATAGGATATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
* *
43155576 TCTTAGCAGTTTCATTCCTAATGAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
*
43155610 GAAATTAT
1 GATATTAT
43155618 CTTTTAACAA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (99 bp):
GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
TCTTAGCAATTTCATTCCTAATAAGATATTATAA
Found at i:43156030 original size:39 final size:35
Alignment explanation
Indices: 43155946--43156036 Score: 92
Period size: 38 Copynumber: 2.4 Consensus size: 35
43155936 TTTTAAAATT
*
43155946 TTTAAATATTTTTTACAATTTTAATATTTTCTATA
1 TTTAAATATTTTTTTCAATTTTAATATTTTCTATA
* * *
43155981 ATTAGTAATATATTTTTTCAATTTTATTAATTTTTTAGTTA
1 TTTA--AATAT-TTTTTTCAATTTTAAT-ATTTTCTA--TA
43156022 TTTAAATATTTTTTT
1 TTTAAATATTTTTTT
43156037 ATAAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
35 3 0.07
37 5 0.11
38 20 0.44
39 12 0.27
41 5 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (35 bp):
TTTAAATATTTTTTTCAATTTTAATATTTTCTATA
Found at i:43156076 original size:20 final size:19
Alignment explanation
Indices: 43155923--43156087 Score: 81
Period size: 20 Copynumber: 8.4 Consensus size: 19
43155913 TAATTTTCGC
43155923 AATTTCTAATAATTTTTAA-
1 AATTT-TAATAATTTTTAAT
* *
43155942 AATTTTTAA-ATATTTTTTAC
1 AA-TTTTAATA-ATTTTTAAT
43155962 AATTTTAAT-ATTTTCT-AT
1 AATTTTAATAATTTT-TAAT
*
43155980 AATTAGTAATATATTTTT--T
1 AATT-TTAATA-ATTTTTAAT
* *
43155999 CAATTTTATTAATTTTTTAGT
1 -AATTTTAATAA-TTTTTAAT
* * * *
43156020 TATTTAAATATTTTTTTAT
1 AATTTTAATAATTTTTAAT
*
43156039 AAATTTTAATAAAATTTTAAT
1 -AATTTTAAT-AATTTTTAAT
*
43156060 AATTTTAAATAATTTTTATT
1 AATTTT-AATAATTTTTAAT
*
43156080 TATTTTAA
1 AATTTTAA
43156088 AAATATTTTT
Statistics
Matches: 112, Mismatches: 19, Indels: 30
0.70 0.12 0.19
Matches are distributed among these distances:
18 12 0.11
19 41 0.37
20 43 0.38
21 16 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (19 bp):
AATTTTAATAATTTTTAAT
Found at i:43156088 original size:20 final size:20
Alignment explanation
Indices: 43155930--43156107 Score: 72
Period size: 20 Copynumber: 8.9 Consensus size: 20
43155920 CGCAATTTCT
*
43155930 AATAATTTTTA-AAATTTTTA
1 AATAATTTTTATTAA-TTTTA
* *
43155950 AATATTTTTTA-CAATTTT-
1 AATAATTTTTATTAATTTTA
*
43155968 AAT-ATTTTCTA-TAATTAGT-
1 AATAATTTT-TATTAATT-TTA
*
43155987 AATATATTTTT-TCAATTTT-
1 AATA-ATTTTTATTAATTTTA
*
43156006 ATTAATTTTTTAGTT-A-TTTA
1 AATAA-TTTTTA-TTAATTTTA
* *
43156026 AATATTTTTTTATAAATTTT-
1 AATA-ATTTTTATTAATTTTA
* *
43156046 AATAAAATTTTAATAATTTTA
1 AAT-AATTTTTATTAATTTTA
*
43156067 AATAATTTTTATTTATTTTA
1 AATAATTTTTATTAATTTTA
* *
43156087 AAAATATTTTTTTTCAATTTT
1 AATA-ATTTTTATT-AATTTT
43156108 TTAAAATGTT
Statistics
Matches: 120, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.03
18 10 0.08
19 21 0.17
20 59 0.49
21 21 0.17
22 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (20 bp):
AATAATTTTTATTAATTTTA
Found at i:43161151 original size:13 final size:13
Alignment explanation
Indices: 43161133--43161157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43161123 TATTTTAATA
43161133 TTATTTTGTGTGT
1 TTATTTTGTGTGT
43161146 TTATTTTGTGTG
1 TTATTTTGTGTG
43161158 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:43162379 original size:114 final size:114
Alignment explanation
Indices: 43162139--43162360 Score: 417
Period size: 114 Copynumber: 1.9 Consensus size: 114
43162129 CAGCATATGT
*
43162139 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
43162204 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
* *
43162253 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
43162318 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
43162361 GTATATATGA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (114 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:43162896 original size:41 final size:41
Alignment explanation
Indices: 43162846--43162991 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
