Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_pilon, whole genome shotgun sequence
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: 1718667
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:678725 original size:29 final size:29
Alignment explanation
Indices: 678692--678776 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
678682 GAGCGAGGGT
*
678692 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
678721 AGGTCACCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
678750 AGGTCGCCCGGAGGGCATGACGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
678777 TGTGTTAGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.22, C:0.31, G:0.35, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:679787 original size:9 final size:9
Alignment explanation
Indices: 679773--679797 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
679763 TATAAATACT
679773 CATCGCCCA
1 CATCGCCCA
679782 CATCGCCCA
1 CATCGCCCA
679791 CATCGCC
1 CATCGCC
679798 TACCGCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.56, G:0.12, T:0.12
Consensus pattern (9 bp):
CATCGCCCA
Found at i:703394 original size:29 final size:29
Alignment explanation
Indices: 703350--703405 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
703340 AGTAATGTTC
*
703350 AAAAAAAGTATCTAAAGT-ATTTTTTTAT
1 AAAAAAAGTATCTAAAGTGATCTTTTTAT
703378 AAAAATAAGTA-CTTAAAGTGATCTTTTT
1 AAAAA-AAGTATC-TAAAGTGATCTTTTT
703406 GGTCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (29 bp):
AAAAAAAGTATCTAAAGTGATCTTTTTAT
Found at i:703586 original size:31 final size:28
Alignment explanation
Indices: 703551--703621 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 28
703541 TTTTGAATAG
703551 TTTAGGTACTTATTTTGACTAAAAATATAAC
1 TTTAGGTACTTATTTTG-CTAAAAA-A-AAC
* *
703582 TTTAGGTATTTATTTTGCTAAAAAACAC
1 TTTAGGTACTTATTTTGCTAAAAAAAAC
703610 TTTAGGTACTTA
1 TTTAGGTACTTA
703622 AATGAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.35
29 1 0.03
30 7 0.19
31 16 0.43
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (28 bp):
TTTAGGTACTTATTTTGCTAAAAAAAAC
Found at i:704505 original size:182 final size:188
Alignment explanation
Indices: 704298--704664 Score: 676
Period size: 182 Copynumber: 2.0 Consensus size: 188
704288 TTTAGAAAAC
704298 AAAAAAAATTATTTTATGTTATTAATGCCAAAAAAATTAATACTGAAAAACGTTATTTCATTTTT
1 AAAAAAAATTATTTTATGTTATTAATGCCAAAAAAATTAATACTGAAAAACGTTATTTCATTTTT
704363 AAAAAAA-ATTATTTCTAGAATTTCTAGTCTGAA-TAAGAATGC-TGTTCAATTTT-TTTTCTCC
66 AAAAAAATATTATTTCTAGAATTTCTAGTCTGAATTAAGAATGCTTGTTCAATTTTCTTTTCTCC
704424 -AATAGGGTTGACTCTGCCTTGACTTGAAATACGAAGACAA-ACATAC-TTGTATAAA
131 AAATAGGGTTGACTCTGCCTTGACTTGAAATACGAAGACAAGACATACTTTGTATAAA
704479 AAAAAAAATTATTTTATTGTTATTAATGCCAAAAAAATTAATACTGAAAAACGTTATTTCATTTT
1 AAAAAAAATTATTTTA-TGTTATTAATGCCAAAAAAATTAATACTGAAAAACGTTATTTCATTTT
704544 TAAAAAAATATTATTTCTAGAATTTCTAGTCTGAATTAAGAATGCTTGTTCAATTTTCTTTTCTC
65 TAAAAAAATATTATTTCTAGAATTTCTAGTCTGAATTAAGAATGCTTGTTCAATTTTCTTTTCTC
704609 CAAATAGGGTTGACTCTGCCTTGACTTGAAATACGAAGACAAGACATACTTTGTAT
130 CAAATAGGGTTGACTCTGCCTTGACTTGAAATACGAAGACAAGACATACTTTGTAT
704665 TATTTGCATA
Statistics
Matches: 178, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
181 16 0.09
182 56 0.31
183 26 0.15
184 9 0.05
185 11 0.06
186 8 0.04
187 40 0.22
188 6 0.03
189 6 0.03
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (188 bp):
AAAAAAAATTATTTTATGTTATTAATGCCAAAAAAATTAATACTGAAAAACGTTATTTCATTTTT
AAAAAAATATTATTTCTAGAATTTCTAGTCTGAATTAAGAATGCTTGTTCAATTTTCTTTTCTCC
AAATAGGGTTGACTCTGCCTTGACTTGAAATACGAAGACAAGACATACTTTGTATAAA
Found at i:710169 original size:17 final size:17
Alignment explanation
Indices: 710126--710206 Score: 108
Period size: 18 Copynumber: 4.6 Consensus size: 17
710116 ATTCTTAATG
*
710126 TTTACAGTTATCAGACA
1 TTTACAGTTATCAGATA
710143 TTTCACAGTTATCAGATA
1 TTT-ACAGTTATCAGATA
710161 TTTACAGTTATCAGATGA
1 TTTACAGTTATCAGAT-A
* * *
710179 TTTTCAGTTATAAGATG
1 TTTACAGTTATCAGATA
710196 TTTACAGTTAT
1 TTTACAGTTAT
710207 TAATAAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 26 0.46
18 31 0.54
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:710172 original size:35 final size:35
Alignment explanation
Indices: 710126--710206 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
710116 ATTCTTAATG
*
710126 TTTACAGTTATCAGA-CATTTCACAGTTATCAGATA
1 TTTACAGTTATCAGATCATTT-ACAGTTATAAGATA
* * *
710161 TTTACAGTTATCAGATGATTTTCAGTTATAAGATG
1 TTTACAGTTATCAGATCATTTACAGTTATAAGATA
710196 TTTACAGTTAT
1 TTTACAGTTAT
710207 TAATAAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (35 bp):
TTTACAGTTATCAGATCATTTACAGTTATAAGATA
Found at i:710316 original size:14 final size:14
Alignment explanation
Indices: 710297--710326 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
710287 AAGTGAATGC
*
710297 TTATCATTTATTAG
1 TTATCAGTTATTAG
710311 TTATCAGTTATTAG
1 TTATCAGTTATTAG
710325 TT
1 TT
710327 CAGCACTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (14 bp):
TTATCAGTTATTAG
Found at i:719747 original size:28 final size:28
Alignment explanation
Indices: 719714--719768 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
719704 GATTAAAAAT
*
719714 TAAAATAATTTAGATATTTATTTTGACG
1 TAAAATAATTTAGATACTTATTTTGACG
719742 TAAAATAATTTAGATACTTATTTTGAC
1 TAAAATAATTTAGATACTTATTTTGAC
719769 AAAAAAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (28 bp):
TAAAATAATTTAGATACTTATTTTGACG
Found at i:735547 original size:2 final size:2
Alignment explanation
Indices: 735540--735587 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
735530 CAATTACATG
735540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
735582 AT AT AT
1 AT AT AT
735588 TACATGTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:736056 original size:19 final size:19
Alignment explanation
Indices: 736012--736048 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
736002 TAGTTAGTGG
736012 GCAGATAGATGCGGGACGA
1 GCAGATAGATGCGGGACGA
*
736031 GCAGATAGATGCTGGACG
1 GCAGATAGATGCGGGACG
736049 GACAGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.16, G:0.41, T:0.14
Consensus pattern (19 bp):
GCAGATAGATGCGGGACGA
Found at i:737074 original size:21 final size:21
Alignment explanation
Indices: 737045--737088 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
737035 ATTCTGACTA
737045 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
737066 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
737087 TC
1 TC
737089 ACAATGCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:737154 original size:20 final size:20
Alignment explanation
Indices: 737099--737240 Score: 153
Period size: 20 Copynumber: 7.0 Consensus size: 20
737089 ACAATGCAAA
*
737099 TACGTAAATCGCAACGCGAAT
1 TACGTAAATCGCAATGCG-AT
** * *
737120 TTGGAAAAGCGCAATGCGAT
1 TACGTAAATCGCAATGCGAT
*
737140 TACGTAAATCGCAATGCGAA
1 TACGTAAATCGCAATGCGAT
737160 TACGTAAATCGCAATGCGAT
1 TACGTAAATCGCAATGCGAT
* *
737180 TACG-ACTATCGCAATGCGAA
1 TACGTA-AATCGCAATGCGAT
*
737200 TACGTAAATCGCAATGCGAA
1 TACGTAAATCGCAATGCGAT
*
737220 T-CTGTAAATCGCAATGAGAT
1 TAC-GTAAATCGCAATGCGAT
737240 T
1 T
737241 CTGACTATCG
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.02
20 86 0.84
21 14 0.14
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TACGTAAATCGCAATGCGAT
Found at i:737191 original size:40 final size:40
Alignment explanation
Indices: 737090--737235 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
737080 TCCTAATTCA
* * * ** * *
737090 CAATGCAAATACGTAAATCGCAACGCGAATTTGGAAAAGCG
1 CAATGCGATTACGTAAATCGCAATGCGAA-TACGTAAATCG
737131 CAATGCGATTACGTAAATCGCAATGCGAATACGTAAATCG
1 CAATGCGATTACGTAAATCGCAATGCGAATACGTAAATCG
*
737171 CAATGCGATTACG-ACTATCGCAATGCGAATACGTAAATCG
1 CAATGCGATTACGTA-AATCGCAATGCGAATACGTAAATCG
*
737211 CAATGCGAAT-CTGTAAATCGCAATG
1 CAATGCGATTAC-GTAAATCGCAATG
737236 AGATTCTGAC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 63 0.68
41 27 0.29
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (40 bp):
CAATGCGATTACGTAAATCGCAATGCGAATACGTAAATCG
Found at i:737211 original size:60 final size:59
Alignment explanation
Indices: 737090--737254 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 59
737080 TCCTAATTCA
* * * ** * *
