Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold53
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: 4419549
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 41486 characters in sequence are not A, C, G, or T
File 13 of 28
Found at i:1959434 original size:168 final size:165
Alignment explanation
Indices: 1959283--1959647 Score: 419
Period size: 168 Copynumber: 2.2 Consensus size: 165
1959273 GGATTGGATT
* * *** *
1959283 GACAAGTCAATAAGAGATAAAAGATTTA-TTCAAGACTAAGTGGACAGGTAAACAAGGGATAAAG
1 GACAAGTCAATAAGAGATAAAGGATTTACCT-AAGACTAAGCCAACAGGTAAACAAAGGATAAAG
* * * **
1959347 AAGTTAA-TCGGGATTGGACCGATAAGTCAATAAAATATAAAAGGAAGTACCTGAGACCAAGCTG
65 AAGTTAACT-GGGATTGGACCAATAAGTCAACAAAAGATAAAAAAAAGTACCTGAGACCAAGCTG
* *
1959411 ATAGGTGAATGAAGGATAAAAAGTTGACCGAGATTAAGCC
129 ACAGG-GAATGAAGGATAAAAAGTTGACAG-GATTAA-CC
* * * * ** *
1959451 GATAAGTCAACAAGGGATAAAGGATTTACCTGAGACTGGGCCAACAGGTAAATAAAGGATAAAGA
1 GACAAGTCAATAAGAGATAAAGGATTTACCTAAGACTAAGCCAACAGGTAAACAAAGGATAAAGA
* * *
1959516 AGTTGACTGGGATTGGACCAATAAGTCAACAAAAGATAAAAAAAAGTACTTGGGACCAAGCTGAC
66 AGTTAACTGGGATTGGACCAATAAGTCAACAAAAGATAAAAAAAAGTACCTGAGACCAAGCTGAC
* *
1959581 AGGGAATGAAGGATAAGAAGTTGACCGGGATTAAACC
131 AGGGAATGAAGGATAAAAAGTTGA-CAGGATT-AACC
*
1959618 GACAAGTCAATGAGAGATAAAGGATTTACC
1 GACAAGTCAATAAGAGATAAAGGATTTACC
1959648 CGGGACTAGG
Statistics
Matches: 165, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
167 52 0.32
168 111 0.67
169 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (165 bp):
GACAAGTCAATAAGAGATAAAGGATTTACCTAAGACTAAGCCAACAGGTAAACAAAGGATAAAGA
AGTTAACTGGGATTGGACCAATAAGTCAACAAAAGATAAAAAAAAGTACCTGAGACCAAGCTGAC
AGGGAATGAAGGATAAAAAGTTGACAGGATTAACC
Found at i:1959435 original size:84 final size:85
Alignment explanation
Indices: 1959339--1959627 Score: 291
Period size: 84 Copynumber: 3.4 Consensus size: 85
1959329 GGTAAACAAG
* * * * *
1959339 GGATAAAGAAGTTAATCGGGATTGGACCGATAAGTCAATAAAATATAAAAGGAAGTACCTGAGAC
1 GGATAAAGAAGTTGACCGGGATTGAACCGATAAGTCAACAAAAGATAAAAGGAAGTACCTGAGAC
*
1959404 CAAGCTGATAGGTGAATGAA
66 CAAGCTGACAGGTGAATGAA
* ** **
1959424 GGATAAA-AAGTTGACCGAGATT-AAGCCGATAAGTCAACAAGGGAT-AAAGGATTTACCTGAGA
1 GGATAAAGAAGTTGACCGGGATTGAA-CCGATAAGTCAACAAAAGATAAAAGGAAGTACCTGAGA
*** ** * *
1959486 CTGGGCCAACAGGTAAATAAA
65 CCAAGCTGACAGGTGAATGAA
* * * ** * *
1959507 GGATAAAGAAGTTGACTGGGATTGGACCAATAAGTCAACAAAAGATAAAAAAAAGTACTTGGGAC
1 GGATAAAGAAGTTGACCGGGATTGAACCGATAAGTCAACAAAAGATAAAAGGAAGTACCTGAGAC
1959572 CAAGCTGACAGG-GAATGAA
66 CAAGCTGACAGGTGAATGAA
* *
1959591 GGAT-AAGAAGTTGACCGGGATTAAACCGACAAGTCAA
1 GGATAAAGAAGTTGACCGGGATTGAACCGATAAGTCAA
1959628 TGAGAGATAA
Statistics
Matches: 158, Mismatches: 42, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
83 64 0.41
84 67 0.42
85 27 0.17
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (85 bp):
GGATAAAGAAGTTGACCGGGATTGAACCGATAAGTCAACAAAAGATAAAAGGAAGTACCTGAGAC
CAAGCTGACAGGTGAATGAA
Found at i:1959531 original size:252 final size:252
Alignment explanation
Indices: 1959077--1959532 Score: 591
Period size: 252 Copynumber: 1.8 Consensus size: 252
1959067 TGGGATAGCG
*
1959077 GGTAAACAAAGGATAAAGAAGTTGTCCGGGATTAGACCGACAAGTCAACAAAAGATAAAAAGAAA
1 GGTAAACAAAGGATAAAGAAGTTATCCGGGATTAGACCGACAAGTCAACAAAAGATAAAAAGAAA
* * *
1959142 GTACTGGGACCAAGCCGACAAGGGAATGAAGGATAGAAAGTTGACCAAGATTAAACTGAAAGGTC
66 GTACTGAGACCAAGCCGACAAGGGAATGAAGGATAAAAAGTTGACCAAGATTAAACCGAAAGGTC
* * * *
1959207 ACTGAGGGATAAAGGATTTACCAGGGACTAGGCTAGCGAGTAAACAAAGAATAAAAAAGTTAACT
131 ACTAAGGGATAAAGGATTTACCAGAGACTAGGCCAACGAGTAAACAAAGAATAAAAAAGTTAACT
1959272 AGGATTGGATTGACAAGTCAATAAGAGATAAAAGATTTATTCAAGACTAAGTGGACA
196 AGGATTGGATTGACAAGTCAATAAGAGATAAAAGATTTATTCAAGACTAAGTGGACA
* * * * * *
1959329 GGTAAACAAGGGATAAAGAAGTTAAT-CGGGATTGGACCGATAAGTCAATAAAATAT-AAAAGGA
1 GGTAAACAAAGGATAAAGAAGTT-ATCCGGGATTAGACCGACAAGTCAACAAAAGATAAAAAGAA
* * * *
1959392 AGTACCTGAGACCAAGCTGA-TAGGTGAATGAAGGATAAAAAGTTGACCGAGATTAAGCCGATAA
65 AGTA-CTGAGACCAAGCCGACAAGG-GAATGAAGGATAAAAAGTTGACCAAGATTAAACCGA-AA
* * * * *
1959456 -GTCAAC-AAGGGATAAAGGATTTACCTGAGACTGGGCCAAC-AGGTAAATAAAGGATAAAGAAG
127 GGTC-ACTAAGGGATAAAGGATTTACCAGAGACTAGGCCAACGA-GTAAACAAAGAATAAAAAAG
* *
1959518 TTGACTGGGATTGGA
190 TTAACTAGGATTGGA
1959533 CCAATAAGTC
Statistics
Matches: 173, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
251 14 0.08
252 154 0.89
253 5 0.03
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (252 bp):
GGTAAACAAAGGATAAAGAAGTTATCCGGGATTAGACCGACAAGTCAACAAAAGATAAAAAGAAA
GTACTGAGACCAAGCCGACAAGGGAATGAAGGATAAAAAGTTGACCAAGATTAAACCGAAAGGTC
ACTAAGGGATAAAGGATTTACCAGAGACTAGGCCAACGAGTAAACAAAGAATAAAAAAGTTAACT
AGGATTGGATTGACAAGTCAATAAGAGATAAAAGATTTATTCAAGACTAAGTGGACA
Found at i:1959900 original size:84 final size:84
Alignment explanation
Indices: 1959735--1960015 Score: 279
Period size: 84 Copynumber: 3.4 Consensus size: 84
1959725 GGTGAATGAA
* * * * * * *
1959735 GGATAAAGGTTGATC-GAGACTGAACTAACAGGTCACCATAAGGGTAATGGG-CTTATTGATGAT
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTC-TATCGAGGAC
* * *
1959798 TGAGCCGATAAGTAAACAAT
65 TAAGCTGATAGGTAAACAAT
*
1959818 GGATGAAGGTTGACCAGAGACTGAGCTGACATGTCACCATAAGGGTAATGGGTCTATCGAGGACT
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTCTATCGAGGACT
*
1959883 AAGCTGATAGGTGAACAAT
66 AAGCTGATAGGTAAACAAT
* * * * *
1959902 GGATGAAGGTTGATCAAAGACTAAGCTGACAGGTCACCATAAGGG--ATGGGGTTTA-CTA-GAC
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAAT-GGGTCTATCGAGGAC
* *
1959963 TGAA-CTGGTAGGTAAATAAT
65 T-AAGCTGATAGGTAAACAAT
** * *
1959983 AAATGAAGGTTGACCAGAGATTGAGTTGACAGG
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGG
1960016 CTACGAAAGA
Statistics
Matches: 166, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
81 43 0.26
82 6 0.04
83 19 0.11
84 97 0.58
85 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.23
Consensus pattern (84 bp):
GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGGTAATGGGTCTATCGAGGACT
AAGCTGATAGGTAAACAAT
Found at i:1960076 original size:84 final size:83
Alignment explanation
Indices: 1959735--1960077 Score: 265
Period size: 84 Copynumber: 4.1 Consensus size: 83
1959725 GGTGAATGAA
* * * * * * *
1959735 GGATAAAGGTTGATC-GAGACTGAACTAACAGGTCACCATAAGG-GTAATGGGCTTA-TTGATGA
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGAG--ATGGGTTTACTAG-GGA
* *
1959797 TTGAGCCGATAAGTAAACAAT
63 CTGAGCCGATAGGTAAACAAT
* * *
1959818 GGATGAAGGTTGACCAGAGACTGAGCTGACATGTCACCATAAGG-GTAATGGGTCTA-TCGAGGA
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGAG--ATGGGTTTACTAG-GGA
* * *
1959881 CTAAGCTGATAGGTGAACAAT
63 CTGAGCCGATAGGTAAACAAT
* * *
1959902 GGATGAAGGTTGATCAAAGACTAAGCTGACAGGTCACCATAAGG-GATGGGGTTTACTA--GACT
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGAGAT-GGGTTTACTAGGGACT
* * * *
1959964 GAACTGGTAGGTAAATAAT
65 GAGCCGATAGGTAAACAAT
** * * *
1959983 AAATGAAGGTTGACCAGAGATTGAGTTGACAGG-CTACGA-AAGAGAGATAGGGTTTACTAGGGA
1 GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTC-ACCATAAG-GAGAT-GGGTTTACTAGGGA
* *
1960046 TTGAGCCGATAGGTAAATAAT
63 CTGAGCCGATAGGTAAACAAT
1960067 GGATGAAGGTT
1 GGATGAAGGTT
1960078 ATTTCTTGAG
Statistics
Matches: 212, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
80 4 0.02
81 48 0.23
82 15 0.07
83 19 0.09
84 126 0.59
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (83 bp):
GGATGAAGGTTGACCAGAGACTGAGCTGACAGGTCACCATAAGGAGATGGGTTTACTAGGGACTG
AGCCGATAGGTAAACAAT
Found at i:1960192 original size:42 final size:42
Alignment explanation
Indices: 1960146--1960236 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
1960136 GCCGACAGGC
* *
1960146 AGACGGTGGATGAAGAAGCCTTCCGGGTCTAAG-CGAATGGGT
1 AGACGGTAGATGAAGAAACCTTCCGGGTCTAAGTCG-ATGGGT
** * *
1960188 AGACGAAAGATGAAGAAATCTTTCGGGTCTAAGTCGATGGGT
1 AGACGGTAGATGAAGAAACCTTCCGGGTCTAAGTCGATGGGT
1960230 AGACGGT
1 AGACGGT
1960237 TGATAAAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (42 bp):
AGACGGTAGATGAAGAAACCTTCCGGGTCTAAGTCGATGGGT
Found at i:1960349 original size:43 final size:42
Alignment explanation
Indices: 1960235--1960444 Score: 154
Period size: 42 Copynumber: 5.0 Consensus size: 42
1960225 TGGGTAGACG
* * * *
1960235 GTTGATAAAGGAAGTCTCTCGAGACTGAGCCAATGGGCAGAGA
1 GTTGATAAA-GAAGTCTCTCGAGTCTAAGCCAACGGGCAGATA
**** * *
1960278 AAAAATGAAGAAGTCTCTCGGGTCTAAGCCAACGGGCAGATA
1 GTTGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGATA
* * * *
1960320 GTTGATAAAGAAAGTCTCTCGAGTTTAAGCCAACTGACAGATG
1 GTTGATAAAG-AAGTCTCTCGAGTCTAAGCCAACGGGCAGATA
* * * * * *
1960363 GTGGATAAAGAAGTCTCTAGGGTCTAAGACGACGGGCAGA-C
1 GTTGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGATA
*** *
1960404 GAAAAATGAAA-AAGTCTCTCGAGTCTAAGCCGACGGGCAGA
1 G-TTGAT-AAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGA
1960445 CAGACAGCGG
Statistics
Matches: 129, Mismatches: 35, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
41 1 0.01
42 85 0.66
43 43 0.33
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (42 bp):
GTTGATAAAGAAGTCTCTCGAGTCTAAGCCAACGGGCAGATA
Found at i:1960351 original size:85 final size:85
Alignment explanation
Indices: 1960174--1960352 Score: 207
Period size: 85 Copynumber: 2.1 Consensus size: 85
1960164 CCTTCCGGGT
* * * * * * * * *
1960174 CTAAGCGAATGGGTAGACGAAAGATGAAGAAATCTTTCGGGTCTAAGTCGATGGGTAGACGGTTG
1 CTAAGCCAATGGGCAGACGAAAAATGAAGAAATCTCTCGGGTCTAAGCCAACGGGCAGACAGTTG
*
1960239 ATAAAGGAAGTCTCTCGAGA
66 ATAAAGAAAGTCTCTCGAGA
* * *
1960259 CTGAGCCAATGGGCAGA-GAAAAAATGAAGAAGTCTCTCGGGTCTAAGCCAACGGGCAGATAGTT
1 CTAAGCCAATGGGCAGACG-AAAAATGAAGAAATCTCTCGGGTCTAAGCCAACGGGCAGACAGTT
*
1960323 GATAAAGAAAGTCTCTCGAGT
65 GATAAAGAAAGTCTCTCGAGA
*
1960344 TTAAGCCAA
1 CTAAGCCAA
1960353 CTGACAGATG
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 1 0.01
85 76 0.99
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.21
Consensus pattern (85 bp):
CTAAGCCAATGGGCAGACGAAAAATGAAGAAATCTCTCGGGTCTAAGCCAACGGGCAGACAGTTG
ATAAAGAAAGTCTCTCGAGA
Found at i:1960752 original size:85 final size:84
Alignment explanation
Indices: 1960607--1960846 Score: 243
Period size: 85 Copynumber: 2.8 Consensus size: 84
1960597 AGGATTGGGC
* ** * *
1960607 CGACGGGCAGACAATGGATGAAGAAATCTCTCGGGTC-AAAGTCGATGGGTAGACGATTGATAAA
1 CGAC-GGCAGACAATGGATGAAGAAGTCTCTCAAGTCTAAA-TCGATAGGCAGACGATTGATAAA
*
1960671 GGAAGTCGCCCGAGACTGAG-
64 AGAAGTCGCCCGAGACTGAGT
* * * *
1960691 CTGACGGCCAGACTATGGATGAAGAAGTCTCTCAAGTCTAAACCGATAGGCAGATGGTTGATAAA
1 C-GACGG-CAGACAATGGATGAAGAAGTCTCTCAAGTCTAAATCGATAGGCAGACGATTGATAAA
* * * *
1960756 AGAAGTCTCTCGGGACTGTGT
64 AGAAGTCGCCCGAGACTGAGT
* * * * *
1960777 CGACAGGCAAACAATGGATGAAGAAGTCTC-CACGTCTAAGTCGATAGGCAAACTATTGATAAAA
1 CGAC-GGCAGACAATGGATGAAGAAGTCTCTCAAGTCTAAATCGATAGGCAGACGATTGATAAAA
1960841 GAAGTC
65 GAAGTC
1960847 TCCCAGGATT
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
84 36 0.28
85 86 0.67
86 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (84 bp):
CGACGGCAGACAATGGATGAAGAAGTCTCTCAAGTCTAAATCGATAGGCAGACGATTGATAAAAG
AAGTCGCCCGAGACTGAGT
Found at i:1960843 original size:42 final size:43
Alignment explanation
Indices: 1960712--1960848 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
1960702 ACTATGGATG
** * *
1960712 AAGAAGTCTCTCAAGTCTAAACCGATAGGCAGA-TGGTTGATAA
1 AAGAAGTCTCTCAAGTCTAAGTCGATAGGCAAACT-ATTGATAA
** * ** * * * *
1960755 AAGAAGTCTCTCGGGACTGTGTCGACAGGCAAACAATGGAT-G
1 AAGAAGTCTCTCAAGTCTAAGTCGATAGGCAAACTATTGATAA
*
1960797 AAGAAGTCTC-CACGTCTAAGTCGATAGGCAAACTATTGATAA
1 AAGAAGTCTCTCAAGTCTAAGTCGATAGGCAAACTATTGATAA
1960839 AAGAAGTCTC
1 AAGAAGTCTC
1960849 CCAGGATTGA
Statistics
Matches: 70, Mismatches: 22, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
41 22 0.31
42 20 0.29
43 28 0.40
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (43 bp):
AAGAAGTCTCTCAAGTCTAAGTCGATAGGCAAACTATTGATAA
Found at i:1960867 original size:84 final size:84
Alignment explanation
Indices: 1960612--1960903 Score: 207
Period size: 85 Copynumber: 3.5 Consensus size: 84
1960602 TGGGCCGACG
* * ** * * * * * *
1960612 GGCAGACAATGGATGAAGAAATCTCTCGGGTCAAAGTCGATGGGTAGACGATTGATAAAGGAAGT
1 GGCAAACAATGGATGAAGAAGTCTC-CACGTCTAAGTCGATAGGCAAATGATTGATAAAAGAAGT
* * **
1960677 CGCCC-GAGACTGAGCTGAC-
65 CTCCCAG-GACTGAACCAACA
* * * ** * *
1960696 GGCCAGACTATGGATGAAGAAGTCTCTCAAGTCTAAACCGATAGGCAGATGGTTGATAAAAGAAG
1 GG-CAAACAATGGATGAAGAAGTCTC-CACGTCTAAGTCGATAGGCAAATGATTGATAAAAGAAG
* * *** *
1960761 TCTCTCGGGACTGTGTCGACA
64 TCTCCCAGGACTGAACCAACA
1960782 GGCAAACAATGGATGAAGAAGTCTCCACGTCTAAGTCGATAGGCAAACT-ATTGATAAAAGAAGT
1 GGCAAACAATGGATGAAGAAGTCTCCACGTCTAAGTCGATAGGCAAA-TGATTGATAAAAGAAGT
*
1960846 CTCCCAGGATTGAACCAACA
65 CTCCCAGGACTGAACCAACA
* * *
1960866 GGTAGACTATGGAT-AAGAAGTCTCC-CGGGTCTAAGTCG
1 GGCAAACAATGGATGAAGAAGTCTCCAC--GTCTAAGTCG
1960904 GCAGGCAGAC
Statistics
Matches: 168, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
82 1 0.01
83 11 0.07
84 68 0.40
85 85 0.51