43162836 AGACTTTACA
* *
43162846 TCTAGCAGGCTAAGTGCCGGTGATTTGAAACAGGCTATAAG
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
43162887 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
43162928 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
43162969 -CTTAGCAGGTTAATTGCCGGTGA
1 TC-TAGCAGGCTAAGTGCCGGTGA
43162992 ATATTATAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 94 0.99
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (41 bp):
TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:43166469 original size:61 final size:62
Alignment explanation
Indices: 43166404--43166607 Score: 243
Period size: 61 Copynumber: 3.3 Consensus size: 62
43166394 TACCTCTCCT
* *
43166404 GAGTTTTTCCACAAAGGCGTTCCTTAACATTTAGTACTCACTACAAAGGCTTTCCTGT-TAA
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
** * * *
43166465 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTTGCCATAAAGGCTTTCTTATCT-A
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
* * * * * * * * *
43166526 GAATTTTTCCATAAAGTCGCTCCATAACATTGAGTACTCACTACAAAAGCTTTTTTGTCCAA
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
43166588 -AGTTTTTCCACAAAGGCGTT
1 GAGTTTTTCCACAAAGGCGTT
43166608 TCTTCTCCTG
Statistics
Matches: 116, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
61 114 0.98
62 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (62 bp):
GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
Found at i:43166487 original size:29 final size:28
Alignment explanation
Indices: 43166404--43166489 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 28
43166394 TACCTCTCCT
43166404 GAGTTTTTCCACAAAGGCGTTCC-TTAA
1 GAGTTTTTCCACAAAGGCGTTCCTTTAA
* *
43166431 CA-TTTAGTACTCACTACAAAGGCTTTCCTGTTAA
1 GAGTTT--T--TC-C-ACAAAGGCGTTCCT-TTAA
43166465 GAGTTTTTCCACAAAGGCGTTCCTT
1 GAGTTTTTCCACAAAGGCGTTCCTT
43166490 AACATTCAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 2 0.04
29 13 0.28
30 3 0.07
31 3 0.07
32 12 0.26
33 1 0.02
34 5 0.11
35 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (28 bp):
GAGTTTTTCCACAAAGGCGTTCCTTTAA
Found at i:43166797 original size:53 final size:53
Alignment explanation
Indices: 43166726--43166831 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
43166716 TCCTTAAATT
* *
43166726 TTTCAATATGATGTCATAACCCACCAGTTACAATCTTACACGATATGGTCTTC
1 TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
* ***
43166779 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACAATATGGTCTTC
1 TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
43166832 AGTGCCATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (53 bp):
TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
Found at i:43167197 original size:202 final size:202
Alignment explanation
Indices: 43166851--43167233 Score: 721
Period size: 202 Copynumber: 1.9 Consensus size: 202
43166841 GCCATGGACC
43166851 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
* * *
43166916 GGACTCATCATGTATCGACTCACTCATGACAGGCATTCTTATGCCTACTAGGCACACATGCACTT
66 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
43166981 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
131 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
43167046 TCAGACT
196 TCAGACT
*
43167053 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGATAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
43167118 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
66 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
*
43167183 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATATTCATTCAG
131 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAG
43167234 ATTCATAAGT
Statistics
Matches: 176, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 176 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (202 bp):
TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
TCAGACT
Found at i:43172121 original size:51 final size:51
Alignment explanation
Indices: 43172061--43172300 Score: 230