737090 CAATGCAAATACGTAAATCGCAACGCGAATTTGGAAAAGCGCAATGCGATTACGTAAATCG
1 CAATGCGAATACGTAAATCGCAATGCG-A-TTCGACTATCGCAATGCGAATACGTAAATCG
737151 CAATGCGAATACGTAAATCGCAATGCGATTACGACTATCGCAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCGCAATGCGATT-CGACTATCGCAATGCGAATACGTAAATCG
*
737211 CAATGCGAAT-CTGTAAATCGCAATGAGATTCTGACTATCGCAAT
1 CAATGCGAATAC-GTAAATCGCAATGCGATTC-GACTATCGCAAT
737255 ACTGAATTTC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
59 4 0.04
60 64 0.69
61 25 0.27
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (59 bp):
CAATGCGAATACGTAAATCGCAATGCGATTCGACTATCGCAATGCGAATACGTAAATCG
Found at i:737291 original size:20 final size:20
Alignment explanation
Indices: 737266--737315 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
737256 CTGAATTTCA
737266 AATTCGCAACTCAATTTCTG
1 AATTCGCAACTCAATTTCTG
737286 AATTCGCAACTCAATTTCTG
1 AATTCGCAACTCAATTTCTG
737306 AATTCGCAAC
1 AATTCGCAAC
737316 AGGTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (20 bp):
AATTCGCAACTCAATTTCTG
Found at i:738166 original size:24 final size:24
Alignment explanation
Indices: 738115--738168 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
738105 GTATTTGAAA
*
738115 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
738139 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
738163 TTTGAT
1 TTTGAT
738169 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:740583 original size:20 final size:21
Alignment explanation
Indices: 740555--740628 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 21
740545 GACATTCATT
*
740555 TGACCATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
*
740575 TGACTATCGCAACACGGAA-A
1 TGACTATCGCAACGCGGAATA
* * *
740595 GGACTATCACAATGCGGAAT-
1 TGACTATCGCAACGCGGAATA
740615 TGACTATCGCAACG
1 TGACTATCGCAACG
740629 AGAGAATCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 40 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.18
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:740661 original size:33 final size:34
Alignment explanation
Indices: 740620--740695 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
740610 GGAATTGACT
*
740620 ATCGCAACGAGAGAATCACAATGTG-AAATAAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATAAAA
* * *
740653 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCACAATGCGAAAATAAAA
740687 ATCGCAACG
1 ATCGCAACG
740696 CGAAATTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 22 0.58
34 16 0.42
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCACAATGCGAAAATAAAA
Found at i:740886 original size:14 final size:15
Alignment explanation
Indices: 740867--740904 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
740857 CATCAATTAA
740867 ACAAATCAA-CATTT
1 ACAAATCAATCATTT
*
740881 ACAAAT-AATCTTTT
1 ACAAATCAATCATTT
740895 ACAAATCAAT
1 ACAAATCAAT
740905 TAAACAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:742358 original size:42 final size:42
Alignment explanation
Indices: 742279--742371 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
742269 CCTCTTCAAC
* * *
742279 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
742321 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
742363 GATGACAGG
1 GATGACAGG
742372 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:742876 original size:20 final size:20
Alignment explanation
Indices: 742851--742919 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
742841 GGAACTTAAA
*
742851 ATCGCAACGCGAAAATGATT
1 ATCGCAACGCGAAAATGACT
742871 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
742891 ATTGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
742911 ATCGCAACG
1 ATCGCAACG
742920 AGAGAATCGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:743054 original size:34 final size:34
Alignment explanation
Indices: 743010--743131 Score: 136
Period size: 34 Copynumber: 3.4 Consensus size: 34
743000 GCGATTTTCA
* *
743010 TTTCGCATTGCGATTCTTTCATTACGATAGTCAA
1 TTTCGCATTGCGATTCTTTCATTGCGATAGTCAT
*
743044 ATTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGAT--TC--TTT--CATTGCGATAGTCAT
* *
743084 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCATTGCGATAGTCAT
*
743118 TTTCGCTTTGCGAT
1 TTTCGCATTGCGAT
743132 AGTCATTTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
34 40 0.53
36 4 0.05
38 5 0.07
40 26 0.35
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCATTGCGATAGTCAT
Found at i:743057 original size:20 final size:20
Alignment explanation
Indices: 743029--743154 Score: 156
Period size: 20 Copynumber: 6.6 Consensus size: 20
743019 GCGATTCTTT
* **
743029 CATTACGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
743049 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
743069 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
743089 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
743105 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
743123 CTTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
743143 TATTGCGATAGT
1 CATTGCGATAGT
743155 AAACTATTCT
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
14 7 0.08
16 6 0.06
18 6 0.06
20 74 0.80
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:743113 original size:74 final size:73
Alignment explanation
Indices: 742993--743154 Score: 225
Period size: 74 Copynumber: 2.2 Consensus size: 73
742983 AACGAGAGAA
* ** *
742993 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTTTCATTACGATAGTCAAATTCGCATTGCGAT
1 TCGCATTGCGATAGTCATTTCGCATTGCGATTCTCTCATTACGATAGTCAAATTCGCATTGCGAT
743058 AGTCATTT
66 AGTCATTT
* * ** *
743066 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCTTTGCGA
1 TCGCATTGCGATAGTCA-TTTCGCATTGCGATTCTCTCATTACGATAGTCAAATTCGCATTGCGA
743131 TAGTCATTT
65 TAGTCATTT
*
743140 TCGTATTGCGATAGT
1 TCGCATTGCGATAGT
743155 AAACTATTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 14 0.18
74 64 0.82
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (73 bp):
TCGCATTGCGATAGTCATTTCGCATTGCGATTCTCTCATTACGATAGTCAAATTCGCATTGCGAT
AGTCATTT
Found at i:745051 original size:20 final size:20
Alignment explanation
Indices: 745028--745094 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
745018 CTGAAACTTT
745028 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
745048 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
745068 CTATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
745087 AAATCGCA
1 AAATCGCA
745095 TTGCGATTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 12 0.29
20 30 0.71
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:745134 original size:20 final size:20
Alignment explanation
Indices: 745109--745155 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
745099 GATTCTCTCG
745109 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
745129 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
745149 TTGCGAT
1 TTGCGAT
745156 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:745748 original size:20 final size:20
Alignment explanation
Indices: 745723--745856 Score: 171
Period size: 20 Copynumber: 6.7 Consensus size: 20
745713 GAGCTATGTA
* *
745723 AATCGCATTGCGATAGT-CAT
1 AATCGCATTGCGAT-TTACGT
745743 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
745763 ATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
745783 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* **
745803 AATCGCATTGCGATTTTCCA
1 AATCGCATTGCGATTTACGT
*
745823 AATTCGCGTTGCGATTTACGT
1 AA-TCGCATTGCGATTTACGT
*
745844 ATTCGCATTGCGA
1 AATCGCATTGCGA
745857 ATTAGGAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
19 1 0.01
20 83 0.84
21 15 0.15
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:745816 original size:60 final size:61
Alignment explanation
Indices: 745723--745856 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
745713 GAGCTATGTA
**
745723 AATCGCATTGCGATAGTCATAATCGCATTGCGA-TTTACGTATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATAGTCATAATCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGT
* * * *
745783 AATCGCATTGCGAT-TTACGTAATCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGT
1 AATCGCATTGCGATAGT-CATAATCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGT
*
745844 ATTCGCATTGCGA
1 AATCGCATTGCGA