86 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (84 bp):
GGCAAACAATGGATGAAGAAGTCTCCACGTCTAAGTCGATAGGCAAATGATTGATAAAAGAAGTC
TCCCAGGACTGAACCAACA
Found at i:1961133 original size:85 final size:84
Alignment explanation
Indices: 1960996--1961567 Score: 356
Period size: 85 Copynumber: 6.8 Consensus size: 84
1960986 TGACGGGTAA
* * * **
1960996 ACAATGGATAAAGAAGTCT-TCTAGGTCTAAGCTGACAGGT-GAATGAAGGATAAAAGAAGTCTC
1 ACAATGGATGAAGAAGTCTCTC-AGGTCTAAGCCGACGGGTAG-ATGATTGATAAAAGAAGTCTC
* *
1961059 CCAGGATTGGTTCGATGGGCAG
64 CCAGGACTGG-CCGATGGGCAG
* * * * *
1961081 ACAATGGATGAAGAAGTCTCTCAGCTCTAAGCCAACGGGTAGACGATTGATAAAGGAAAT-TGCC
1 ACAATGGATGAAGAAGTCTCTCAGGTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCT-CC
* * *
1961145 CAAGACTAAGCCGATGGCCAG
65 CAGGACT-GGCCGATGGGCAG
* * ** * * * *
1961166 ACTATGCATGAAGAAGTCTCTC-GAGTCTAAGTTGACGGGCAGATGGTTGATAAAGGAACTCTCC
1 ACAATGGATGAAGAAGTCTCTCAG-GTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCTCC
* * * *
1961230 CGGGACTATGTCGATGGGTAG
65 CAGGACT-GGCCGATGGGCAG
* * * * ** * * * * * * **
1961251 ATAATTGATCAAAAAGTCTCTTGGGTCTAAGTCGACGAGCAAAGGGTTGATAAAAGAAGTCT-TT
1 ACAATGGATGAAGAAGTCTCTCAGGTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCTCCC
* *
1961315 AGGACTGAGCCGACGGGTAG
66 AGGACTG-GCCGATGGGCAG
* * *
1961335 ACTATGGATGAAGAAGTCTCTC-GAGTCTTAGCCGACGGGTAGATGATTAAT-AAAGAAGTCT-C
1 ACAATGGATGAAGAAGTCTCTCAG-GTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCTCC
** * * *
1961397 TTGAGACTGATCCGACGGGCAA
65 CAG-GACTG-GCCGATGGGCAG
* * * * *
1961419 ACAATAGATAAAGAAGTCTCTC-GTGTCTAAGCCGATGGAG-AGACGATTGATAAAGGAAGTCTC
1 ACAATGGATGAAGAAGTCTCTCAG-GTCTAAGCCGACGG-GTAGATGATTGATAAAAGAAGTCTC
* * **
1961482 TCGGGACTGAGTTGATGGGCAG
64 CCAGGACTG-GCCGATGGGCAG
* * ** *
1961504 ACTATGGATGAAGAAGTCTCCCAGGTCTAAGTTGACTGGTAGATGATTGAT-AAAGAAGTCTCCC
1 ACAATGGATGAAGAAGTCTCTCAGGTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCTCCC
1961568 GGGTCTGAGC
Statistics
Matches: 375, Mismatches: 97, Indels: 31
0.75 0.19 0.06
Matches are distributed among these distances:
83 13 0.03
84 120 0.32
85 234 0.62
86 8 0.02
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (84 bp):
ACAATGGATGAAGAAGTCTCTCAGGTCTAAGCCGACGGGTAGATGATTGATAAAAGAAGTCTCCC
AGGACTGGCCGATGGGCAG
Found at i:1961336 original size:464 final size:465
Alignment explanation
Indices: 1960439--1961354 Score: 1136
Period size: 464 Copynumber: 2.0 Consensus size: 465
1960429 TAAGCCGACG
* * * * * *
1960439 GGCAGACAGACAGCGGATGAAGAATCTCGTGGGTCTAAGTTGACATGCAGACGGTTCATAAAGGA
1 GGCAGACAGACAGCGGATGAAGAATCTCCTAGGTCTAAGCTAACAGGCAGACGATTCATAAAGGA
*
1960504 AATATCCTGAGACTGAGCCGACGGGCAAAAAATATATAAAGAAGTCTCCAAGGTCTAAGCAGACA
66 AATATCCTGAGACTGAGCCGACGGGCAAAAAATAGATAAAGAAGTCTCCAAGGTCTAAGCAGACA
*
1960569 GGTGAATGAAGGACAAAAAAAGTCTCTCAGGATTGGGCCGACGGGCAGACAATGGATGAAGAAAT
131 GGTGAATGAAGGACAAAAAAAGTCTCCCAGGATTGGGCCGACGGGCAGACAATGGATGAAGAAAT
* * * * * * * * *
1960634 CTCTCGGGTCAAAGTCGATGGGTAGACGATTGATAAAGGAAGTCGCCCGAGACTGAGCTGACGGC
196 CTCTCAGCTCAAAGCCAACGGGTAGACGATTGATAAAGGAAATCGCCCAAGACTAAGCCGACGGC
* * *
1960699 CAGACTATGGATGAAGAAGTCTCTCAAGTCTAAACCGATAGGCAGATGGTTGATAAAAGAAGTCT
261 CAGACTATGCATGAAGAAGTCTCTCAAGTCTAAACCGACAGGCAGATGGTTGATAAAAGAACTCT
* * * * *
1960764 CTCGGGACTGTGTCGACAGGCAAACAATGGATGAAGAAGTCTCCACGTCTAAGTCGATAGGCAAA
326 CCCGGGACTATGTCGACAGGCAAACAATGGATCAAAAAGTCTCCACGTCTAAGTCGAGAGGCAAA
* *
1960829 CTATTGATAAAAGAAGTCTCCCAGGATTGAACCAACAGGTAGACTATGGAT-AAGAAGTCTCCCG
391 CGATTGATAAAAGAAGTCTCCCAGGACTGAACCAACAGGTAGACTATGGATGAAGAAGTCTCCCG
1960893 GGTCTAAGTC
456 GGTCTAAGTC
* * * * *
1960903 GGCAGGCAGACAGTGGATGAAGAATCTCCTAGGTTTAAGCTAACGGGCAGACGATTGATAAAGGA
1 GGCAGACAGACAGCGGATGAAGAATCTCCTAGGTCTAAGCTAACAGGCAGACGATTCATAAAGGA
* * ** * * * * * *
1960968 AATATTCTGGGACTGAGTTGACGGGTAAACAATGGATAAAGAAGTCTTCTAGGTCTAAGCTGACA
66 AATATCCTGAGACTGAGCCGACGGGCAAAAAATAGATAAAGAAGTCTCCAAGGTCTAAGCAGACA
* * ** * *
1961033 GGTGAATGAAGGATAAAAGAAGTCTCCCAGGATTGGTTCGATGGGCAGACAATGGATGAAGAAGT
131 GGTGAATGAAGGACAAAAAAAGTCTCCCAGGATTGGGCCGACGGGCAGACAATGGATGAAGAAAT
* * *
1961098 CTCTCAGCTCTAAGCCAACGGGTAGACGATTGATAAAGGAAATTGCCCAAGACTAAGCCGATGGC
196 CTCTCAGCTCAAAGCCAACGGGTAGACGATTGATAAAGGAAATCGCCCAAGACTAAGCCGACGGC
* *** * *
1961163 CAGACTATGCATGAAGAAGTCTCTCGAGTCTAAGTTGACGGGCAGATGGTTGATAAAGGAACTCT
261 CAGACTATGCATGAAGAAGTCTCTCAAGTCTAAACCGACAGGCAGATGGTTGATAAAAGAACTCT
** * * * * ***
1961228 CCCGGGACTATGTCGATGGGTAGATAATTGATCAAAAAGTCTCTTGGGTCTAAGTCGACGA-GCA
326 CCCGGGACTATGTCGACAGGCAAACAATGGATCAAAAAGTCTC-CACGTCTAAGTCGA-GAGGCA
* * ** * * *
1961292 AAGGGTTGATAAAAGAAGTCT-TTAGGACTGAGCCGACGGGTAGACTATGGATGAAGAAGTCTC
389 AACGATTGATAAAAGAAGTCTCCCAGGACTGAACCAACAGGTAGACTATGGATGAAGAAGTCTC
1961355 TCGAGTCTTA
Statistics
Matches: 376, Mismatches: 73, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
464 333 0.89
465 42 0.11
466 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (465 bp):
GGCAGACAGACAGCGGATGAAGAATCTCCTAGGTCTAAGCTAACAGGCAGACGATTCATAAAGGA
AATATCCTGAGACTGAGCCGACGGGCAAAAAATAGATAAAGAAGTCTCCAAGGTCTAAGCAGACA
GGTGAATGAAGGACAAAAAAAGTCTCCCAGGATTGGGCCGACGGGCAGACAATGGATGAAGAAAT
CTCTCAGCTCAAAGCCAACGGGTAGACGATTGATAAAGGAAATCGCCCAAGACTAAGCCGACGGC
CAGACTATGCATGAAGAAGTCTCTCAAGTCTAAACCGACAGGCAGATGGTTGATAAAAGAACTCT
CCCGGGACTATGTCGACAGGCAAACAATGGATCAAAAAGTCTCCACGTCTAAGTCGAGAGGCAAA
CGATTGATAAAAGAAGTCTCCCAGGACTGAACCAACAGGTAGACTATGGATGAAGAAGTCTCCCG
GGTCTAAGTC
Found at i:1961368 original size:42 final size:42
Alignment explanation
Indices: 1961303--1961523 Score: 169
Period size: 42 Copynumber: 5.3 Consensus size: 42
1961293 AGGGTTGATA
* * *
1961303 AAAGAAGTCTTTAG-GACTGAGCCGACGGGTAGACTATGGAT
1 AAAGAAGTCTCTCGAGACTGAGCCGACGGGCAGACTATGGAT
* * * * **
1961344 GAAGAAGTCTCTCGAGTCTTAGCCGACGGGTAGA-TGATTAAT
1 AAAGAAGTCTCTCGAGACTGAGCCGACGGGCAGACT-ATGGAT
* * * * *
1961386 AAAGAAGTCTCTTGAGACTGATCCGACGGGCAAACAATAGAT
1 AAAGAAGTCTCTCGAGACTGAGCCGACGGGCAGACTATGGAT
* * * * * *
1961428 AAAGAAGTCTCTCGTGTCTAAGCCGATGGAG-AGACGATTGAT
1 AAAGAAGTCTCTCGAGACTGAGCCGACGG-GCAGACTATGGAT
* ** *
1961470 AAAGGAAGTCTCTCGGGACTGAGTTGATGGGCAGACTATGGAT
1 AAA-GAAGTCTCTCGAGACTGAGCCGACGGGCAGACTATGGAT
*
1961513 GAAGAAGTCTC
1 AAAGAAGTCTC
1961524 CCAGGTCTAA
Statistics
Matches: 140, Mismatches: 34, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
41 12 0.09
42 95 0.68
43 33 0.24
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (42 bp):
AAAGAAGTCTCTCGAGACTGAGCCGACGGGCAGACTATGGAT
Found at i:1961491 original size:169 final size:168
Alignment explanation
Indices: 1961297--1961625 Score: 399
Period size: 169 Copynumber: 2.0 Consensus size: 168
1961287 GAGCAAAGGG
* * *
1961297 TTGATAAAAGAAGTCTTTAGGACTGAGCCGACGGGTAGACTATGGATGAAGAAGTCTCTC-GAGT
1 TTGATAAAAGAAGTCTTCAGGACTGAGCCGACGGGCAGACTATGGATGAAGAAGTCTCCCAG-GT
* ** * * * *
1961361 CTTAGCCGACGGGTAGATGATTAATAAAGAAGTCTCTTGAGACTGATCCGACGGGCAAACAATAG
65 CTAAGCCGACGGGTAGATGATTAATAAAGAAGTCTCCCGAGACTGAGCCAACAGGAAAACAATAG
*
1961426 ATAAAGAAGTCTCTCGTGTCTAAGCCGATGGAGAGACGA
130 ATAAAGAAGTCTCTCGGGTCTAAGCCGATGGAGAGACGA
* * ** *
1961465 TTGATAAAGGAAGTCTCTCGGGACTGAGTTGATGGGCAGACTATGGATGAAGAAGTCTCCCAGGT
1 TTGATAAAAGAAGTCT-TCAGGACTGAGCCGACGGGCAGACTATGGATGAAGAAGTCTCCCAGGT
** * * * * * *
1961530 CTAAGTTGACTGGTAGATGATTGATAAAGAAGTCTCCCGGGTCTGAGCTAACAGGAAAACAATAT
65 CTAAGCCGACGGGTAGATGATTAATAAAGAAGTCTCCCGAGACTGAGCCAACAGGAAAACAATAG
* *
1961595 TTAAAGAAGTCTCTCGGGTCTAAGTCGATGG
130 ATAAAGAAGTCTCTCGGGTCTAAGCCGATGG
1961626 GCAGATTTAA
Statistics
Matches: 133, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
168 15 0.11
169 117 0.88
170 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (168 bp):
TTGATAAAAGAAGTCTTCAGGACTGAGCCGACGGGCAGACTATGGATGAAGAAGTCTCCCAGGTC
TAAGCCGACGGGTAGATGATTAATAAAGAAGTCTCCCGAGACTGAGCCAACAGGAAAACAATAGA
TAAAGAAGTCTCTCGGGTCTAAGCCGATGGAGAGACGA
Found at i:1961499 original size:43 final size:41
Alignment explanation
Indices: 1961425--1961573 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 41
1961415 GCAAACAATA
* * **
1961425 GATAAAGAAGTCTCTCGTGTCTAAGCCGATGGAGAGACGATT
1 GATAAAGAAGTCTCCCGGGTCTAAGTTGATGG-GAGACGATT
* * * * *
1961467 GATAAAGGAAGTCTCTCGGGACTGAGTTGATGGGCAGACTATG
1 GATAAA-GAAGTCTCCCGGGTCTAAGTTGATGGG-AGACGATT
* * * *
1961510 GATGAAGAAGTCTCCCAGGTCTAAGTTGACTGGTAGATGATT
1 GATAAAGAAGTCTCCCGGGTCTAAGTTGA-TGGGAGACGATT
1961552 GATAAAGAAGTCTCCCGGGTCT
1 GATAAAGAAGTCTCCCGGGTCT
1961574 GAGCTAACAG
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 51 0.59
43 35 0.41
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (41 bp):
GATAAAGAAGTCTCCCGGGTCTAAGTTGATGGGAGACGATT
Found at i:1961679 original size:43 final size:43
Alignment explanation
Indices: 1961598--1962047 Score: 320
Period size: 43 Copynumber: 10.5 Consensus size: 43
1961588 ACAATATTTA
* * ** * *
1961598 AAGAAGTCTCTC-GGGTCTAAGTCGATGGGCAGATTTAAGGGTG
1 AAGAAGTCTC-CAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* * * *
1961641 AGGAAGTCTCTAGGGTCAAAGCCGACAGGCAAACTTAAGGACG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* ** * ***
1961684 CAGAAGTCTTTAGGGTCAAAGCTGACAAATAGACTTAAGGGCG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
*
1961727 AAGAAGTC-CCTAGGGTCAAAGCTGACAGGCAGACTTAAGGGCG
1 AAGAAGTCTCC-AGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* * * * * * * *
1961770 AAGAAGTCTCCAAGGTCAAAGGCAATAAGCAGA-TTTATGGTG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* * *
1961812 AAAAAGTCTCCAGGGTCAAAACCGACAAGCAGACTTAAGGGCG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* * * *
1961855 AAGAAATCTCCCGGGTCAAAGTCGACA-ACTAGACTTAAGAGG-G
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGC-AGACTTAAG-GGCG
* * * * * * **
1961898 AAGAAGTGTCCAAGGTCAAAGCCAATAGGTAGACTT-ATGGTA
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* * * * *
1961940 AAAAAGTCTCCAAGGTCAAAGCCGACAAGCAAAGTTAAGGGCG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
* ** * * *
1961983 AAGAAGTCTCCAAGGTTGAAG-CTAGCAGGCATACTTAAGGGGG
1 AAGAAGTCTCCAGGGTCAAAGCCGA-CAGGCAGACTTAAGGGCG
**
1962026 AAGAAGTCTTTAGGGTCAAAGC
1 AAGAAGTCTCCAGGGTCAAAGC
1962048 TGACGGGTAG
Statistics
Matches: 312, Mismatches: 84, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
41 2 0.01
42 65 0.21
43 241 0.77
44 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (43 bp):
AAGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTAAGGGCG
Found at i:1961829 original size:171 final size:170
Alignment explanation
Indices: 1961626--1962051 Score: 437
Period size: 171 Copynumber: 2.5 Consensus size: 170
1961616 AAGTCGATGG
* * * *
1961626 GCAGATTTAAGGGTGAGGAAGTCTCTAGGGTCAAAGCCGACAGGCAAACTTAAGGACGCAGAAGT
1 GCAGATTT-AGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAAGGGCGAAGAAGT
* **
1961691 CTTTAGGGTCAAAGCTGACAAATAGACTTAAG-GGCGAAGAAGT-CCCTAGGGTCAAAGCTGACA
65 CTTTAGGGTCAAAGCTGACAAATAGACTTAAGAGG-GAAGAAGTGCCC-AAGGTCAAAGCCAACA
* * * *
1961754 GGCAGACTTAAGGGCGAAGAAGTCTCCAAGGTCAAAGGCAATAA
128 GGCAGACTT-AGGGCAAAAAAGTCTCCAAGGTCAAAGCCAACAA
* * * * * *
1961798 GCAGATTTATGGTGAAAAAGTCTCCAGGGTCAAAACCGACAAGCAGACTTAAGGGCGAAGAAATC
1 GCAGATTTAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAAGGGCGAAGAAGTC
*** * * *
1961863 TCCCGGGTCAAAG-TCGACAACTAGACTTAAGAGGGAAGAAGTGTCCAAGGTCAAAGCCAATAGG
66 TTTAGGGTCAAAGCT-GACAAATAGACTTAAGAGGGAAGAAGTGCCCAAGGTCAAAGCCAACAGG
* * * *
1961927 TAGACTTATGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAA
130 CAGACTTAGGGCAAAAAAGTCTCCAAGGTCAAAGCCAACAA
* * * * ** * * *
1961968 GCAAAGTTAAGGGCGAAGAAGTCTCCAAGGTTGAAG-CTAGCAGGCATACTTAAGGGGGAAGAAG
1 GCAGA-TTTAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGA-CAGGCAAACTTAAGGGCGAAGAAG
1962032 TCTTTAGGGTCAAAGCTGAC
64 TCTTTAGGGTCAAAGCTGAC
1962052 GGGTAGACGA
Statistics
Matches: 204, Mismatches: 44, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
170 34 0.17
171 157 0.77
172 13 0.06
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (170 bp):
GCAGATTTAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAAACTTAAGGGCGAAGAAGTC
TTTAGGGTCAAAGCTGACAAATAGACTTAAGAGGGAAGAAGTGCCCAAGGTCAAAGCCAACAGGC
AGACTTAGGGCAAAAAAGTCTCCAAGGTCAAAGCCAACAA
Found at i:1961871 original size:128 final size:127
Alignment explanation
Indices: 1961695--1962034 Score: 409
Period size: 128 Copynumber: 2.7 Consensus size: 127
1961685 AGAAGTCTTT
* **
1961695 AGGGTCAAAGCTGACAAATAGACTTAAGGGCGAAGAAGTC-CCTAGGGTCAAAGCTGACAGGCAG
1 AGGGTCAAAGCCGACAAGCAGACTTAAGGGCGAAGAAGTCTCC-AGGGTCAAAGCTGACAGGCAG
* * *
1961759 ACTTAAGGGCGAAGAAGTCTCCAAGGTCAAAGGCAATAAGCAGATTTATGGTGAAAAAGTCTCC
65 ACTTAAGGG-GAAGAAGTCTCCAAGGTCAAAGCCAATAAGCAGACTTATGGTAAAAAAGTCTCC
* * * *
1961823 AGGGTCAAAACCGACAAGCAGACTTAAGGGCGAAGAAATCTCCCGGGTCAAAG-TCGACA-ACTA
1 AGGGTCAAAGCCGACAAGCAGACTTAAGGGCGAAGAAGTCTCCAGGGTCAAAGCT-GACAGGC-A
* * *
1961886 GACTTAAGAGGGAAGAAGTGTCCAAGGTCAAAGCCAATAGGTAGACTTATGGTAAAAAAGTCTCC
64 GACTTAAG-GGGAAGAAGTCTCCAAGGTCAAAGCCAATAAGCAGACTTATGGTAAAAAAGTCTCC
* * * * ** *