Period size: 51 Copynumber: 4.7 Consensus size: 51
43172051 TAGGTCGTAT
* * *
43172061 ATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * * * * * * * *
43172112 ATATAACTTTACATAATCT-GTACGCACACACTTTACATTAATAGTTGACAT
1 ATAGAACTTTACATAAT-TAGTACGCATATACTTTGCATTCACAATTCACAC
* * * * *
43172163 ATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACTC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * ** * *
43172214 ATAAAACTTTACATAATTAGTGCAAATATGCTTTACATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * *
43172265 ATAGAACTTTATATAATCAGTAAGCATATACTTTGC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGC
43172301 TTTGGAAGAC
Statistics
Matches: 146, Mismatches: 41, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
50 1 0.01
51 144 0.99
52 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (51 bp):
ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
Found at i:43172248 original size:102 final size:101
Alignment explanation
Indices: 43172059--43172300 Score: 256
Period size: 102 Copynumber: 2.4 Consensus size: 101
43172049 GCTAGGTCGT
* * * * *
43172059 ATATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAATTCACACATATAACTTTAC
1 ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
* * * *
43172124 ATAATCTGTACGCACACACTTTACATTAATAGTTGAC
66 ATAATCTGTA-GCAAACACTTTACATTAACAATTCAC
* * * * *
43172161 ATATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACTCATAAAACTTTAC
1 ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
* *
43172226 ATAAT-TAGT-GCAAATATGCTTTACATTCACAATTCAC
66 ATAATCT-GTAGCAAACA--CTTTACATTAACAATTCAC
* *
43172263 ACATAGAACTTTAT-ATAATCAGTAAGCATATACTTTGC
1 ATATAGAACTTT-TCATAATTAGTAAGCATATACTTTGC
43172301 TTTGGAAGAC
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 5 0.04
101 1 0.01
102 110 0.94
103 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (101 bp):
ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
ATAATCTGTAGCAAACACTTTACATTAACAATTCAC
Found at i:43176679 original size:7 final size:7
Alignment explanation
Indices: 43176669--43176695 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43176659 AATTGAGAGA
43176669 TGTGTGT
1 TGTGTGT
43176676 TGTGTGT
1 TGTGTGT
43176683 TGTGTGT
1 TGTGTGT
43176690 TGTGTG
1 TGTGTG
43176696 AAATGAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (7 bp):
TGTGTGT
Found at i:43177120 original size:30 final size:30
Alignment explanation
Indices: 43177086--43177148 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
43177076 ACTTAACAAG
43177086 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
43177116 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
43177146 CAA
1 CAA
43177149 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:43184258 original size:18 final size:18
Alignment explanation
Indices: 43184237--43184277 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43184227 TCTTCTTCAG
43184237 CAACAACTTCCGCTTCGA
1 CAACAACTTCCGCTTCGA
* **
43184255 CAACAGCTTCTTCTTCGA
1 CAACAACTTCCGCTTCGA
43184273 CAACA
1 CAACA
43184278 TCAATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (18 bp):
CAACAACTTCCGCTTCGA
Found at i:43190770 original size:15 final size:15
Alignment explanation
Indices: 43190750--43190778 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43190740 GATGTTAGCT
43190750 CCCAAATATTAATTG
1 CCCAAATATTAATTG
43190765 CCCAAATATTAATT
1 CCCAAATATTAATT
43190779 TCCAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.34
Consensus pattern (15 bp):
CCCAAATATTAATTG
Found at i:43192725 original size:12 final size:12
Alignment explanation
Indices: 43192708--43192732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43192698 TGAATGTTTT
43192708 GCTGTTGTATCG
1 GCTGTTGTATCG
43192720 GCTGTTGTATCG
1 GCTGTTGTATCG
43192732 G
1 G
43192733 GGTATGGCTA
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:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (12 bp):
GCTGTTGTATCG
Done.