745857 ATTAGGAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 29 0.45
61 35 0.54
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (61 bp):
AATCGCATTGCGATAGTCATAATCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGT
Found at i:745877 original size:21 final size:21
Alignment explanation
Indices: 745853--745919 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
745843 TATTCGCATT
* *
745853 GCGAATTAGGAAAATCGCAAC
1 GCGAATTTGGGAAATCGCAAC
745874 GCGAATTTGGGAAATCGCAAC
1 GCGAATTTGGGAAATCGCAAC
*
745895 GCGAATTTGGGAAATCGCAAT
1 GCGAATTTGGGAAATCGCAAC
745916 GCGA
1 GCGA
745920 TAGTCAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (21 bp):
GCGAATTTGGGAAATCGCAAC
Found at i:750807 original size:19 final size:21
Alignment explanation
Indices: 750780--750825 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
750770 AACATTGATA
750780 TGAAAAATAAA-ATA-AAAAT
1 TGAAAAATAAATATACAAAAT
* *
750799 TGAACAATAAATATACAAACT
1 TGAAAAATAAATATACAAAAT
750820 TGAAAA
1 TGAAAA
750826 TGAGAAGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
21 9 0.41
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
TGAAAAATAAATATACAAAAT
Found at i:756026 original size:15 final size:15
Alignment explanation
Indices: 756006--756035 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
755996 TAATTGAAAG
756006 ATAGAAATTGTATAT
1 ATAGAAATTGTATAT
756021 ATAGAAATTGTATAT
1 ATAGAAATTGTATAT
756036 CTGAATAATT
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:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATAGAAATTGTATAT
Found at i:763557 original size:2 final size:2
Alignment explanation
Indices: 763546--763591 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
763536 TCCTATATTC
* *
763546 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
763587 TA TA T
1 TA TA T
763592 TAAAACTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:766528 original size:51 final size:51
Alignment explanation
Indices: 766450--766554 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
766440 ATGACGAGTT
* * * *
766450 CCTTAAACACTGTAACAAATACAGTAGATCCCCATTTAAGAGTTTGACAAA
1 CCTTAAACAATGTAACAAATACAGTAGATCCCCAATTAAAAGTTTAACAAA
*
766501 CCTTAAACAATGTAGCAAATATC-GTAGATCCCCAATTAAAAGTTTAACAAA
1 CCTTAAACAATGTAACAAATA-CAGTAGATCCCCAATTAAAAGTTTAACAAA
766552 CCT
1 CCT
766555 ATTTTTCTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (51 bp):
CCTTAAACAATGTAACAAATACAGTAGATCCCCAATTAAAAGTTTAACAAA
Found at i:767180 original size:7 final size:7
Alignment explanation
Indices: 767168--767193 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
767158 AAAACTTCAA
767168 TTTGAAT
1 TTTGAAT
767175 TTTGAAT
1 TTTGAAT
767182 TTTGAAT
1 TTTGAAT
767189 TTTGA
1 TTTGA
767194 GTGTACGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
TTTGAAT
Found at i:769447 original size:31 final size:31
Alignment explanation
Indices: 769402--769471 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
769392 AAAGTAGATG
*
769402 ACATTACATTAAACAAAAACAAATATGAAAA
1 ACATTACATAAAACAAAAACAAATATGAAAA
* * * *
769433 ACTTTACATAAAACATAAATAAATATTAAAA
1 ACATTACATAAAACAAAAACAAATATGAAAA
769464 ACATTACA
1 ACATTACA
769472 ATTAATATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.24
Consensus pattern (31 bp):
ACATTACATAAAACAAAAACAAATATGAAAA
Found at i:771630 original size:43 final size:43
Alignment explanation
Indices: 771548--771631 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
771538 AACTGCATAA
* * *
771548 AATAAAATAAAAATAACAATTACAATTACAATTACAAATAATT
1 AATAAAATAAAAATAACAATAAAAATTAAAATTACAAATAATT
771591 AATAAAATAAAAA-AATCAATAAAATATTAAAATTA-AAATAA
1 AATAAAATAAAAATAA-CAATAAAA-ATTAAAATTACAAATAA
771632 AATTTATACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.06
43 25 0.69
44 9 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (43 bp):
AATAAAATAAAAATAACAATAAAAATTAAAATTACAAATAATT
Found at i:773807 original size:23 final size:23
Alignment explanation
Indices: 773758--773808 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
773748 ATGTTATGTT
**
773758 ATATTTTAAAAATATTAATTATT
1 ATATTTTAAAAATATTAATTAAA
* * *
773781 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
773804 ATATT
1 ATATT
773809 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:773864 original size:19 final size:19
Alignment explanation
Indices: 773796--773876 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
773786 TTAAATATCT
773796 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
773815 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
773834 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
773854 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
773872 -TATTA
1 TTATTA
773877 GTTATATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:777991 original size:16 final size:16
Alignment explanation
Indices: 777970--778007 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
777960 TTAATAATAG
777970 AGTACCTTAGTAAAGT
1 AGTACCTTAGTAAAGT
777986 AGTACCTTAGTAAAGT
1 AGTACCTTAGTAAAGT
778002 AGTACC
1 AGTACC
778008 CTATAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (16 bp):
AGTACCTTAGTAAAGT
Found at i:790375 original size:31 final size:31
Alignment explanation
Indices: 790306--790398 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
790296 CCTGAAGGAC
* * *
790306 CTATCCATATGTTCCGAAGAATATAGGT-AA
1 CTATCCATATGTCCCGAAGGACATAGGTAAA
*
790336 TTATCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCCCGAAGGACATAGGTAAA
* *
790367 CTATCCATATGTCTCGAAAGACATAGGTAAA
1 CTATCCATATGTCCCGAAGGACATAGGTAAA
790398 C
1 C
790399 CTCGACTCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 24 0.44
31 31 0.56
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (31 bp):
CTATCCATATGTCCCGAAGGACATAGGTAAA
Found at i:795408 original size:15 final size:15
Alignment explanation
Indices: 795388--795428 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
795378 TATATATATA
795388 TTAAAAAATAATTAT
1 TTAAAAAATAATTAT
*
795403 TTAAAAATTTAATTAT
1 TTAAAAA-ATAATTAT
*
795419 ATAAAAAATA
1 TTAAAAAATA
795429 TGATCTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAAAAATAATTAT
Found at i:800133 original size:33 final size:33
Alignment explanation
Indices: 800076--800157 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
800066 TATATTCGGG
800076 TCGGGTCGGGTCGGG-TTTTTTAAGTGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
*
800108 TCGGGTCGGATCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
800141 TCGGGTCGGGTCGGGTT
1 TCGGGTCGGGTCGGGTT
800158 CGGGTTTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 14 0.30
33 33 0.70
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.39
Consensus pattern (33 bp):
TCGGGTCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:800733 original size:18 final size:17
Alignment explanation
Indices: 800679--800742 Score: 101
Period size: 17 Copynumber: 3.7 Consensus size: 17
800669 TATGGAATTG
800679 GATTCCAATTCTTGACA
1 GATTCCAATTCTTGACA
800696 GATTCCAATTCTTGACA
1 GATTCCAATTCTTGACA
*
800713 GATTCCAATTCCTTCACA
1 GATTCCAATT-CTTGACA
*
800731 GATTCTAATTCT
1 GATTCCAATTCT
800743 CTCATAAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 29 0.66
18 15 0.34
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (17 bp):
GATTCCAATTCTTGACA
Found at i:801834 original size:3 final size:3
Alignment explanation
Indices: 801828--801865 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
801818 ATTAGTAATA
*
801828 ATT ATT ATT A-T ATC ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
801866 ATGTTACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:801847 original size:14 final size:14
Alignment explanation
Indices: 801828--801865 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
801818 ATTAGTAATA
801828 ATTATTATTA-TAT
1 ATTATTATTATTAT
801841 CATTATTATTATTAT
1 -ATTATTATTATTAT
801856 ATTATTATTA
1 ATTATTATTA
801866 ATGTTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTATTATTAT
Found at i:801850 original size:17 final size:17
Alignment explanation
Indices: 801828--801865 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
801818 ATTAGTAATA
801828 ATTATTATTATATCATT
1 ATTATTATTATATCATT
*
801845 ATTATTATTATATTATT
1 ATTATTATTATATCATT