1961951 AAGGTCAAAGCCGACAAGCAAAGTTAAGGGCGAAGAAGTCTCCAAGGTTGAAGCT-AGCAGGCAT
1 AGGGTCAAAGCCGACAAGCAGACTTAAGGGCGAAGAAGTCTCCAGGGTCAAAGCTGA-CAGGCAG
1962015 ACTTAAGGGGGAAGAAGTCT
65 ACTTAA-GGGGAAGAAGTCT
1962035 TTAGGGTCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
127 3 0.02
128 169 0.94
129 7 0.04
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.16
Consensus pattern (127 bp):
AGGGTCAAAGCCGACAAGCAGACTTAAGGGCGAAGAAGTCTCCAGGGTCAAAGCTGACAGGCAGA
CTTAAGGGGAAGAAGTCTCCAAGGTCAAAGCCAATAAGCAGACTTATGGTAAAAAAGTCTCC
Found at i:1962377 original size:44 final size:43
Alignment explanation
Indices: 1962312--1962475 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 43
1962302 ATGCAAATTG
* * * *
1962312 TTTGACTAGGGTGCTAGCCATATGTCAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAAT-AGAATGAAAAGAA
* * *
1962356 TCTGACCAGGGTGGTAACCATACGTCAGATAGGAATGAAGCAG-A
1 TTTGACCAGGGTGGTAACCATACGTCAAATA-GAATGAA-AAGAA
* * * * * * *
1962400 TTTGACTAGAGTGGTGACCATACATTAAATTGAAATAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAG-AATGAAAAGAA
*
1962444 TTTGACCAGGGTGGTAACCATACATCAAATAG
1 TTTGACCAGGGTGGTAACCATACGTCAAATAG
1962476 GAAAGAGGAT
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 4 0.04
44 88 0.94
45 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATAGAATGAAAAGAA
Found at i:1962492 original size:44 final size:43
Alignment explanation
Indices: 1962358--1962585 Score: 149
Period size: 44 Copynumber: 5.1 Consensus size: 43
1962348 GAAAAGAATC
* * * *
1962358 TGACCAGGGTGGTAACCATACGTCAGATAGGAATGA-AGCAGATT
1 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGA-TAG-TT
* * * * * * * *
1962402 TGACTAGAGTGGTGACCATACATTAAAT-TGAAATAAAAAGAATT
1 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGATAG--TT
1962446 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTT
1 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGA-GATAGTT
* *** * *
1962490 TGACTA-GGCCCTAACCCCAATACAGTCAAACGAGGGATAAGA-AGAGTT
1 TGACCAGGGTGGTAA--CC-ATACA-TCAAA-TA-GGA-AAGAGATAGTT
1962538 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTT
1 TGACCAGGGTGGTAACCATACATCAAATAGGAAAGA-GATAGTT
1962582 TGAC
1 TGAC
1962586 TAGGCCCTAA
Statistics
Matches: 140, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
42 4 0.03
43 14 0.10
44 67 0.48
45 12 0.09
46 13 0.09
47 7 0.05
48 11 0.08
49 8 0.06
50 4 0.03
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (43 bp):
TGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGATAGTT
Found at i:1962492 original size:88 final size:90
Alignment explanation
Indices: 1962335--1962637 Score: 321
Period size: 92 Copynumber: 3.3 Consensus size: 90
1962325 CTAGCCATAT
* * * * * * *
1962335 GTCAAATC-AGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGATAGGAATGAAG-CA
1 GTCAAA-CGAGAATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATA
*** *
1962398 GATTTGACTAGAGTGGTGA-CC-ATACA
65 G-TTTGACTAG-GCCCTAACCCAATACA
* *
1962424 -TTAAATTGA-AATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATA
1 GTCAAA-CGAGAATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATA
1962487 GTTTGACTAGGCCCTAACCCCAATACA
65 GTTTGACTAGGCCCTAA-CCCAATACA
* * *
1962514 GTCAAACGAGGGATAAGAAGAGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATA
1 GTCAAACGA-GAATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATA
1962579 GTTTGACTAGGCCCTAACCCCAATACA
65 GTTTGACTAGGCCCTAA-CCCAATACA
* * *
1962606 GTCAAACGAGGGATAAGAAGAGTTTGACCAGG
1 GTCAAACGA-GAATAAAAAGAATTTGACCAGG
1962638 CTTTAAGACT
Statistics
Matches: 188, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
87 3 0.02
88 59 0.31
89 5 0.03
90 7 0.04
91 4 0.02
92 110 0.59
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (90 bp):
GTCAAACGAGAATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAG
TTTGACTAGGCCCTAACCCAATACA
Found at i:1962538 original size:48 final size:48
Alignment explanation
Indices: 1962486--1962638 Score: 167
Period size: 48 Copynumber: 3.3 Consensus size: 48
1962476 GAAAGAGGAT
*
1962486 AGTTTGACTAGGCCCTAACCCCAATACAGTCAAACGAGGGATAAGAAG
1 AGTTTGACCAGGCCCTAACCCCAATACAGTCAAACGAGGGATAAGAAG
*** * *
1962534 AGTTTGACCAGGGTGGTAA--CC-ATACA-TCAAA-TA-GGA-AAGAGGAT
1 AGTTTGACCA-GGCCCTAACCCCAATACAGTCAAACGAGGGATAAGA--AG
*
1962578 AGTTTGACTAGGCCCTAACCCCAATACAGTCAAACGAGGGATAAGAAG
1 AGTTTGACCAGGCCCTAACCCCAATACAGTCAAACGAGGGATAAGAAG
1962626 AGTTTGACCAGGC
1 AGTTTGACCAGGC
1962639 TTTAAGACTA
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
42 4 0.05
43 8 0.10
44 11 0.13
45 7 0.09
46 10 0.12
47 7 0.09
48 23 0.28
49 8 0.10
50 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (48 bp):
AGTTTGACCAGGCCCTAACCCCAATACAGTCAAACGAGGGATAAGAAG
Found at i:1962554 original size:92 final size:92
Alignment explanation
Indices: 1962434--1962637 Score: 390
Period size: 92 Copynumber: 2.2 Consensus size: 92
1962424 TTAAATTGAA
* *
1962434 ATAAAAAGAATTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGC
1 ATAAGAAGAGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGC
1962499 CCTAACCCCAATACAGTCAAACGAGGG
66 CCTAACCCCAATACAGTCAAACGAGGG
1962526 ATAAGAAGAGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGC
1 ATAAGAAGAGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGC
1962591 CCTAACCCCAATACAGTCAAACGAGGG
66 CCTAACCCCAATACAGTCAAACGAGGG
1962618 ATAAGAAGAGTTTGACCAGG
1 ATAAGAAGAGTTTGACCAGG
1962638 CTTTAAGACT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 110 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (92 bp):
ATAAGAAGAGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGC
CCTAACCCCAATACAGTCAAACGAGGG
Found at i:1962597 original size:43 final size:43
Alignment explanation
Indices: 1962458--1962597 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 43
1962448 ACCAGGGTGG
1962458 TAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGCCC
1 TAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGCCC
* * * ***
1962501 TAACCCCAATACAGTCAAACGAGGGATAAGA--AGAGTTTGACCAGGGTGG
1 TAA--CC-ATACA-TCAAA-TA-GGA-AAGAGGATAGTTTGACTA-GGCCC
1962550 TAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGCCC
1 TAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGCCC
1962593 TAACC
1 TAACC
1962598 CCAATACAGT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
42 4 0.05
43 13 0.17
44 11 0.15
45 7 0.09
46 10 0.13
47 7 0.09
48 11 0.15
49 8 0.11
50 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (43 bp):
TAACCATACATCAAATAGGAAAGAGGATAGTTTGACTAGGCCC
Found at i:1962605 original size:46 final size:47
Alignment explanation
Indices: 1962463--1962611 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 47
1962453 GGTGGTAACC
1962463 ATACA-TCAAATAGGAAAGAGGATAGTTTGACTAGGCCCTAACCCCA
1 ATACAGTCAAATAGGAAAGAGGATAGTTTGACTAGGCCCTAACCCCA
* * * ***
1962509 ATACAGTCAAACGAGGGATAAGA--AGAGTTTGACCAGGGTGGTAA--CC-
1 ATACAGTCAAA-TA-GGA-AAGAGGATAGTTTGACTA-GGCCCTAACCCCA
1962555 ATACA-TCAAATAGGAAAGAGGATAGTTTGACTAGGCCCTAACCCCA
1 ATACAGTCAAATAGGAAAGAGGATAGTTTGACTAGGCCCTAACCCCA
1962601 ATACAGTCAAA
1 ATACAGTCAAA
1962612 CGAGGGATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
42 4 0.05
43 8 0.10
44 11 0.14
45 7 0.09
46 15 0.19
47 12 0.15
48 11 0.14
49 8 0.10
50 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (47 bp):
ATACAGTCAAATAGGAAAGAGGATAGTTTGACTAGGCCCTAACCCCA
Found at i:1962774 original size:35 final size:34
Alignment explanation
Indices: 1962710--1962785 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
1962700 AAATGAAAAG
* *
1962710 AGTTTGACCGGATACAATCAAATAGTGATGGGAAA
1 AGTTTGACCAGATACAATCAAAGAGTGAT-GGAAA
*
1962745 AGTTTGACCAGATACAGTCAAACGA-TGATGGAAA
1 AGTTTGACCAGATACAATCAAA-GAGTGATGGAAA
*
1962779 AATTTGA
1 AGTTTGA
1962786 TCGAATAGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 11 0.31
35 24 0.67
36 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (34 bp):
AGTTTGACCAGATACAATCAAAGAGTGATGGAAA
Found at i:1963838 original size:20 final size:20
Alignment explanation
Indices: 1963813--1963878 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1963803 TTTCAACAAT
1963813 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1963833 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
1963847 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
*
1963866 TTGTGTCGATACA
1 TTGTATCGATACA
1963879 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:1963852 original size:13 final size:13
Alignment explanation
Indices: 1963834--1963858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1963824 CATAAAGTGT
1963834 TGTATCGATACAA
1 TGTATCGATACAA
1963847 TGTATCGATACA
1 TGTATCGATACA
1963859 TAAAGTGTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1963852 original size:33 final size:33
Alignment explanation
Indices: 1963814--1963913 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
1963804 TTCAACAATT
1963814 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
1963847 TGTATCGATACATAAAGTGTTGTGTCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1963880 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1963913 T
1 T
1963914 TTAAGCTACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1963974 original size:13 final size:13
Alignment explanation
Indices: 1963956--1963980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1963946 ATTACTCAAA
1963956 TGTATCGATACAT
1 TGTATCGATACAT
1963969 TGTATCGATACA
1 TGTATCGATACA
1963981 CTGATGTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1964118 original size:52 final size:52
Alignment explanation
Indices: 1963989--1964119 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
1963979 CACTGATGTT
* * *
1963989 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATTGATACATTTTATAA
1 TGTATCGATACATGTAGGCAAATTTTCCCAGATGTATCGATACATATTATAA
1964041 TGTATCGATACATGTAGGCAAATTTTCCCAGATGTATCGATACACTATTA-AA
1 TGTATCGATACATGTAGGCAAATTTTCCCAGATGTATCGATACA-TATTATAA
* *
1964093 TGTATCGATACATGCAGGTAAATTTTC
1 TGTATCGATACATGTAGGCAAATTTTC
1964120 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 69 0.95
53 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (52 bp):
TGTATCGATACATGTAGGCAAATTTTCCCAGATGTATCGATACATATTATAA
Found at i:1971010 original size:17 final size:17
Alignment explanation
Indices: 1970988--1971036 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
1970978 AAGTGATGAA
1970988 AAAAAAACAAACAAAAC
1 AAAAAAACAAACAAAAC
*
1971005 AAAAAAAAAAACAAAAC
1 AAAAAAACAAACAAAAC
1971022 AAAAAAACAAA-AAAA
1 AAAAAAACAAACAAAA
1971037 AAACACACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAACAAAAC
Found at i:1971053 original size:25 final size:25
Alignment explanation
Indices: 1970986--1971039 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1970976 AAAAGTGATG
1970986 AAAAA-AAAACAAACAAAACAAAAAA
1 AAAAACAAAACAAA-AAAACAAAAAA
1971011 AAAAACAAAACAAAAAAACAAAAAA
1 AAAAACAAAACAAAAAAACAAAAAA
1971036 AAAA
1 AAAA
1971040 CACACACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAACAAAACAAAAAAACAAAAAA
Found at i:1971054 original size:1 final size:1
Alignment explanation
Indices: 1970986--1971039 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
1970976 AAAAGTGATG
* * * * * *
1970986 AAAAAAAAACAAACAAAACAAAAAAAAAAACAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1971040 CACACACAGA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1971443 original size:16 final size:15
Alignment explanation
Indices: 1971379--1971435 Score: 96
Period size: 15 Copynumber: 3.7 Consensus size: 15
1971369 TAATCTTCAC
1971379 AAAAAAAGAAACAAA
1 AAAAAAAGAAACAAA
1971394 AAAAAACAGAAACAAA
1 AAAAAA-AGAAACAAA
*
1971410 AAAAAAACAAACAAA
1 AAAAAAAGAAACAAA
1971425 AAAAAAAGAAA
1 AAAAAAAGAAA
1971436 AGGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 24 0.62
16 15 0.38
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAACAAA
Found at i:1972428 original size:32 final size:32
Alignment explanation
Indices: 1972387--1972573 Score: 226
Period size: 32 Copynumber: 6.0 Consensus size: 32
1972377 CAAATACCTT
1972387 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
1972419 TTTAAAGTCCACAACTTAGTGGCAT--TTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTT-TC
1972450 -TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
*
1972481 TTTAAAGTCCACGACTCAGTGGCAT--TTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTT-TC
**
1972512 -TCAAAGTCCACGACTCAGTGGCATTTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
* * *
1972543 TTCAAAGCCCACAACTCCGTGGCA-CCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
1972574 CTTTTTAAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
30 50 0.37
31 13 0.10
32 71 0.53
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (32 bp):
TTCAAAGTCCACGACTCAGTGGCATCCTTTTC
Found at i:1972485 original size:62 final size:62
Alignment explanation
Indices: 1972388--1972566 Score: 295
Period size: 62 Copynumber: 2.9 Consensus size: 62
1972378 AAATACCTTT
*