801862 ATTA
1 ATTA
801866 ATGTTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTATTATATCATT
Found at i:806573 original size:20 final size:20
Alignment explanation
Indices: 806544--806581 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
806534 ACATTCACTC
806544 TCTTTAAGACCTTGAAACAT
1 TCTTTAAGACCTTGAAACAT
*
806564 TCTTTGAGACCTTGAAAC
1 TCTTTAAGACCTTGAAAC
806582 GTCGCCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
TCTTTAAGACCTTGAAACAT
Found at i:807199 original size:15 final size:15
Alignment explanation
Indices: 807179--807214 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
807169 TAAAAAAGAG
807179 AGAAAAGAAACAGAA
1 AGAAAAGAAACAGAA
*
807194 AGAAAATAAACAGAA
1 AGAAAAGAAACAGAA
807209 AGAAAA
1 AGAAAA
807215 AGGAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.03
Consensus pattern (15 bp):
AGAAAAGAAACAGAA
Found at i:807209 original size:21 final size:21
Alignment explanation
Indices: 807184--807226 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
807174 AAGAGAGAAA
*
807184 AGAAACAGAAA-GAAAATAAAC
1 AGAAACAAAAAGGAAAA-AAAC
*
807205 AGAAAGAAAAAGGAAAAAAAC
1 AGAAACAAAAAGGAAAAAAAC
807226 A
1 A
807227 AAGAAAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.74, C:0.07, G:0.16, T:0.02
Consensus pattern (21 bp):
AGAAACAAAAAGGAAAAAAAC
Found at i:807220 original size:11 final size:11
Alignment explanation
Indices: 807206--807254 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
807196 AAAATAAACA
807206 GAAAGAAAAAG
1 GAAAGAAAAAG
807217 G-AA-AAAAA-
1 GAAAGAAAAAG
*
807225 CAAAGAAAATAG
1 GAAAGAAAA-AG
*
807237 CAAAGAAAAAG
1 GAAAGAAAAAG
807248 GAAAGAA
1 GAAAGAA
807255 CAAAAGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.22
10 6 0.19
11 10 0.31
12 9 0.28
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.02
Consensus pattern (11 bp):
GAAAGAAAAAG
Found at i:808834 original size:38 final size:36
Alignment explanation
Indices: 808777--808917 Score: 153
Period size: 34 Copynumber: 3.9 Consensus size: 36
808767 TGTTTCTCTC
* *
808777 AAAATAAAATGTTGTCTCGCTAGAGACAACTTCTTTTGA
1 AAAACAAAAT-TTGTCTCGCTTGAGACAA-TT-TTTTGA
*
808816 AAAACAAAATTTGTCTCGCTTGAGACAATTTTCT-A
1 AAAACAAAATTTGTCTCGCTTGAGACAATTTTTTGA
* * *
808851 AAAA-AAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAAATTTGTCTCGCTTGAGACAATTTTTTGA
* *
808886 AAAAC-AAATTTCGTCTCACTTGAGACACTTTT
1 AAAACAAAATTT-GTCTCGCTTGAGACAATTTT
808918 CCTTTGAGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
34 25 0.29
35 15 0.17
36 19 0.22
37 2 0.02
38 17 0.20
39 9 0.10
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
AAAACAAAATTTGTCTCGCTTGAGACAATTTTTTGA
Found at i:808911 original size:70 final size:73
Alignment explanation
Indices: 808777--808918 Score: 193
Period size: 70 Copynumber: 2.0 Consensus size: 73
808767 TGTTTCTCTC
* *
808777 AAAATAAAATGTTGTCTCGCTAGAGACAACTTCTTTTGAAAAACAAAATTTGTCTCGCTTGAGAC
1 AAAATAAAATGTTGTCTCGCTAGAGACAACTTCTCTTGAAAAACAAAATTTGTCTCACTTGAGAC
808842 AATTTTCT
66 AATTTTCT
* * *
808850 AAAA-AAAATTTTGTCTCGTTTGAGACAA-TT-TCTTGAAAAAC-AAATTTCGTCTCACTTGAGA
1 AAAATAAAATGTTGTCTCGCTAGAGACAACTTCTCTTGAAAAACAAAATTT-GTCTCACTTGAGA
*
808911 CACTTTTC
65 CAATTTTC
808919 CTTTGAGATA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
69 6 0.10
70 29 0.47
71 2 0.03
72 21 0.34
73 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (73 bp):
AAAATAAAATGTTGTCTCGCTAGAGACAACTTCTCTTGAAAAACAAAATTTGTCTCACTTGAGAC
AATTTTCT
Found at i:809057 original size:36 final size:37
Alignment explanation
Indices: 808981--809057 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
808971 TTGAGATCGT
* * *
808981 TTTCTCTAAAAACAATTTTTTTGTCTCGTTTGAGACAA
1 TTTCTCTAAAAACAA-TATGTTGTCTCATTTGAGACAA
* *
809019 TTTCTCTAAAAACAA-ATGTTGTCTCATTTGTGATAA
1 TTTCTCTAAAAACAATATGTTGTCTCATTTGAGACAA
809055 TTT
1 TTT
809058 TCCAAATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 19 0.56
38 15 0.44
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (37 bp):
TTTCTCTAAAAACAATATGTTGTCTCATTTGAGACAA
Found at i:809207 original size:31 final size:30
Alignment explanation
Indices: 809172--809231 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
809162 CCTTGAAGCA
809172 GTTTCTCTAGAAATACAAA-ATCTTTGAGTTT
1 GTTTCTCT-GAAA-ACAAACATCTTTGAGTTT
*
809203 GTTTCTCTTAAAACAAACCATCTTTGAGT
1 GTTTCTCTGAAAACAAA-CATCTTTGAGT
809232 CGTTTCCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 3 0.12
31 18 0.69
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (30 bp):
GTTTCTCTGAAAACAAACATCTTTGAGTTT
Found at i:809318 original size:29 final size:28
Alignment explanation
Indices: 809269--809375 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 28
809259 TCTAGAGACA
*
809269 GTTTCTCTTGAAACAAAATCTTTGAGTCT
1 GTTTCTTTTGAAA-AAAATCTTTGAGTCT
*
809298 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTGAA-AAAAATCTTTGAGTCT
*
809326 GTTTATTTTG-AAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAAAATCTTTGAGTCT
* * *
809353 ATTTCTTTTGAAAGAAATTTTTG
1 GTTTCTTTTGAAAAAAATCTTTG
809376 TCTCTCTTGA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
26 14 0.21
27 10 0.15
28 19 0.28
29 23 0.34
30 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (28 bp):
GTTTCTTTTGAAAAAAATCTTTGAGTCT
Found at i:809430 original size:61 final size:62
Alignment explanation
Indices: 809334--809484 Score: 252
Period size: 61 Copynumber: 2.5 Consensus size: 62
809324 TTGTTTATTT
*
809334 TGAAAAAATCTTTGAGTCTATTTCTTTTGAAAGAAATTTTTGTCTCTCTTGAGACAAATTCA
1 TGAAAAAATCTTTGAGTCTATTTCTTTTGAAAGAAAGTTTTGTCTCTCTTGAGACAAATTCA
* *
809396 TG-AAAAATCTTTGAGTCTATTTCTTTTGAAAGAAAGTTTTGTCTCTCTTGAGACAATTTCG
1 TGAAAAAATCTTTGAGTCTATTTCTTTTGAAAGAAAGTTTTGTCTCTCTTGAGACAAATTCA
*
809457 TGAAAAAATCTTTGAGT-TGTTTCTTTTG
1 TGAAAAAATCTTTGAGTCTATTTCTTTTG
809485 GAACAAAAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
61 68 0.81
62 16 0.19
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (62 bp):
TGAAAAAATCTTTGAGTCTATTTCTTTTGAAAGAAAGTTTTGTCTCTCTTGAGACAAATTCA
Found at i:809502 original size:29 final size:30
Alignment explanation
Indices: 809460--809522 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
809450 AATTTCGTGA
*
809460 AAAAATCTTTGAGT-TGTTTCTTTTGG-AAC
1 AAAAATCTTTGAGTCGGTTTC-TTTGGAAAC
809489 AAAAATCTTTGAGTCGGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCGGTTTCTTTGGAAAC
809519 AAAA
1 AAAA
809523 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (30 bp):
AAAAATCTTTGAGTCGGTTTCTTTGGAAAC
Found at i:809511 original size:91 final size:96
Alignment explanation
Indices: 809398--809598 Score: 261
Period size: 91 Copynumber: 2.1 Consensus size: 96
809388 CAAATTCATG
* * * *
809398 AAAAATCTTTGAGTCTATTTCTTTTGAAAGAAAGTTTTGTCTCTCTTGAGACA-ATT-TCGTGAA
1 AAAAATCTTTGAGTCGATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACATATTCTCGTGAA
* * *
809461 A-AAATCTTTGAGT-TGTTTC-TTTTG-GAAC
66 ACAAATCTTTGAGTATG-CTCATTTTGAAAAA
* * *
809489 AAAAATCTTTGAGTCGGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACATTTTCTCTTGAA
1 AAAAATCTTTGAGTCGATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACATATTCTCGTGAA
809554 ACAAATCTTTGAGTATGCTCATTTTGAAAAA
66 ACAAATCTTTGAGTATGCTCATTTTGAAAAA
809585 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
809599 TTGTTTCTAC
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
91 48 0.51
92 2 0.02
93 7 0.07
94 14 0.15
95 7 0.07
96 16 0.17
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (96 bp):
AAAAATCTTTGAGTCGATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACATATTCTCGTGAA
ACAAATCTTTGAGTATGCTCATTTTGAAAAA
Found at i:810088 original size:133 final size:135
Alignment explanation
Indices: 809873--810215 Score: 433
Period size: 134 Copynumber: 2.6 Consensus size: 135
809863 AATTTTTATC
* * * * * * *
809873 CCTAAAGATGACCAAGAACTTTTCATCACATATGAGCAGTGTCATCCCCTGACCAGATCTCCTCA
1 CCTAAAAATGGCCAAGAACTCTTCATCACGTATGAGCAGTGCCATCCCCTGACCAAACCTCCTCA
* * * *
809938 TCGCGTAGGAGCCGTGTCA-CCCTAGATAATCAGTCATCCTCATCACGTAGGAACCGTGTTATCG
66 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
810002 CCCTT
131 CCCTT
* * * *
810007 CTTAAAAATGGCC-AGAATTCTTCATCACGTATGAGCCGTGCCATTCCCC-GGCCAAACCTCCTC
1 CCTAAAAATGGCCAAGAACTCTTCATCACGTATGAGCAGTGCCA-TCCCCTGACCAAACCTCCTC
* *
810070 ATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCGCGTAGGAACCGAGTTATC
65 ATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATC
810135 ACCCTT
130 ACCCTT
* * * * **
810141 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCAAC-AACCAAATTTCCTC
1 CCTAAAAATGGCCAAGAACTCTTCATCACGTATGAGCAGTGCCATCC-CCTGACCAAACCTCCTC
810205 ATCACGTAGGA
65 ATCACGTAGGA
810216 ATAATGTCAC
Statistics
Matches: 178, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
133 55 0.31
134 74 0.42
135 49 0.28
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (135 bp):
CCTAAAAATGGCCAAGAACTCTTCATCACGTATGAGCAGTGCCATCCCCTGACCAAACCTCCTCA
TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCA
CCCTT
Found at i:810440 original size:3 final size:3
Alignment explanation
Indices: 810434--810471 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
810424 AGTAATAATA
*
810434 ATT ATT A-T ATC ATT ATT ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
810472 ATGTTACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:810450 original size:11 final size:10
Alignment explanation
Indices: 810434--810471 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
810424 AGTAATAATA
810434 ATTATTATAT
1 ATTATTATAT
810444 CATTATTATTAT
1 -ATTATTA-TAT
810456 ATTATTAT-T
1 ATTATTATAT
810465 ATTATTA
1 ATTATTA
810472 ATGTTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 1 0.04
11 14 0.54
12 3 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATTATAT
Found at i:810453 original size:14 final size:14
Alignment explanation
Indices: 810434--810469 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
810424 AGTAATAATA
810434 ATTATTATATCATT
1 ATTATTATATCATT
*
810448 ATTATTATATTATT
1 ATTATTATATCATT
810462 ATTATTAT
1 ATTATTAT
810470 TAATGTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTATATCATT
Found at i:816728 original size:31 final size:31
Alignment explanation
Indices: 816669--816729 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
816659 ACACCATCAA
*
816669 AAAACAAAATAATTGTTCCTCATAAACCCTG
1 AAAACAAAATAATTGTTCCTAATAAACCCTG
* * * *
816700 AAAACAAATTACTTGTTCTTAATGAACCCT
1 AAAACAAAATAATTGTTCCTAATAAACCCT
816730 AACTCAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (31 bp):
AAAACAAAATAATTGTTCCTAATAAACCCTG
Found at i:818728 original size:19 final size:19
Alignment explanation
Indices: 818706--818755 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
818696 TAAATTCGCA
818706 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
818725 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
818744 TTGCGAATTTGA
1 TTGCGAATTTGA
818756 CTTTCGCGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (19 bp):
TTGCGAATTTGAAATTCAG
Found at i:842756 original size:21 final size:20
Alignment explanation
Indices: 842729--842827 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
842719 AATCAGTTTC
842729 CAAAATCGCAATGCGATTCTT
1 CAAAATCGCAATGCGATT-TT
* * *
842750 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAATGCGAT-TTT
* *
842771 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAATGCGATTTT
* * *
842791 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAATGCGATTTT
* *
842812 GAAAATCGCAACGCGA
1 CAAAATCGCAATGCGA
842828 ACACATAAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 17 0.27
21 45 0.73
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAATGCGATTTT
Found at i:843010 original size:20 final size:20
Alignment explanation
Indices: 842795--843015 Score: 228
Period size: 20 Copynumber: 11.1 Consensus size: 20
842785 GATTTTCAAG
** *
842795 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
842815 AATCGCAACGCGAA-CACATA
1 AATCGCAACGCGAATC-CGTA
*
842835 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* * *
842855 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
842875 AATCGCAACGCGTATCCGTC
1 AATCGCAACGCGAATCCGTA
* *
842895 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
842915 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
**
842935 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
842955 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
**
842975 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
842995 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGAATCCGTA
843015 A
1 A
843016 TTCACAACAC
Statistics
Matches: 174, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 173 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:843755 original size:24 final size:24
Alignment explanation
Indices: 843716--843762 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
843706 AAATTTGGTC
843716 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
843740 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
843763 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:846343 original size:53 final size:51
Alignment explanation
Indices: 846310--846512 Score: 343
Period size: 53 Copynumber: 3.9 Consensus size: 51
846300 CGGAAATGAA
* *
846310 AATCGCAATGCGAAATGAAAATTGCAATGTGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC-AGAG
846362 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC-AGAG
846415 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC-AGAG
846467 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCA
846513 TTGCGATTCT
Statistics
Matches: 147, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
52 63 0.43
53 84 0.57
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACAGAG
Found at i:846366 original size:72 final size:72
Alignment explanation
Indices: 846257--846490 Score: 261
Period size: 72 Copynumber: 3.3 Consensus size: 72
846247 GCAACGAGAG
846257 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATACGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATACGGAAATGAAAATCGCAATGCG
846322 AAATGAA
66 AAATGAA
* * * * *
846329 AATTGCAATGTGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATACGGAAATGAAAATCGCAATGC
846393 GAAATGAA
65 GAAATGAA
* * * * * *
846401 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATACGGAAATGAAAATCGCAATG
*
846461 CG--A-GAG
64 CGAAATGAA
846467 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
846491 GCAATGCGAA
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 17 0.12
72 88 0.64
73 9 0.07
74 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATACGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:846419 original size:105 final size:109
Alignment explanation
Indices: 846243--846513 Score: 418
Period size: 105 Copynumber: 2.6 Consensus size: 109
846233 CGGAAATTAC
*
846243 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAATACG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGC-ATACG
* *
846302 GAAATGAAAATCGCAATGCGAAATGAAAATTGCAATGTGAAATGAA
65 G-AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
846348 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA-AC-G
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCATACGG
*
846411 -A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
66 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
846453 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAT
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAT
846514 TGCGATTCTC
Statistics
Matches: 155, Mismatches: 4, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
105 123 0.79
106 16 0.10
108 2 0.01
109 2 0.01
110 1 0.01
111 11 0.07
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (109 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCATACGG
AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:846518 original size:72 final size:69
Alignment explanation
Indices: 846224--846517 Score: 237
Period size: 72 Copynumber: 4.2 Consensus size: 69
846214 GCATTTGACT
** * * *
846224 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAAC-AT
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAACGAT
846287 GAAA
66 GAAA
* * * *
846291 ATCGCAATACGGAAATGAAAATCGCAATGCGAAATGAAAATTGCAATG-TGAAATGAAAATCGCA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGGAAATGAAAATCGCA
*
846355 ACGA-GAGA
61 ACGATGAAA
* * * * *
846363 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGA-GAGAATCGCAAT
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGGAA--ATGAAAATCGCAA-