1972388 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACAACTTAGTGGCATTTTGTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACAACTCAGTGGCATTTTGTC
*
1972450 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCATTTTGTC
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACAACTCAGTGGCATTTTGTC
** * * *
1972512 TCAAAGTCCACGACTCAGTGGCATTTTTTTCTTCAAAGCCCACAACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACAACTCAGTGGCA
1972567 CCTTTTCCTT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 109 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACAACTCAGTGGCATTTTGTC
Found at i:1972614 original size:31 final size:31
Alignment explanation
Indices: 1972546--1972762 Score: 211
Period size: 31 Copynumber: 6.7 Consensus size: 31
1972536 TTTTTTCTTC
1972546 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACC--TTCC-TTTT
* *
1972580 AAAGCCCATAACTCCATGGCACCTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTT
* * * *
1972611 AAAGCCCACAACTCCATCGCACCCTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTT
* * *
1972642 AAAGTCCGCGACTCCGTGGCACCTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTT
1972672 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-C---TT-CCTTTT
*
1972709 AAAGCCCACAACTCCGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC-T-TCCTTTT
* * *
1972742 TAAGTCCACAACTTCGTGGCA
1 AAAGCCCACAACTCCGTGGCA
1972763 TCTTTCACCC
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
30 4 0.03
31 69 0.45
32 5 0.03
33 25 0.16
34 22 0.14
35 3 0.02
36 22 0.14
37 5 0.03
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (31 bp):
AAAGCCCACAACTCCGTGGCACCTTCCTTTT
Found at i:1972677 original size:62 final size:64
Alignment explanation
Indices: 1972512--1972733 Score: 191
Period size: 62 Copynumber: 3.4 Consensus size: 64
1972502 GCATTTTGTC
* ** * * * *
1972512 TCAAAGTCCACGACTCAGTGGCATTTTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTT
1 TCAAAGTCCACGACTCCGTGGCACCTTCTT-TTCAAAGCCCACAACTCCATCGCACC-TCTCCTT
1972577 T
64 T
* * ** *
1972578 TTAAAGCCCATAACTCCATGGCACCTTCCTTTT-AAAGCCCACAACTCCATCGCACC-CTCC-TT
1 TCAAAGTCCACGACTCCGTGGCACCTT-CTTTTCAAAGCCCACAACTCCATCGCACCTCTCCTTT
* * * *
1972640 TCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATCGCAC-C--TCT-CC
1972705 TTT
62 TTT
* *
1972708 T-AAAGCCCACAACTCCGTGGCACCTT
1 TCAAAGTCCACGACTCCGTGGCACCTT
1972734 GTTCTTTTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
61 5 0.04
62 43 0.35
63 4 0.03
65 21 0.17
66 22 0.18
67 26 0.21
68 3 0.02
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (64 bp):
TCAAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCATCGCACCTCTCCTTT
Found at i:1972786 original size:69 final size:67
Alignment explanation
Indices: 1972543--1972787 Score: 204
Period size: 62 Copynumber: 3.7 Consensus size: 67
1972533 CATTTTTTTC
* * * * *
1972543 TTCAAAGCCCACAACTCCGTGGCAC-CTTT-TCCTTTTTAAAGCCCATAACTCCATGGCACCTTC
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTCTAAAGCCCACAACTCCGTGGCACCTT-
1972606 CTT
65 CTT
* * * * * * *
1972609 TT-AAAGCCCACAACTCCATCGCAC-C---CTCCTTTC-AAAGTCCGCGACTCCGTGGCACCTTC
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTCTAAAGCCCACAACTCCGTGGCACCTTC
1972668 TT
66 TT
** *
1972670 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTG
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTCTAAAGCCCACAACTCCGTGGCACC---
1972735 TTCTT
63 TTCTT
* * * *
1972740 TT-TAAGTCCACAACTTCGTGGCA-TCTTTCACCCTCTCTAAATCCCACA
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTCACCCT-TCTAAAGCCCACA
1972788 CAAGTTGGTG
Statistics
Matches: 145, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
61 5 0.03
62 40 0.28
63 7 0.05
65 21 0.14
66 7 0.05
67 20 0.14
68 9 0.06
69 29 0.20
70 7 0.05
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.29
Consensus pattern (67 bp):
TTCAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTCTAAAGCCCACAACTCCGTGGCACCTTC
TT
Found at i:1972810 original size:33 final size:33
Alignment explanation
Indices: 1972773--1972841 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1972763 TCTTTCACCC
* *
1972773 TCTCTAAATCCCACACAAGTTGGTGGCAACCAT
1 TCTCTAAAGCCCACACAAGTCGGTGGCAACCAT
*
1972806 TCTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTCTAAAGCCCACACAAGTCGGTGGCAACCAT
1972839 TCT
1 TCT
1972842 AAGCCCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (33 bp):
TCTCTAAAGCCCACACAAGTCGGTGGCAACCAT
Found at i:1972848 original size:30 final size:33
Alignment explanation
Indices: 1972772--1972848 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
1972762 ATCTTTCACC
* *
1972772 CTCTCTAAATCCCACACAAGTTGGTGGCAACCA
1 CTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
*
1972805 TTCTCTAAAGCCCACACAAGTCGGTGGCAACC-
1 CTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
1972837 CT-TCT-AAGCCCA
1 CTCTCTAAAGCCCA
1972849 ATATAGCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.17
31 3 0.08
32 1 0.03
33 29 0.73
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.21
Consensus pattern (33 bp):
CTCTCTAAAGCCCACACAAGTCGGTGGCAACCA
Found at i:1972952 original size:43 final size:43
Alignment explanation
Indices: 1972839--1973342 Score: 531
Period size: 43 Copynumber: 11.0 Consensus size: 43
1972829 TGGCAACCCT
*
1972839 TCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C
* * * *
1972885 ATCTTTAAGTCCAATGTAGTTGGCCTTGAACCAGCACATTGGCACC
1 -TC--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1972931 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C
*
1972977 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
1 -TC--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1973023 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1973066 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC
1 ----TC--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
1973115 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * * *
1973158 TTTATCTTTAAGTCTAATGTAGTTGGCCTTGAATCAGCACATTGGCACC
1 ----TC--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1973207 TTTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C
* *
1973253 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 -TC--TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1973299 TTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTAGCACC
1 TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1973342 T
1 T
1973343 TTTCCATCTT
Statistics
Matches: 389, Mismatches: 42, Indels: 56
0.80 0.09 0.11
Matches are distributed among these distances:
43 183 0.47
44 2 0.01
45 7 0.02
46 5 0.01
47 8 0.02
48 3 0.01
49 181 0.47
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
TCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:1973003 original size:92 final size:92
Alignment explanation
Indices: 1972836--1973388 Score: 881
Period size: 92 Copynumber: 6.0 Consensus size: 92
1972826 CGGTGGCAAC
*
1972836 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
1972901 TAGTTGGCCTTGAACCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
** * *
1972929 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1972994 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
** * *
1973021 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
1973086 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
1973113 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
1973178 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1973205 CCTTTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1973270 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1973297 CCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
1973362 TGTAGCTGGCCTTGAATCAGCACATTG
63 TGTAGCTGGCCTTGAATCAGCACATTG
1973389 ACATTTTTTT
Statistics
Matches: 429, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
92 384 0.90
93 3 0.01
94 2 0.00
95 40 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1973116 original size:21 final size:21
Alignment explanation
Indices: 1973092--1973159 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1973082 ATGTAGCTGG
1973092 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* ** *
1973113 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAGCATA-TTGGCA
1973135 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1973156 CCTT
1 CCTT
1973160 TATCTTTAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.32
22 7 0.21
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1973138 original size:22 final size:22
Alignment explanation
Indices: 1973071--1973138 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1973061 GCACCTTTAT
*
1973071 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* ** *
1973093 CTTGAA-T-CAGCATA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
1973114 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1973136 CTT
1 CTT
1973139 GAATCAGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 10 0.31
23 5 0.16
24 3 0.09
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1973150 original size:22 final size:22
Alignment explanation
Indices: 1973085--1973150 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
1973075 AAGTCCAATG
1973085 TAGCTGGCCTTGAATCAGCATA
1 TAGCTGGCCTTGAATCAGCATA
*
1973107 T---TGGCACCTTTAAGTC--CAATA
1 TAGCTGG--CCTTGAA-TCAGC-ATA
1973128 TAGCTGGCCTTGAATCAGCATA
1 TAGCTGGCCTTGAATCAGCATA
1973150 T
1 T
1973151 TGGCACCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 12 0.36
22 13 0.39
23 1 0.03
24 3 0.09
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
TAGCTGGCCTTGAATCAGCATA
Found at i:1973362 original size:52 final size:54
Alignment explanation
Indices: 1973298--1973442 Score: 170
Period size: 52 Copynumber: 2.7 Consensus size: 54
1973288 ACATTGGCAC
1973298 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATT-AGCA-CCTTTTC-CAT
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGA-CATCCTTTTCTCAT
* * **
1973350 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATTTTTTTCTCAT
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTCTCAT
** * * * *
1973404 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTG
1 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTG
1973443 GCAATTTTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 38 0.49
53 6 0.08
54 34 0.44
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (54 bp):
CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTCTCAT
Found at i:1973543 original size:266 final size:267
Alignment explanation
Indices: 1973203--1973768 Score: 1035
Period size: 266 Copynumber: 2.1 Consensus size: 267
1973193 AGCACATTGG
* *
1973203 CACCTTTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCATCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTATTTAAGTCCAAT
1973268 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCAT
1973333 ATTAGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACAT-TTTT
131 ATTAGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTT
1973397 TTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAATTTTATCACTCTTCA
196 TTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAATTTTATCACTCTTCA
1973462 TCCTCAT
261 TCCTCAT
1973469 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTATTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTATTTAAGTCCAAT
*
1973534 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTTCAATATAGTTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCAT
* *
1973599 ATTGGCATCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTT
131 ATTAGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTT
1973664 TTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAATTTTATCACTCTTCA
196 TTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAATTTTATCACTCTTCA
1973729 TCCTCAT
261 TCCTCAT
* * * * *
1973736 CATCTTTAAGTCCAGTGTTGCAGGCCTTGAATC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATC
1973769 TGCACAGTGG
Statistics
Matches: 289, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
266 185 0.64
267 104 0.36
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (267 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTATTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCAT
ATTAGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTT
TTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCAATTTTATCACTCTTCA
TCCTCAT
Found at i:1973545 original size:49 final size:49
Alignment explanation
Indices: 1973473--1973661 Score: 221
Period size: 52 Copynumber: 3.9 Consensus size: 49
1973463 CCTCATCACC
*
1973473 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCTTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCTTA
*
1973522 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C---
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCTTA
* * *
1973565 TTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTT-TTCCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCTT--A
* * *