846424 GCGAAATGAAA
62 -CG--ATGAAA
846435 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAA--CG
846499 AAATGAAA
64 --ATGAAA
*
846507 ATCGCATTGCG
1 ATCGCAATGCG
846518 ATTCTCTCGT
Statistics
Matches: 185, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
65 1 0.01
66 8 0.04
67 36 0.19
68 1 0.01
69 4 0.02
70 1 0.01
71 22 0.12
72 106 0.57
73 6 0.03
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (69 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAACGAT
GAAA
Found at i:846552 original size:53 final size:52
Alignment explanation
Indices: 846489--846604 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
846479 GAAATGAAAA
*
846489 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
846541 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
846594 TCGCATTGCGA
1 TCGCATTGCGA
846605 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:846621 original size:52 final size:53
Alignment explanation
Indices: 846508--846624 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
846498 GAAATGAAAA
846508 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
846561 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
846613 TCGCATTGCGAT
1 TCGCATTGCGAT
846625 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:846632 original size:19 final size:19
Alignment explanation
Indices: 846527--846624 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
846517 GATTCTCTCG
846527 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
846547 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
846566 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
846580 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
846599 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
846618 TTGCGAT
1 TTGCGAT
846625 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:846749 original size:14 final size:14
Alignment explanation
Indices: 846730--846767 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
846720 GCATCAATTA
846730 CACAAATCAACTTT
1 CACAAATCAACTTT
*
846744 CACAAATCATCTTT
1 CACAAATCAACTTT
*
846758 TACAAATCAA
1 CACAAATCAA
846768 TTAAACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
CACAAATCAACTTT
Found at i:848734 original size:19 final size:19
Alignment explanation
Indices: 848692--848845 Score: 121
Period size: 19 Copynumber: 8.6 Consensus size: 19
848682 TAGTTTACTT
* *
848692 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
848712 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
848731 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
848750 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
848769 TCGCAA--TGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
848783 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
848802 TTGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
848816 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
848835 TCGCAATGCGA
1 TCGCAACGCGA
848846 TTTTGGTTTC
Statistics
Matches: 105, Mismatches: 19, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
14 17 0.16
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 62 0.59
20 12 0.11
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:848794 original size:33 final size:33
Alignment explanation
Indices: 848710--848842 Score: 158
Period size: 33 Copynumber: 3.9 Consensus size: 33
848700 CGAAACTTAA
* * *
848710 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAA--TG--A-CAG
848748 AATCGCAACGCGAAATGAAAATCGCAATGACAG
1 AATCGCAACGCGAAATGAAAATCGCAATGACAG
* * * *
848781 AATCGCAATGCGAAATGAAAATTGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAATGACAG
848814 AATCGCAACGCGAAATGAAAATCGCAATG
1 AATCGCAACGCGAAATGAAAATCGCAATG
848843 CGATTTTGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
33 57 0.67
34 1 0.01
36 1 0.01
38 26 0.31
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAATGACAG
Found at i:848837 original size:52 final size:51
Alignment explanation
Indices: 848709--848845 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
848699 ACGAAACTTA
* * * *
848709 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * ** *
848760 AAAT-GAAAATCGCAATGACAGAATCGCAATGCGAAATGAAAATTGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
848812 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
848846 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
50 10 0.15
51 4 0.06
52 39 0.58
53 4 0.06
54 10 0.15
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:848865 original size:19 final size:19
Alignment explanation
Indices: 848841--848899 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
848831 AAAATCGCAA
848841 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
848860 TACGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
848874 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
848893 TGCGATT
1 TGCGATT
848900 CTGTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.55
ACGTcount: A:0.08, C:0.15, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:848879 original size:14 final size:14
Alignment explanation
Indices: 848857--848947 Score: 56
Period size: 14 Copynumber: 5.9 Consensus size: 14
848847 TTTGGTTTCG
*
848857 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
848871 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
848888 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
*
848904 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
* *
848920 CGCGTTGCGATTCTCT
1 --CGTTGCGATTTTGT
848936 CGTTGCGATTTT
1 CGTTGCGATTTT
848948 AAGTTTCGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 32 0.52
15 1 0.02
16 5 0.08
17 1 0.02
18 11 0.18
19 11 0.18
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:848883 original size:33 final size:33
Alignment explanation
Indices: 848841--848963 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
848831 AAAATCGCAA
* *
848841 TGCGATTTTGGTTTCGCGTTACGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
848874 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
848907 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
848939 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
848964 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
32 29 0.36
33 39 0.49
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:848926 original size:32 final size:32
Alignment explanation
Indices: 848852--848946 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
848842 GCGATTTTGG
* * **
848852 TTTCGCGTTACGATTTTGTCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTCTGTCGTTGCGA-TTTCA
848885 TTTCGCGTTGCGATTCTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTCTGTCGTTGCGATTTCA
*
848917 TTTCGCGTTGCGATTCTCTCGTTGCGATTT
1 TTTCGCGTTGCGATTCTGTCGTTGCGATTT
848947 TAAGTTTCGT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 32 0.56
33 25 0.44
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.46
Consensus pattern (32 bp):
TTTCGCGTTGCGATTCTGTCGTTGCGATTTCA
Found at i:849220 original size:93 final size:93
Alignment explanation
Indices: 849061--849376 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
849051 TCAGGGTATT
849061 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
849126 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
849154 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
849219 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
849247 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
849312 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
849340 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
849377 AAGCAATCTA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:851091 original size:20 final size:20
Alignment explanation
Indices: 851060--851156 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
851050 TTTTGGTTGA
851060 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
851080 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
851100 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
* *
851119 -A-G--AACCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
851134 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
851154 AAT
1 AAT
851157 CGCAACGCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
14 8 0.13
16 4 0.07
17 2 0.03
19 14 0.23
20 20 0.33
21 12 0.20
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:851112 original size:21 final size:21
Alignment explanation
Indices: 851058--851122 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
851048 TCTTTTGGTT
851058 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
851079 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
851099 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
851120 GAA
1 GAA
851123 CCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:851138 original size:33 final size:33
Alignment explanation
Indices: 851058--851180 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
851048 TCTTTTGGTT
*
851058 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--AC---CGCAAC--GC
851099 GAAATGAAAATCGCAACGAGAGAACCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAACCGCAACGC
*
851132 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAACCGCAACGC
851165 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
851181 TACGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
33 49 0.61
35 6 0.08
38 2 0.03
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAACCGCAACGC
Found at i:851159 original size:14 final size:14
Alignment explanation
Indices: 851107--851163 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
851097 GAGAAATGAA
851107 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
851121 AACCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
851140 AATCGCAACGAGAG
1 AATCGCAACGAGAG
851154 AATCGCAACG
1 AATCGCAACG
851164 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.25, G:0.25, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:851216 original size:14 final size:14
Alignment explanation
Indices: 851197--851253 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
851187 TTTGGTTTCG
851197 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
851211 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
851230 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
851244 CGTTGCGATT
1 CGTTGCGATT
851254 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:851229 original size:33 final size:33
Alignment explanation
Indices: 851183--851261 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
851173 AATCGCAATA
**
851183 CGATTTTGGTTTCGCGTTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
851216 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
851249 CGATTTTCATTTC
1 CGATTTTCATTTC
851262 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.09, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTCTCTCGTTG
Found at i:851264 original size:21 final size:21
Alignment explanation
Indices: 851238--851313 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
851228 CGCGTTGCGA
851238 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
851259 TTCTCTCGTTGCGACAATCA-
1 TTCTCTCGTTGCGATTTTCAT
851279 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
851300 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
851314 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:851294 original size:41 final size:41
Alignment explanation
Indices: 851237--851314 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
851227 TCGCGTTGCG
*
851237 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAATC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAATC
851278 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
851315 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAATC
Found at i:851435 original size:33 final size:33
Alignment explanation
Indices: 851393--851463 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
851383 AATACTAACT
851393 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
851426 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
851459 TGAAA
1 TGAAA
851464 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:851868 original size:20 final size:20
Alignment explanation
Indices: 851843--852035 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
851833 CTTTAAAAAT
851843 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
851863 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
851883 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
851904 TGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
851924 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
851944 CGCGTTGCAATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
851964 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
851984 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
852004 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
852024 CGCGTTGCGATT
1 CGCGTTGCGATT
852036 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 131 0.87
21 19 0.13
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:852602 original size:46 final size:46
Alignment explanation
Indices: 852549--852640 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
852539 AGTCATAATA
*
852549 TAATCTCAAATACAATAAGGATTTTGATTGAAATATAAGGTCTAAC
1 TAATCTCAAATACAATAAGGATTTTGATTGAAATATAAGGCCTAAC
*
852595 TAATCTCAAATGCAATAAGGATTTTGATTGAAATATAAGGCCTAAC
1 TAATCTCAAATACAATAAGGATTTTGATTGAAATATAAGGCCTAAC
852641 AGAAGTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (46 bp):
TAATCTCAAATACAATAAGGATTTTGATTGAAATATAAGGCCTAAC
Found at i:859080 original size:12 final size:12
Alignment explanation
Indices: 859063--859095 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
859053 CCCTCTGCCT
859063 TTAAAACAGATA
1 TTAAAACAGATA
859075 TTAAAACAGATA
1 TTAAAACAGATA
859087 TTAAAACAG
1 TTAAAACAG
859096 CATCGACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (12 bp):
TTAAAACAGATA
Found at i:877938 original size:15 final size:16
Alignment explanation
Indices: 877918--877951 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
877908 CTTCGATATA
877918 TAAAAAATA-ATTTAT
1 TAAAAAATATATTTAT
877933 TAAAAAATATTATTTAT
1 TAAAAAATA-TATTTAT
877950 TA
1 TA
877952 TTCATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAAATATATTTAT
Found at i:878021 original size:20 final size:21
Alignment explanation
Indices: 877998--878044 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
877988 AAATTATTTA
877998 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* *
878018 AATA-AAAATACAATTAGAAC
1 AATATATAATACAATTAAAAC
878038 AATATAT
1 AATATAT
878045 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:879369 original size:3 final size:3
Alignment explanation
Indices: 879361--879466 Score: 158
Period size: 3 Copynumber: 34.7 Consensus size: 3
879351 TTATTTATTA
*
879361 AAT AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT
* * *
879408 ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
879456 AAT AAT AAT AA
1 AAT AAT AAT AA
879467 AATGGATAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
3 87 0.94
4 6 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:880025 original size:113 final size:113
Alignment explanation
Indices: 879763--880330 Score: 859
Period size: 113 Copynumber: 5.0 Consensus size: 113
879753 GATATCAAAC
* *
879763 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * * *
879828 ATGAACTTCTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 ATGAAC-T-TTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
*
879878 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
879943 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
*
879991 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
880056 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
880104 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTC
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * * * *
880169 ATTATGAACTCTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCA
63 ATTATGAA--CTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
880222 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
880287 ATGAACTTTCTCTGGAAATA-ATGATCTAACAAATGATGGATTCA
66 ATGAACTTTCTCTGGAAA-AGATGATCCACCAAATGATGGATTCA
880331 TCTTTGCTAA
Statistics
Matches: 417, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
113 221 0.53
114 1 0.00
115 87 0.21
116 19 0.05
118 89 0.21
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