1973615 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTT
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTT
1973662 TTTTCTCATC
Statistics
Matches: 120, Mismatches: 10, Indels: 17
0.82 0.07 0.12
Matches are distributed among these distances:
43 37 0.31
44 1 0.01
46 1 0.01
48 1 0.01
49 39 0.32
52 41 0.34
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCTTA
Found at i:1973586 original size:43 final size:43
Alignment explanation
Indices: 1973522--1973610 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
1973512 CATCTTCTTA
* *
1973522 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
1973565 TTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1973608 TTT
1 TTT
1973611 TCCATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:1973642 original size:52 final size:54
Alignment explanation
Indices: 1973564--1973712 Score: 194
Period size: 52 Copynumber: 2.8 Consensus size: 54
1973554 ACATTGGCAC
1973564 CTTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATC-TTTTC-CAT
1 CTTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
* * * *
1973616 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATC-TTTTTCTCAT
** * * *
1973671 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 CTTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCA
1973713 ATTTTATCAC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
52 40 0.49
54 5 0.06
55 36 0.44
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (54 bp):
CTTTAAGTTCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTTCTCAT
Found at i:1974381 original size:13 final size:13
Alignment explanation
Indices: 1974363--1974388 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1974353 ATTACTCAAA
1974363 TGTATCGATACAT
1 TGTATCGATACAT
1974376 TGTATCGATACAT
1 TGTATCGATACAT
1974389 GCAGGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1974454 original size:52 final size:52
Alignment explanation
Indices: 1974376--1974504 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1974366 ATCGATACAT
* *
1974376 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1974428 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1974480 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1974505 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1983366 original size:51 final size:52
Alignment explanation
Indices: 1983264--1983384 Score: 174
Period size: 51 Copynumber: 2.3 Consensus size: 52
1983254 GAGATAACAA
* *
1983264 CGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTGTTCTAGAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTCTAGAAAATAAAAT
* *
1983316 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAG-AAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATGTTCTAGAAAATAAAAT
*
1983367 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
1983385 TCGGAAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 32 0.51
52 31 0.49
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTCTAGAAAATAAAAT
Found at i:1983450 original size:79 final size:79
Alignment explanation
Indices: 1983316--1983700 Score: 626
Period size: 79 Copynumber: 4.9 Consensus size: 79
1983306 AAAATAAAAT
* *
1983316 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1983381 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
1983395 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1983460 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
* * * *
1983474 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1983539 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* * * *
1983553 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1983618 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
1983632 CGGGGTTGGATTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1983697 CCCC
66 CCCC
1983701 GATTAAAGGA
Statistics
Matches: 279, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 279 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:1983792 original size:52 final size:50
Alignment explanation
Indices: 1983632--1983855 Score: 250
Period size: 51 Copynumber: 4.4 Consensus size: 50
1983622 TCGGAAATAA
* * * * * *
1983632 CGGGGTTGGATTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAAG-GAAATTGGTGTTTTAAAAATAAAAC
* *
1983683 CGAGGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-AAGGAAATTGGTGTTTTAAAAATAAAAC
* *
1983734 CGGGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATT-AAGGAAA-TTGGTGTTTT-AAAAATAAAAC
* * * * * *
1983787 CGGGTTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAAC
1 CGGGGTTGGAGTATCCCCGATTAAGGAAA-TTGGTGTTTTAAAAATAAAAC
1983838 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1983856 TCAGAGATAA
Statistics
Matches: 149, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
51 92 0.62
52 27 0.18
53 30 0.20
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTAAGGAAATTGGTGTTTTAAAAATAAAAC
Found at i:1983802 original size:104 final size:102
Alignment explanation
Indices: 1983632--1983855 Score: 283
Period size: 104 Copynumber: 2.2 Consensus size: 102
1983622 TCGGAAATAA
* * * *
1983632 CGGGGTTGGATTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAAAAATAAAATCGAGGTTAGAGTAT
*
1983697 CCCCGATTAAAGGAAA-TTGGTGTTTT-GAAAATAAAAC
66 CCCCGATT-AAGGAAAGTTAGTGTTTTAG-AAATAAAAC
* * * *
1983734 CGGGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAATCG-GGTTTAGAG
1 CGGGGTTGGAGTATCCCCGATT-AAGAAAAATTGATGTTTT-AAAAATAAAATCGAGG-TTAGAG
* *
1983798 TATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAAC
63 TATCCCCGATTAAGGAAAGTTAGTGTTTTAGAAATAAAAC
1983838 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1983856 TCAGAGATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
102 20 0.19
103 22 0.21
104 62 0.59
105 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (102 bp):
CGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAAAAATAAAATCGAGGTTAGAGTAT
CCCCGATTAAGGAAAGTTAGTGTTTTAGAAATAAAAC
Found at i:1983969 original size:233 final size:234
Alignment explanation
Indices: 1983561--1983989 Score: 668
Period size: 233 Copynumber: 1.8 Consensus size: 234
1983551 AACGGGGTTG
* *
1983561 GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGATTGGAGTATCCCCTCGG
1 GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGATTGGAGTATCCCCTCAG
* *
1983626 AAATAACGGGGTTGGATTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTG
66 AAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTG
1983691 GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATT
131 GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATT
1983756 AAAGGAAATTTGGTGTTTTGAAAAATAAAATCGGGTTTA
196 AAAGGAAATTTGGTGTTTTGAAAAATAAAATCGGGTTTA
* * * * * *
1983795 GAGTATCCCCGATTATGGAAAGTT-AGTGTTTTAGAAATGAAACCGGGGTTGGAGTATCCCCTCA
1 GAGTATCCCCAATTATGAAAAATTGA-TGTTTTAGAAATAAAACCAGGATTGGAGTATCCCCTCA
* * * * *
1983859 GAGATAACGAGGTTGGAGTATCCTCGA-T-TGGAAAATTGGTGTTTTTGGAAATAAAATCG-GAG
65 GAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAAAATCGAG-G
1983921 TTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCG
128 TTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCG
1983986 ATTA
193 ATTA
1983990 TGAGCAATTG
Statistics
Matches: 177, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
232 12 0.07
233 88 0.50
234 77 0.44
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (234 bp):
GAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGATTGGAGTATCCCCTCAG
AAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTG
GAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATT
AAAGGAAATTTGGTGTTTTGAAAAATAAAATCGGGTTTA
Found at i:1983999 original size:51 final size:52
Alignment explanation
Indices: 1983891--1983989 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
1983881 CTCGATTGGA
* * *
1983891 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
*
1983943 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTAGAGTATCCCCGATTA
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTA
1983990 TGAGCAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (52 bp):
AAATTGGTGTTTTTGAAAATAAAACCGGAGTTAGAGTATCCCCGATTAAAGG
Found at i:1984996 original size:43 final size:43
Alignment explanation
Indices: 1984937--1985038 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
1984927 TCTCGCTGGA
* *
1984937 GCTGCTATTGCATGCTGGAGCCGCAGTCACTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCCGCAGTCACTGCTGGAGTTGCT
* * *
1984980 GCTGTTGTTGCGTGCTGGAGCTGCAGTCATTGCTGGAGTTGCT
1 GCTGCTGTTGCGTGCTGGAGCCGCAGTCACTGCTGGAGTTGCT
1985023 GCTGCTGTTGCGTGCT
1 GCTGCTGTTGCGTGCT
1985039 AGAACTGTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.10, C:0.23, G:0.35, T:0.32
Consensus pattern (43 bp):
GCTGCTGTTGCGTGCTGGAGCCGCAGTCACTGCTGGAGTTGCT
Found at i:1985058 original size:43 final size:43
Alignment explanation
Indices: 1984959--1985069 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 43
1984949 TGCTGGAGCC
* * * * *
1984959 GCAGTCACTGCTGGAGTTGCTGCTGTTGTTGCGTGCTGGAGCT
1 GCAGCCACCGCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACT
* **
1985002 GCAGTCATTGCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACT
1 GCAGCCACCGCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACT
** * * *
1985045 GTTGCCGCCGCTGGAGCTGGTGCTG
1 GCAGCCACCGCTGGAGTTGCTGCTG
1985070 TTGCTGGAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.10, C:0.23, G:0.37, T:0.31
Consensus pattern (43 bp):
GCAGCCACCGCTGGAGTTGCTGCTGCTGTTGCGTGCTAGAACT
Found at i:1985422 original size:50 final size:50
Alignment explanation
Indices: 1985368--1985470 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
1985358 TCCATTCTCT
* *
1985368 TGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGCTTTCCCA
1 TGCATGCCTCTACATGTTTTGCCTCCAATTGCAATTTTTATGCTTTCCCA
*
1985418 TGCATGCCTCTATATGTTTTGCCTCCAATTGCAATTTTTATGCTTTCCCA
1 TGCATGCCTCTACATGTTTTGCCTCCAATTGCAATTTTTATGCTTTCCCA
1985468 TGC
1 TGC
1985471 TGCATTTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.44
Consensus pattern (50 bp):
TGCATGCCTCTACATGTTTTGCCTCCAATTGCAATTTTTATGCTTTCCCA
Found at i:1985551 original size:26 final size:26
Alignment explanation
Indices: 1985460--1985550 Score: 164
Period size: 26 Copynumber: 3.5 Consensus size: 26
1985450 AATTTTTATG
1985460 CTTTCCCATGCTGCATTTTCTATTTC
1 CTTTCCCATGCTGCATTTTCTATTTC
*
1985486 CTTTCCCAGGCTGCATTTTCTATTTC
1 CTTTCCCATGCTGCATTTTCTATTTC
*
1985512 CTTTCCCATGCTGTATTTTCTATTTC
1 CTTTCCCATGCTGCATTTTCTATTTC
1985538 CTTTCCCATGCTG
1 CTTTCCCATGCTG
1985551 TTCGTGTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.11, C:0.31, G:0.10, T:0.48
Consensus pattern (26 bp):
CTTTCCCATGCTGCATTTTCTATTTC
Found at i:1985671 original size:7 final size:7
Alignment explanation
Indices: 1985656--1985691 Score: 51
Period size: 6 Copynumber: 5.6 Consensus size: 7
1985646 TATTATAATT
1985656 TTTTG-A
1 TTTTGAA
1985662 TTTTGAA
1 TTTTGAA
1985669 -TTTGAA
1 TTTTGAA
1985675 -TTTGAA
1 TTTTGAA
1985681 TTTTGAA
1 TTTTGAA
1985688 TTTT
1 TTTT
1985692 TACTTATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.61
7 11 0.39
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (7 bp):
TTTTGAA
Found at i:1985827 original size:52 final size:52
Alignment explanation
Indices: 1985766--1985865 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
1985756 GGTGTCTACA
* **
1985766 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGTATGTATAGATACATTTC
1 ATAGTGTATCAATACATCTGGGCAAATTTGCCTACATGTATAGATACATTTC
* *
1985818 ATAGTGTATCAATACATTTGGGCAAATTTGCCTACATGTATCGATACA
1 ATAGTGTATCAATACATCTGGGCAAATTTGCCTACATGTATAGATACA
1985866 AAGATCAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
ATAGTGTATCAATACATCTGGGCAAATTTGCCTACATGTATAGATACATTTC
Found at i:1985876 original size:52 final size:52
Alignment explanation
Indices: 1985766--1985885 Score: 152
Period size: 52 Copynumber: 2.3 Consensus size: 52
1985756 GGTGTCTACA
** **
1985766 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGTATGTATAGATACATTTC
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATAGATACATAAC
* * * *
1985818 ATAGTGTATCAATACATTTGGGCAAATTTGCCTACATGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATAGATACATAAC
1985869 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
1985886 ATGTATCGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 2 0.03
52 56 0.97
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCTACATGTATAGATACATAAC
Found at i:1985892 original size:13 final size:13
Alignment explanation
Indices: 1985874--1985898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1985864 CAAAGATCAG
1985874 TGTATCGATACAA
1 TGTATCGATACAA
1985887 TGTATCGATACA
1 TGTATCGATACA
1985899 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1986620 original size:49 final size:49
Alignment explanation
Indices: 1986561--1987303 Score: 893
Period size: 49 Copynumber: 15.6 Consensus size: 49
1986551 CCATTGTGCA
* * * *
1986561 GATTCAAGGCCTGCCACACTGGACTTAAAGATAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * * *
1986610 AATTCAAGGCCAGCTATATTGGACTTAAAGGT-GAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
1986658 GATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * * *
1986707 GATTCAAGGCCAGCTATATTGGACTTAAAGGT-GAGGTGCCAATGTGTT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
1986755 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * * *
1986804 AATTCAAGGCCAGCTATATTGGACTTAAAGGT-GAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
1986852 GAGTCAAGGCCTAG-TGATATTAGACTTAAAGATGAAGGTGCCAATATGCT
1 GATTCAAGGCC-AGCT-ATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * * * *
1986902 GATTTAAGGCCAACTATATTGGACTTAAAGGT-GAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
1986950 GAGTCAAGGCCAGCTACATTGGACTTAAAGGTAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
1986999 GATTCAAGGCCAGCTATATTGGAC-T-----TCAAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
1987042 GATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
1987091 GATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * **
1987134 GATTCAAGGCCAGCAACATTGGTTTTAAAGATAAAGGTGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
1987183 GATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
1987226 GATTCAAGGACAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCT
1 GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
1987275 GATTCAAGGCCAGCGATATTGGACTTAAA
1 GATTCAAGGCCAGCTATATTGGACTTAAA
1987304 AGAAGATGCC
Statistics
Matches: 590, Mismatches: 79, Indels: 50
0.82 0.11 0.07
Matches are distributed among these distances:
43 113 0.19
44 3 0.01
48 154 0.26
49 296 0.50
50 24 0.04
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
GATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCT
Found at i:1986714 original size:97 final size:97
Alignment explanation
Indices: 1986548--1987303 Score: 1139
Period size: 92 Copynumber: 7.9 Consensus size: 97
1986538 GTTTTGCAAT
* * * * * *
1986548 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATAAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1986613 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* *
1986645 GTGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1986710 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* *
1986742 GTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1986807 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* * * *
1986839 GTGCCAATGTGCTGAGTCAAGGCCTAG-TGATATTAGACTTAAAGATGAAGGTGCCAATATGCTG
1 GTGCCAATGTGCTGATTCAAGGCC-AGCT-ACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
* *
1986903 ATTTAAGGCCAACTATATTGGACTTAAAGGTGAG
64 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* *
1986937 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
*
1987002 TCAAGGCCAGCTATATTGGACTT-CA----AG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* *
1987029 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1987094 TCAAGGCCAGCTATATTGGACTT-AA----AG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* **
1987121 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1987186 TCAAGGCCAGCTATATTGGACTT-AA----AG
66 TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
* *
1987213 GTGCCAATGTGCTGATTCAAGGACAGCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
*
1987278 TCAAGGCCAGCGATATTGGACTTAAA
66 TCAAGGCCAGCTATATTGGACTTAAA
1987304 AGAAGATGCC
Statistics
Matches: 616, Mismatches: 39, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
92 262 0.43
93 2 0.00
96 1 0.00
97 261 0.42
98 90 0.15
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (97 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGACTTAAAGGTGAG
Found at i:1987347 original size:33 final size:33
Alignment explanation
Indices: 1987310--1987598 Score: 349
Period size: 33 Copynumber: 8.9 Consensus size: 33
1987300 TAAAAGAAGA
*
1987310 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
* * * **
1987343 TGCCATCGACTTGTGTGGG-TATT-AGAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGG-T
*
1987375 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
* **
1987408 TGCCACCGACTTGTGTGGGC-TTT-AGAGGGGAT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGG-T
* *
1987440 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
*
1987473 TGCCACCGACTTGTGTGGGC-TTTGAAAGAAAGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAA-AAGGT
*
1987506 TGCCACCGACTTGTGTGGGC-TTTGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
* *
1987538 TGCCACCGACTTGTGTGGGCTTTGGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
*
1987571 TGCCATCGACTTGTGTGGGC-TTTGAAAA
1 TGCCACCGACTTGTGTGGGCTTTTGAAAA
1987599 GAAAAAGGTG
Statistics
Matches: 216, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
31 8 0.04
32 79 0.37
33 121 0.56
34 8 0.04
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTTGAAAAAGGT
Found at i:1987418 original size:65 final size:66
Alignment explanation
Indices: 1987310--1987598 Score: 403
Period size: 65 Copynumber: 4.4 Consensus size: 66
1987300 TAAAAGAAGA
*
1987310 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCATCGACTTGTGTGGG-TATTAG-AGGGG
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCT-TTAGAAGGGG
1987373 AT
65 AT
1987375 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG-AGGGGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGGA
1987439 T
66 T
* * **
1987440 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAGAAA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGGA
1987504 GT
66 -T
* * * *
1987506 TGCCACCGACTTGTGTGGGC-TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAGAAGG
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAG-GGG
1987570 -T
65 AT
* *
1987571 TGCCATCGACTTGTGTGGGC-TTTGAAAA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAA
1987599 GAAAAAGGTG
Statistics
Matches: 206, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
64 1 0.00
65 181 0.88
66 24 0.12
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (66 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGGA
T
Found at i:1987479 original size:98 final size:97
Alignment explanation
Indices: 1987301--1987598 Score: 370
Period size: 98 Copynumber: 3.0 Consensus size: 97
1987291 TATTGGACTT
* * * * *
1987301 AAAAGAAGATGCCACCAACTTGTGTGGGCTTTTGAAAAAGGTTGCCATCGACTTGTGTGGG-TAT
1 AAAA-AAGTTGCCACCGACTTGTGTGGGC-TTTGAAAAGGGTTGCCACCAACTTGTGTGGGCT-T
** *
1987365 TAG--AGGGGATTGCCACCAACTTGTGTGGGCTTTTG
63 TAGAAAAAGG-TTGCCACCGACTTGTGTGGGC-TTTG
* * *
1987400 AAAAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAGGGGATTGCCACCAACTTGTGTGGGCTTTA
1 AAAAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGG-TTGCCACCAACTTGTGTGGGCTTTA
1987464 GAAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
65 GAAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
* *
1987497 AAAGAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAA-AAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTA
* *
1987562 GAAGAAGGTTGCCATCGACTTGTGTGGGCTTTG
65 GAAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1987595 AAAA
1 AAAA
1987599 GAAAAAGGTG
Statistics
Matches: 175, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
96 4 0.02
97 33 0.19
98 126 0.72
99 12 0.07
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (97 bp):
AAAAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
AAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:1987622 original size:34 final size:35
Alignment explanation
Indices: 1987584--1987663 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
1987574 CATCGACTTG
* *
1987584 TGTGGGCTTTGAA-AAGAAAAAG-GTGCCATGGAGT
1 TGTGGGCTTAGAAGAA-AAAAAGAGTGCCACGGAGT
* *
1987618 TGTGGACTTAGAAGGAAAAAAAGAGTGCCACGGGGT
1 TGTGGGCTTAGAA-GAAAAAAAGAGTGCCACGGAGT
1987654 TGTGGGCTTA
1 TGTGGGCTTA
1987664 AAAGGGTGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
34 11 0.29
35 6 0.16
36 21 0.55
ACGTcount: A:0.31, C:0.10, G:0.36, T:0.23
Consensus pattern (35 bp):
TGTGGGCTTAGAAGAAAAAAAGAGTGCCACGGAGT
Found at i:1987646 original size:36 final size:35
Alignment explanation
Indices: 1987600--1987668 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
1987590 CTTTGAAAAG
* *
1987600 AAAAAGGTGCCATGGAGTTGTGGACTTAGAAGGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1987635 AAAAAGAGTGCCACGGGGTTGTGGGCTTAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
1987669 GTGCCACGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.35, C:0.10, G:0.36, T:0.19
Consensus pattern (35 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1987666 original size:27 final size:27
Alignment explanation
Indices: 1987636--1987802 Score: 271
Period size: 27 Copynumber: 6.1 Consensus size: 27
1987626 TAGAAGGAAA
* * *
1987636 AAAAGAGTGCCACGGGGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1987663 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1987690 AGAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1987717 TAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1987744 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1987771 TAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
1987799 AAAA
1 AAAA
1987803 AGAAAAAGAG
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 125 0.96
28 5 0.04
ACGTcount: A:0.25, C:0.14, G:0.37, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1987854 original size:34 final size:35
Alignment explanation
Indices: 1987772--1987905 Score: 161
Period size: 35 Copynumber: 4.0 Consensus size: 35
1987762 TGTGGACTTT
* * *
1987772 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
*
1987807 AAAGAGTGCCACGGAATTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1987842 AAA-AGTGCCACGGAGTTGTGGGCTTTG--AAG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* ** *
1987873 AAAGA-TGCCACTGAGTCATGGACTTTGAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1987906 GATTGCCATT
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
31 22 0.26
32 4 0.05
33 3 0.03
34 23 0.27
35 34 0.40
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (35 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
Found at i:1987899 original size:31 final size:31
Alignment explanation
Indices: 1987778--1988026 Score: 157
Period size: 31 Copynumber: 7.9 Consensus size: 31
1987768 CTTTAAAGGG
* * *
1987778 TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTT--GAAG-AAAAGA
* * * * *
1987812 GTGCCACGGAATTGTGGGCTTTGAAAAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTTG--AAGAAAAGA
* * *
1987846 GTGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
1987878 TGCCACTGAGTCATGGACTTTGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * * * *
1987908 TTGCCATTGAGTTGTGGATTTTGGAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
1987940 TGCCACTGAGTCGTGGACTTTGGAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
1987971 TGCCACTGCA-TCGTAGACTTTG-GGACAAA-A
1 TGCCACTG-AGTCGTGGACTTTGAAGA-AAAGA
* *
1988001 TGCCACTGTGTCATGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
1988027 GGTATTTGAA
Statistics
Matches: 179, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
29 1 0.01
30 27 0.15
31 89 0.50
32 13 0.07
34 27 0.15
35 22 0.12
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:1988020 original size:30 final size:31
Alignment explanation
Indices: 1987838--1988021 Score: 178
Period size: 31 Copynumber: 5.9 Consensus size: 31
1987828 GGCTTTGAAA
* * * *
1987838 AGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
1 AGAAAAAA-TGCCACTGAGTCGTGGACTTTGG
* *
1987870 AGAAAAGATGCCACTGAGTCATGGACTTT-G
1 AGAAAAAATGCCACTGAGTCGTGGACTTTGG
* * * *
1987900 A-AAAGAGATTGCCATTGAGTTGTGGATTTTGG
1 AGAAA-A-AATGCCACTGAGTCGTGGACTTTGG
1987932 AGAAAAAATGCCACTGAGTCGTGGACTTTGG
1 AGAAAAAATGCCACTGAGTCGTGGACTTTGG
*
1987963 AGAAAAAATGCCACTGCA-TCGTAGACTTTGG
1 AGAAAAAATGCCACTG-AGTCGTGGACTTTGG
* * *
1987994 -GACAAAATGCCACTGTGTCATGGACTTT
1 AGAAAAAATGCCACTGAGTCGTGGACTTT
1988022 AAGAAGGTAT
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
29 3 0.02
30 25 0.20
31 83 0.66
32 11 0.09
33 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (31 bp):
AGAAAAAATGCCACTGAGTCGTGGACTTTGG
Found at i:1989323 original size:10 final size:10
Alignment explanation
Indices: 1989310--1989343 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1989300 TTACAATCCT
1989310 TTTTTTTGTG
1 TTTTTTTGTG
*
1989320 TTTTTTTTTTG
1 -TTTTTTTGTG
1989331 TTTTTTTGTG
1 TTTTTTTGTG
1989341 TTT
1 TTT
1989344 ACTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:1989325 original size:11 final size:11
Alignment explanation
Indices: 1989309--1989343 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1989299 TTTACAATCC
1989309 TTTTTTTTGTG
1 TTTTTTTTGTG
*
1989320 TTTTTTTTTTG
1 TTTTTTTTGTG
1989331 -TTTTTTTGTG
1 TTTTTTTTGTG
1989341 TTT
1 TTT
1989344 ACTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:1989349 original size:21 final size:21
Alignment explanation
Indices: 1989310--1989349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1989300 TTACAATCCT
**
1989310 TTTTTTTGTGTTTTTTTTTTG
1 TTTTTTTGTGTTTACTTTTTG
1989331 TTTTTTTGTGTTTACTTTT
1 TTTTTTTGTGTTTACTTTT
1989350 GACTTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (21 bp):
TTTTTTTGTGTTTACTTTTTG
Found at i:1996345 original size:52 final size:52
Alignment explanation
Indices: 1996267--1996414 Score: 260
Period size: 52 Copynumber: 2.8 Consensus size: 52
1996257 CGAAATATGA
1996267 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1996319 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1996371 AAATTTGCCTGCATGTATCGATACATTTGAGTAATGTATCGATA
1 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATA
1996415 TATTTTCTTG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 79 0.87
53 12 0.13
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1996461 original size:19 final size:19
Alignment explanation
Indices: 1996437--1996534 Score: 94
Period size: 19 Copynumber: 5.8 Consensus size: 19
1996427 AGCAGCTTCA
1996437 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
*
1996456 TATGTATCG--A-GACA--
1 TATGTATCGATACAACACT
*
1996470 T-TGTATCGATACAACCCT
1 TATGTATCGATACAACACT
1996488 TATGTATCGAT---ACA--
1 TATGTATCGATACAACACT
1996502 T-TGTATCGATACAACACT
1 TATGTATCGATACAACACT
1996520 TATGTATCGATACAA
1 TATGTATCGATACAA
1996535 ATCATTGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 24
0.69 0.04 0.26
Matches are distributed among these distances:
13 16 0.25
14 2 0.03
15 1 0.02
16 10 0.16
17 1 0.02
18 2 0.03
19 31 0.49
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:1996508 original size:13 final size:13
Alignment explanation
Indices: 1996490--1996514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1996480 ACAACCCTTA
1996490 TGTATCGATACAT
1 TGTATCGATACAT
1996503 TGTATCGATACA
1 TGTATCGATACA
1996515 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1996530 original size:32 final size:32
Alignment explanation
Indices: 1996439--1996533 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
1996429 CAGCTTCATA
*
1996439 TGTATCGATACAACACTTATGTATCGAGACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
1996471 TGTATCGATACAACCCTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
1996503 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
1996534 AATCATTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:1999775 original size:13 final size:13
Alignment explanation
Indices: 1999757--1999781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1999747 CTAATGCACA
1999757 GTATCGATACATT
1 GTATCGATACATT
1999770 GTATCGATACAT
1 GTATCGATACAT
1999782 GACCACTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1999874 original size:19 final size:20
Alignment explanation
Indices: 1999850--1999901 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1999840 CTTAACTTTT
1999850 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
1999869 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
1999889 TGTATCGATACAT
1 TGTATCGATACAT
1999902 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:2003473 original size:9 final size:9
Alignment explanation
Indices: 2003459--2003484 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2003449 TCACAGCCTA
2003459 AAACACCCG
1 AAACACCCG
2003468 AAACACCCG
1 AAACACCCG
2003477 AAACACCC
1 AAACACCC
2003485 TCGTTTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.46, G:0.08, T:0.00
Consensus pattern (9 bp):
AAACACCCG
Found at i:2005592 original size:13 final size:13
Alignment explanation
Indices: 2005574--2005599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2005564 ACATACAAGA
2005574 TGTATCGATACAT
1 TGTATCGATACAT
2005587 TGTATCGATACAT
1 TGTATCGATACAT
2005600 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2008538 original size:50 final size:52
Alignment explanation
Indices: 2008453--2008581 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 52
2008443 AATTTCTAGT
* * * **
2008453 TTTTTCATCTCGGGGATACTCCAA--CCTCGGATTTA-TTTCTAAGATATTGA
1 TTTTTCATATCGGGGATACTCCAATCCCTCGGATTTATTTTCGAA-ACATCAA
* *
2008503 TTTTTCATGTCGGGGATACT-CAATCCCT-GGTTTTATTTTCGAAACATCAA
1 TTTTTCATATCGGGGATACTCCAATCCCTCGGATTTATTTTCGAAACATCAA
2008553 TTTTTCATAATCGGGGATACTCCAATCCC
1 TTTTTCAT-ATCGGGGATACTCCAATCCC
2008582 GTTATTTCCG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
49 3 0.04
50 37 0.55
51 20 0.30
52 7 0.10
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (52 bp):
TTTTTCATATCGGGGATACTCCAATCCCTCGGATTTATTTTCGAAACATCAA
Found at i:2008648 original size:79 final size:79
Alignment explanation
Indices: 2008561--2008841 Score: 300
Period size: 79 Copynumber: 3.6 Consensus size: 79
2008551 AATTTTTCAT
* *
2008561 AATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCAAACCCCGGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
* *
2008626 TATTGATTTCACAC
66 CATCGATTTCACAC
* * * * * * * *
2008640 AATTGGGGATTCTCCAACCCCATTATTTTGGCGGGGATACTCCAACCCCGGCCTTATTTCTAAAG
1 AATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
**
2008705 CATCGATTTTTCAC
66 CATCGATTTCACAC
* **
2008719 AATCGGGGATACTCCAATCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT-TCAAA
1 AATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCT-AAA
* * *
2008783 ACATCAATTTTC-TAT
65 ACATCGA-TTTCACAC
* *
2008798 AATCAGGGATACTCCAA-CCCTGTTA-TTTCTGAGGGAATACTCCA
1 AATCGGGGATACTCCAATCCC-GTTATTTTC-GAGGGGATACTCCA
2008842 GCCCTGATCT
Statistics
Matches: 166, Mismatches: 32, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
78 7 0.04
79 156 0.94
80 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (79 bp):
AATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
CATCGATTTCACAC
Found at i:2008825 original size:158 final size:158
Alignment explanation
Indices: 2008513--2008817 Score: 375
Period size: 158 Copynumber: 1.9 Consensus size: 158
2008503 TTTTTCATGT
* ** *
2008513 CGGGGATACTCAATCCCTGGTTTTATTTTCGAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 CGGGGATACTCAATCCCCGGCCTTATTTTCGAAACATCAATTTTTCACAATCGGGGATACTCCAA
* * **
2008578 TCCCGTTATTTCCGAGGGGATACTCAAACCCCGGCTTTATTTCTAAAATATTGATTTCACACAAT
66 TCCCGTTATTTCCGAGGGGATACTCAAACCCCGACTTTATTTCTAAAACATCAATTTCACACAAT
** *
2008643 TGGGGATTCTCCAACCCCATTATTTTGG
131 CAGGGATACTCCAACCCCATTATTTTGG
* *
2008671 CGGGGATACTCCAA-CCCCGGCCTTA-TTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCC
1 CGGGGATACT-CAATCCCCGGCCTTATTTTCGAAA-CATCAATTTTTCACAATCGGGGATACTCC
* * * * *
2008734 AATCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTT-TCAAAACATCAATTTTC-TA
64 AATCCCGTTATTTCCGAGGGGATACTCAAACCCCGACTTTATTTCT-AAAACATCAA-TTTCACA
*
2008797 TAATCAGGGATACTCCAACCC
127 CAATCAGGGATACTCCAACCC
2008818 TGTTATTTCT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
157 8 0.06
158 109 0.88
159 7 0.06
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (158 bp):
CGGGGATACTCAATCCCCGGCCTTATTTTCGAAACATCAATTTTTCACAATCGGGGATACTCCAA
TCCCGTTATTTCCGAGGGGATACTCAAACCCCGACTTTATTTCTAAAACATCAATTTCACACAAT
CAGGGATACTCCAACCCCATTATTTTGG
Found at i:2008854 original size:158 final size:157
Alignment explanation
Indices: 2008539--2008857 Score: 365
Period size: 158 Copynumber: 2.0 Consensus size: 157
2008529 CTGGTTTTAT
*
2008539 TTTCGAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCA
1 TTTCGAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCA
* * ** ** *
2008604 AACCCCGGCTTTATTTCTAAAATATTGATTTCACACAATTGGGGATTCTCCAACCCCATTATTTT
66 AACCCCGACTTTATTTCTAAAACATCAATTTCACACAATCAGGGATACTCCAACCCCATTATTTT
* * *
2008669 GGCGGGGATACTCCAACCCCGGCCTTA
131 GGAGGGAATACTCCAACCCCGACCTTA
* * * *
2008696 TTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAATCCTGTTATTTTCGAGGGGATACTC
1 TTTCGAAA-CATCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTC
* * * * **
2008761 CAACCCCGATTTTATTT-TCAAAACATCAATTTTC-TATAATCAGGGATACTCCAACCCTGTTAT
65 AAACCCCGACTTTATTTCT-AAAACATCAA-TTTCACACAATCAGGGATACTCCAACCCCATTAT
* * *
2008824 TTCT-GAGGGAATACTCCAGCCCTGATCTTA
128 TT-TGGAGGGAATACTCCAACCCCGACCTTA
2008854 TTTC
1 TTTC
2008858 CAGAATACCA
Statistics
Matches: 134, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
157 8 0.06
158 121 0.90
159 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (157 bp):
TTTCGAAACATCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCA
AACCCCGACTTTATTTCTAAAACATCAATTTCACACAATCAGGGATACTCCAACCCCATTATTTT
GGAGGGAATACTCCAACCCCGACCTTA
Found at i:2008855 original size:79 final size:79
Alignment explanation
Indices: 2008535--2008878 Score: 232
Period size: 79 Copynumber: 4.4 Consensus size: 79
2008525 ATCCCTGGTT
* * * * * *
2008535 TTATTTTCGAAACATCAATTTT-TCATAATCGGGGATACTCCAATCCC-GTTATTTCCGAGGGGA
1 TTATTTCCAAAACACCAATTTTCT-ATAATCAGGGATACTCCAA-CCCTGTTATTTTCGAGGGAA
* *
2008598 TACTCAAACCCCG-GC
64 TACTCCAACCCCGATC
* * *** * * ** * ** * * *
2008613 TTTATTTCTAAAATATTGA-TTTCACACAATTGGGGATTCTCCAACCCCATTATTTTGGCGGGGA
1 -TTATTTCCAAAACACCAATTTTC-TATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGAA
**
2008677 TACTCCAACCCCGGCC
64 TACTCCAACCCCGATC
* * * * * * * *
2008693 TTATTTCTAAAGCATCGATTTT-TCACAATCGGGGATACTCCAATCCTGTTATTTTCGAGGGGAT
1 TTATTTCCAAAACACCAATTTTCT-ATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGAAT
*
2008757 ACTCCAACCCCGATT
65 ACTCCAACCCCGATC
* *
2008772 TTATTTTCAAAACATCAATTTTCTATAATCAGGGATACTCCAACCCTGTTA-TTTCTGAGGGAAT
1 TTATTTCCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTC-GAGGGAAT
* *
2008836 ACTCCAGCCCTGATC
65 ACTCCAACCCCGATC
* *
2008851 TTATTTCCAGAATACCAATTTTCTATAA
1 TTATTTCCAAAACACCAATTTTCTATAA
2008879 ACGCGGATAC
Statistics
Matches: 212, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
78 10 0.05
79 197 0.93
80 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
TTATTTCCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGAATA
CTCCAACCCCGATC
Found at i:2013428 original size:13 final size:13
Alignment explanation
Indices: 2013410--2013435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2013400 CAATTTTTTG
2013410 TGTATCGATACAT
1 TGTATCGATACAT
2013423 TGTATCGATACAT
1 TGTATCGATACAT
2013436 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2013500 original size:21 final size:21
Alignment explanation
Indices: 2013474--2013549 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2013464 CTGCCAAGAA
*
2013474 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2013495 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2013515 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2013536 ATGTATCGATACAT
1 ATGTATCGATACAT
2013550 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2013520 original size:20 final size:20
Alignment explanation
Indices: 2013495--2013567 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2013485 CATCTTTTTT
2013495 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2013515 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2013536 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2013556 ATGTATCGATAC
1 ATGTATCGATAC
2013568 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2013540 original size:41 final size:41
Alignment explanation
Indices: 2013474--2013567 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2013464 CTGCCAAGAA
* *
2013474 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2013515 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2013556 ATGTATCGATAC
1 ATGTATCGATAC
2013568 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2016038 original size:13 final size:13
Alignment explanation
Indices: 2016020--2016058 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2016010 ATAATCACCC
2016020 TGTATCGATACAA
1 TGTATCGATACAA
*
2016033 TGTATCGATACAT
1 TGTATCGATACAA
2016046 TGTATCGATACAA
1 TGTATCGATACAA
2016059 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2016071 original size:20 final size:20
Alignment explanation
Indices: 2016046--2016122 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2016036 ATCGATACAT
2016046 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
2016066 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
2016091 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
2016111 TGTATCGATACA
1 TGTATCGATACA
2016123 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2020001 original size:21 final size:21
Alignment explanation
Indices: 2019972--2020016 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2019962 AAGTTTTCAT
*
2019972 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2019992 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2020014 TTT
1 TTT
2020017 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2022239 original size:13 final size:13
Alignment explanation
Indices: 2022221--2022246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2022211 CAATTTTTTG
2022221 TGTATCGATACAT
1 TGTATCGATACAT
2022234 TGTATCGATACAT
1 TGTATCGATACAT
2022247 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2022311 original size:21 final size:21
Alignment explanation
Indices: 2022285--2022360 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2022275 CTGCCAAGAA
*
2022285 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2022306 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
2022326 ATGTATCGATACATCATTTTC
1 ATGTATCGATACATCTTTTTC
2022347 ATGTATCGATACAT
1 ATGTATCGATACAT
2022361 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2022331 original size:20 final size:20
Alignment explanation
Indices: 2022306--2022378 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
2022296 CATCTTTTTT
2022306 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*
2022326 ATGTATCGATACA-T-CATTTTC
1 ATGTATCGATACATTGCA---AC
2022347 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2022367 ATGTATCGATAC
1 ATGTATCGATAC
2022379 TTTGAATTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 26 0.57
21 14 0.30
22 1 0.02
23 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2022351 original size:41 final size:41
Alignment explanation
Indices: 2022285--2022378 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2022275 CTGCCAAGAA
* *
2022285 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2022326 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
2022367 ATGTATCGATAC
1 ATGTATCGATAC
2022379 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTCATGTATCGATACATTGCAAC
Found at i:2031158 original size:8 final size:8
Alignment explanation
Indices: 2031145--2031184 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
2031135 ACTTTTTAAA
2031145 AAAAAAAC
1 AAAAAAAC
2031153 AAAAAAAC
1 AAAAAAAC
2031161 AAAAAAA-
1 AAAAAAAC
2031168 AAACAAAAC
1 AAA-AAAAC
2031177 AAAGAAAA
1 AAA-AAAA
2031185 AAAGAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 3 0.10
8 19 0.66
9 7 0.24
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2031166 original size:16 final size:16
Alignment explanation
Indices: 2031144--2031187 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
2031134 CACTTTTTAA
*
2031144 AAAAAAAACAAAAAAAC
1 AAAAAAAA-AACAAAAC
2031161 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
2031177 AAAGAAAAAAA
1 AAA-AAAAAAA
2031188 GAAAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:2031167 original size:20 final size:20
Alignment explanation
Indices: 2031142--2031187 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
2031132 CCCACTTTTT
2031142 AAAAAAAAAACAAAA-AAAC
1 AAAAAAAAAACAAAACAAAC
*
2031161 AAAAAAAAAACAAAACAAAG
1 AAAAAAAAAACAAAACAAAC
2031181 AAAAAAA
1 AAAAAAA
2031188 GAAAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAACAAAC
Found at i:2031186 original size:17 final size:17
Alignment explanation
Indices: 2031156--2031201 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2031146 AAAAAACAAA
2031156 AAAACAAA-AAAAAAAC
1 AAAACAAAGAAAAAAAC
*
2031172 AAAACAAAGAAAAAAAG
1 AAAACAAAGAAAAAAAC
2031189 AAAGA-AAAGAAAA
1 AAA-ACAAAGAAAA
2031202 GAACCTGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.30
17 18 0.67
18 1 0.04
ACGTcount: A:0.85, C:0.07, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAACAAAGAAAAAAAC
Found at i:2032631 original size:245 final size:244
Alignment explanation
Indices: 2032191--2032678 Score: 678
Period size: 245 Copynumber: 2.0 Consensus size: 244
2032181 GTAGAATGAT
2032191 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT
* * * * *
2032256 AAAGCCCGCACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAG
66 AAAGCCCACACAAGTTGCTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTCAAAG
* * *
2032321 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAGGACGCCTTTTCATTTTATAGCCCA
131 CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAGGAGCAGGACGCCTTTTCATTTTAAAGCCCA
* * *
2032386 CACAAGTTGGTGGCACCTTCCATTCCTCAAAGAGGAGGACACCTTTTCC
196 CACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACACCTTTTCC
* * **
2032435 TTTTAAAGCCCACACAAGTTGGTGGCTCTTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACACCTTTTCCTTT
*
2032500 TAAAGCCCACACAAGTTGCTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-A-TTTCTCTTTGCA
65 TAAAGCCCACACAAGTTGCTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCATTTTC-CTTT-CA
* * * *
2032563 AAGGCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGTA-TAGGATGCCTTTTC-TTTTCAAA
128 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC-AAGGAGCAGGACGCCTTTTCATTTT-AAA
* * ** *
2032626 GCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGACACCTTTTC
191 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACACCTTTTC
2032679 TTTCTCTCTT
Statistics
Matches: 214, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
243 4 0.02
244 37 0.17
245 169 0.79
246 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (244 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT
AAAGCCCACACAAGTTGCTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTCAAAG
CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAGGAGCAGGACGCCTTTTCATTTTAAAGCCCA
CACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACACCTTTTCC
Found at i:2032681 original size:61 final size:61
Alignment explanation
Indices: 2032191--2032678 Score: 626
Period size: 61 Copynumber: 8.0 Consensus size: 61
2032181 GTAGAATGAT
*
2032191 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCC
* * *
2032252 TTTTAAAGCCCGCACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCC
* * * * *
2032313 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAGGACGCCTTTTCA
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCC
* * *
2032374 TTTTATAGCCCACACAAGTTGGTGGCACCTTCCATTCCTCAAAGAGGAGGACACCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCC
* * **
2032435 TTTTAAAGCCCACACAAGTTGGTGGCTCTTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACACCTTTTCC
* *
2032497 TTTTAAAGCCCACACAAGTTGCTGGCACCTTCCAGTCCTCAAAGAGCAGGATGA---TTTCTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA-CACCTTTTC-C
* * * **
2032557 TTTGCAAAGGCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGTA-TAGGATGCCTTTT-C
1 TTT-TAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG-AGCAGGACACCTTTTCC
* * ** * *
2032618 TTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGACACCTTTTC
1 TTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTC
2032679 TTTCTCTCTT
Statistics
Matches: 371, Mismatches: 45, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
59 4 0.01
60 5 0.01
61 304 0.82
62 55 0.15
63 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (61 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCC
Found at i:2032727 original size:38 final size:39
Alignment explanation
Indices: 2032648--2032728 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
2032638 TGGTGGCACT
* * *
2032648 TTTTAGTCCTTAAAGAGCAAGACACCTTTTCTTTCTCTC
1 TTTTAGTCCTCAAAGAGCAAAACACCATTTCTTTCTCTC
2032687 TTTT-GTCCTCAAAGAGCAAAACA-CATTTCATTTC-CTTC
1 TTTTAGTCCTCAAAGAGCAAAACACCATTTC-TTTCTC-TC
2032725 TTTT
1 TTTT
2032729 CTCTTTTGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 6 0.16
38 27 0.73
39 4 0.11
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.42
Consensus pattern (39 bp):
TTTTAGTCCTCAAAGAGCAAAACACCATTTCTTTCTCTC
Found at i:2032832 original size:46 final size:43
Alignment explanation
Indices: 2032713--2032941 Score: 165
Period size: 41 Copynumber: 5.4 Consensus size: 43
2032703 CAAAACACAT
*
2032713 TTCATTTCCTTCTTTTCTCTTTTGTCCTCAAAGAGCAGGATG--C
1 TTCATTTCCTT-TTTTCTC-TTTGTTCTCAAAGAGCAGGATGCAC
** *
2032756 TTTTTTTTCTTTTTTC-CTTTGTTCTCAAAGAGCAGGATGCAC
1 TTCATTTCCTTTTTTCTCTTTGTTCTCAAAGAGCAGGATGCAC
* *
2032798 TTCATTTCCTTATTTTCTCTTCTAGTTCTTAAAGAGTAGGATGCAC
1 TTCATTTCCTT-TTTTCTCTT-T-GTTCTCAAAGAGCAGGATGCAC
* * *
2032844 TTTA-TT-CTCTTTTTC-CTTTG-TCTTAAAAAAGCAGGA--CAC
1 TTCATTTCCT-TTTTTCTCTTTGTTC-TCAAAGAGCAGGATGCAC
* * * *
2032883 ATTTAATTCCTTTTTTC-CTTTG-TCTTCAAAGGGCAGGATGCAT
1 -TTCATTTCCTTTTTTCTCTTTGTTC-TCAAAGAGCAGGATGCAC
* *
2032926 TTTATTTCTTTTTTTC
1 TTCATTTCCTTTTTTC
2032942 CTTAGTCCCC
Statistics
Matches: 154, Mismatches: 19, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
39 3 0.02
40 27 0.18
41 38 0.25
42 31 0.20
43 18 0.12
44 10 0.06
45 4 0.03
46 23 0.15
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (43 bp):
TTCATTTCCTTTTTTCTCTTTGTTCTCAAAGAGCAGGATGCAC
Found at i:2033570 original size:20 final size:20
Alignment explanation
Indices: 2033545--2033601 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
2033535 TTTTCACAAT
*
2033545 TTGTATCGATACATTGTTCA
1 TTGTATCAATACATTGTTCA
2033565 TTGTATCAATACATTGTTCA
1 TTGTATCAATACATTGTTCA
2033585 TTGTATCAATACATTGT
1 TTGTATCAATACATTGT
2033602 ATTGATACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (20 bp):
TTGTATCAATACATTGTTCA
Found at i:2036360 original size:15 final size:15
Alignment explanation
Indices: 2036340--2036369 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2036330 GGCTTTTATG
2036340 AGTTGGTTTTCCAAC
1 AGTTGGTTTTCCAAC
2036355 AGTTGGTTTTCCAAC
1 AGTTGGTTTTCCAAC
2036370 CTTGGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
AGTTGGTTTTCCAAC
Found at i:2037462 original size:50 final size:50
Alignment explanation
Indices: 2037358--2037488 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 50
2037348 AAATTTCTAG
* ** * **
2037358 ATTTTTCATCTCGAGGATACTCCAACCCCGGCTTTATTTCTGAGATATTG
1 ATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCAAAGACATCA
* *
2037408 ATTTTTCATCTCGGGGATACTCCAACCCTGGTTTTATTTCCAAAG-CATCA
1 ATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTT-CAAAGACATCA
* * *
2037458 ATTTTTCATAATCGGGGATACTTCAATCCCG
1 ATTTTTCAT-CTCGGGGATACTCCAACCCCG
2037489 TTATTTTTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 47 0.70
51 20 0.30
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (50 bp):
ATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCAAAGACATCA
Found at i:2037748 original size:158 final size:157
Alignment explanation
Indices: 2037441--2037795 Score: 426
Period size: 158 Copynumber: 2.3 Consensus size: 157
2037431 AACCCTGGTT
* * * * * *
2037441 TTATTTCCAAAGCATCAATTTTTCATAATCGGGGATACTTCAATCCCGTTATTTTTGAAGGGATA
1 TTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
* * * **
2037506 CTCAACCCCGGCTTTATTTTTAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCATTAT
66 CTCAACCCCGACTTTATTTTCAAAACATAAATTTCTCATAATCAGGGATACTCCAACCCCATTAT
** **
2037571 TTTGGCGGGGATACTCCAACCTCGACC
131 TTCCGAAGGGATACTCCAACCTCGACC
* * *
2037598 TTATTTCTAAAGCATCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATA
1 TTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
* * * * *
2037663 CTCCAACCCCGATTTTATTTTCAAAACGTAAATTT-TCTATAATTAGGGATACTCTAACCCCGTT
66 CT-CAACCCCGACTTTATTTTCAAAACATAAATTTCTC-ATAATCAGGGATACTCCAACCCCATT
**
2037727 ATTTCCGAAGGGATACTCCAACCTCGATT
129 ATTTCCGAAGGGATACTCCAACCTCGACC
* *
2037756 TTATTTTTAGAA-CACCGATTTTCCATAATCGGGGATACTC
1 TTATTTCTA-AAGCATCGATTTTCCATAATCGGGGATACTC
2037796 TAGCCCCTTA
Statistics
Matches: 166, Mismatches: 29, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
157 60 0.36
158 104 0.63
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (157 bp):
TTATTTCTAAAGCATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATA
CTCAACCCCGACTTTATTTTCAAAACATAAATTTCTCATAATCAGGGATACTCCAACCCCATTAT
TTCCGAAGGGATACTCCAACCTCGACC
Found at i:2037796 original size:79 final size:79
Alignment explanation
Indices: 2037421--2037806 Score: 357
Period size: 79 Copynumber: 4.9 Consensus size: 79
2037411 TTTCATCTCG
* ** ** * * * *
2037421 GGGATACTCCAACCCTGGTTTTATTTCCAAAGCATCAATTTTTCATAATCGGGGATACT-TCAAT
1 GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTCCATAATCGGGGATACTCT-AAC
*
2037485 CCCGTTATTTTTGAA
65 CCCGTTATTTTCGAA
* * * * *
2037500 GGGATACT-CAACCCCGGCTTTATTTTTAAAATATTGA-TTTCTCATAATCAGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTC-CATAATCGGGGATACTCTAAC
* * **
2037563 CCCATTATTTTGGCG
65 CCCGTTATTTTCGAA
* * * * * * *
2037578 GGGATACTCCAACCTCGACCTTATTTCTAAAGCATCGATTTTCCACAATCGAGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTCCATAATCGGGGATACTCTAACC
*
2037643 CCGTTATTTTCGAG
66 CCGTTATTTTCGAA
* * * ** * **
2037657 GGGATACTCCAACCCCGATTTTATTTTCAAAACGTAAATTTTCTATAATTAGGGATACTCTAACC
1 GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTCCATAATCGGGGATACTCTAACC
*
2037722 CCGTTATTTCCGAA
66 CCGTTATTTTCGAA
* * * * *
2037736 GGGATACTCCAACCTCGATTTTATTTTTAGAACACCGATTTTCCATAATCGGGGATACTCTAGCC
1 GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTCCATAATCGGGGATACTCTAACC
2037801 CC-TTAT
66 CCGTTAT
2037807 CCCCAAATTA
Statistics
Matches: 246, Mismatches: 57, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
77 3 0.01
78 61 0.25
79 178 0.72
80 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCCGACTTTATTTTTAAAACATCGATTTTCCATAATCGGGGATACTCTAACC
CCGTTATTTTCGAA
Done.