Found at i:880266 original size:231 final size:226
Alignment explanation
Indices: 879763--880330 Score: 859
Period size: 231 Copynumber: 2.5 Consensus size: 226
879753 GATATCAAAC
* *
879763 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * *
879828 ATGAACTTCTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGT
66 ATGAAC-T-TTCTCTGGAAAAGATGATCCAACAAATGATGGATTCAAACAAAAAGTTGAACAAGT
879893 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
129 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * *
879958 AAAAGATGATCCACCAAATGATGGATTCAGGTA
194 AAAAGATGATCCACCAAATGATGAATTCAAGCA
*
879991 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
880056 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCAAAAGGTTGAACAAGTTC
66 ATGAACTTTCTCTGGAAAAGATGATCCAACAAATGATGGATTCAAACAAAAAGTTGAACAAGTTC
880121 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTTCTC
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAA--CTTTCTC
* * * *
880186 TGGAAATGTTGATCCATCAAGTGATGAATTCAAGCA
191 TGGAAAAGATGATCCACCAAATGATGAATTCAAGCA
880222 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
880287 ATGAACTTTCTCTGGAAATA-ATGATCTAACAAATGATGGATTCA
66 ATGAACTTTCTCTGGAAA-AGATGATCCAACAAATGATGGATTCA
880331 TCTTTGCTAA
Statistics
Matches: 311, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
226 82 0.26
227 1 0.00
228 68 0.22
229 19 0.06
231 140 0.45
232 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (226 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCAACAAATGATGGATTCAAACAAAAAGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
AAGATGATCCACCAAATGATGAATTCAAGCA
Found at i:881011 original size:52 final size:52
Alignment explanation
Indices: 880946--881574 Score: 1129
Period size: 52 Copynumber: 12.1 Consensus size: 52
880936 TCTAAATTCA
880946 ATGCT-TGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
880998 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
881050 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881102 ATGCTATGTTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881153 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
881205 ATGCTTTGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881257 ATGCTATGTTCTTTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881309 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
881361 ATGCTATGTTTTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881413 ATGCTATGTTCTTTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881465 ATGCTATGTTCTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
881517 ATGCTATGTTCTG-CTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
881568 ATGCTAT
1 ATGCTAT
881575 TGAGCACATA
Statistics
Matches: 558, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
51 93 0.17
52 463 0.83
53 2 0.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (52 bp):
ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:882141 original size:19 final size:20
Alignment explanation
Indices: 882119--882160 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
882109 AATAGAAAAG
*
882119 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
882138 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
882158 AAT
1 AAT
882161 TGAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:893104 original size:17 final size:17
Alignment explanation
Indices: 893065--893106 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
893055 ATACTTGCAA
893065 ATAAAACATATAAATATT
1 ATAAAA-ATATAAATATT
893083 ATAAAAATAATAAATA-T
1 ATAAAAAT-ATAAATATT
893100 ATAAAAA
1 ATAAAAA
893107 AAAATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATATAAATATT
Found at i:893784 original size:15 final size:16
Alignment explanation
Indices: 893764--893797 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
893754 CTTCGATATA
893764 TAAAAAATA-ATTTAT
1 TAAAAAATATATTTAT
893779 TAAAAAATATTATTTAT
1 TAAAAAATA-TATTTAT
893796 TA
1 TA
893798 TTCATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAAATATATTTAT
Found at i:893867 original size:20 final size:21
Alignment explanation
Indices: 893844--893890 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
893834 AAATTATTTA
893844 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* *
893864 AATA-AAAATACAATTAGAAC
1 AATATATAATACAATTAAAAC
893884 AATATAT
1 AATATAT
893891 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:895208 original size:3 final size:3
Alignment explanation
Indices: 895200--895304 Score: 149
Period size: 3 Copynumber: 34.7 Consensus size: 3
895190 TTATTTATTA
*
895200 AAT AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT
* * *
895247 ATT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT ATT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
895294 AAT AAT AAT AA
1 AAT AAT AAT AA
895305 AATGGATAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
2 2 0.02
3 83 0.91
4 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:901856 original size:36 final size:34
Alignment explanation
Indices: 901799--901885 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 34
901789 ATTTTGATAT
901799 ATTTAATTTTTTAATTTTTTTAAAATCATA-TCTAAA
1 ATTTAA-TTTTTAATTTTTTTAAAAT-ATATTC-AAA
*
901835 ATTTAATTTTT-ATTTCATTTTAATATATATTCAAA
1 ATTTAATTTTTAATTT--TTTTAAAATATATTCAAA
*
901870 ATTTAATGTTATAATT
1 ATTTAAT-TTTTAATT
901886 AAAAAAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 4 0.09
35 18 0.41
36 19 0.43
37 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (34 bp):
ATTTAATTTTTAATTTTTTTAAAATATATTCAAA
Found at i:901871 original size:35 final size:35
Alignment explanation
Indices: 901799--901885 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 35
901789 ATTTTGATAT
901799 ATTTAATTTTTTAATTTTTTTAAAATCATATCTAAA
1 ATTTAA-TTTTTAATTTTTTTAAAATCATATCTAAA
*
901835 ATTTAATTTTT-ATTTCATTTTAATAT-ATAT-TCAAA
1 ATTTAATTTTTAATTT--TTTTAAAATCATATCT-AAA
*
901870 ATTTAATGTTATAATT
1 ATTTAAT-TTTTAATT
901886 AAAAAAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 5 0.11
35 19 0.43
36 17 0.39
37 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (35 bp):
ATTTAATTTTTAATTTTTTTAAAATCATATCTAAA
Found at i:903873 original size:172 final size:175
Alignment explanation
Indices: 903587--903934 Score: 675
Period size: 172 Copynumber: 2.0 Consensus size: 175
903577 AGCACAGATT
903587 TGTAAAATGCTCACCTCAGTCGGGTGCGTCATCTTCGAATGGTATAAAGTCGATGGTAAATAGTA
1 TGTAAAATGCTCACCTCAGTCGGGTGCGTCATCTTCGAATGGTATAAAGTCGATGGTAAATAGTA
903652 AATACAAATACTTCCCCTCTCGTTGCTGCTGACATGTAATCGTCTATTTCCTAAATATATAT-CA
66 AATACAAATACTTCCCCTCTCGTTGCTGCTGACATGTAATCGTCTATTTCCTAAATATATATACA
903716 TGCAGGATATG-CCCTTAGTCCTGGATGTT-GTTTTTGGCAAAAA
131 TGCAGGATATGCCCCTTAGTCCTGGATGTTAGTTTTTGGCAAAAA
903759 TGTAAAATGCTCACCTCAGTCGGGTGCGTCATCTTCGAATGGTATAAAGTCGATGGTAAATAGTA
1 TGTAAAATGCTCACCTCAGTCGGGTGCGTCATCTTCGAATGGTATAAAGTCGATGGTAAATAGTA
903824 AATACAAATACTTCCCCTCTCGTTGCTGCTGACATGTAATCGTCTATTTCCTAAATATATATACA
66 AATACAAATACTTCCCCTCTCGTTGCTGCTGACATGTAATCGTCTATTTCCTAAATATATATACA
903889 TGCAGGATATGCCCCTTAGTCCTGGATGTTAGTTTTTGGCAAAAA
131 TGCAGGATATGCCCCTTAGTCCTGGATGTTAGTTTTTGGCAAAAA
903934 T
1 T
903935 TGGCCAAATC
Statistics
Matches: 173, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
172 127 0.73
173 13 0.08
174 18 0.10
175 15 0.09
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
TGTAAAATGCTCACCTCAGTCGGGTGCGTCATCTTCGAATGGTATAAAGTCGATGGTAAATAGTA
AATACAAATACTTCCCCTCTCGTTGCTGCTGACATGTAATCGTCTATTTCCTAAATATATATACA
TGCAGGATATGCCCCTTAGTCCTGGATGTTAGTTTTTGGCAAAAA
Found at i:909772 original size:22 final size:22
Alignment explanation
Indices: 909747--909794 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
909737 AAGTCTCTGG
909747 GCATTTCCTTGCTCTTCTCCGA
1 GCATTTCCTTGCTCTTCTCCGA
909769 GCATTTCCTTGCTCTTCTCCGA
1 GCATTTCCTTGCTCTTCTCCGA
909791 GCAT
1 GCAT
909795 CACCCCTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.35, G:0.15, T:0.40
Consensus pattern (22 bp):
GCATTTCCTTGCTCTTCTCCGA
Found at i:912897 original size:26 final size:26
Alignment explanation
Indices: 912876--912933 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
912866 ATACTTCATG
912876 AAAAAAAATAAAGGTCAAACTTAAAT
1 AAAAAAAATAAAGGTCAAACTTAAAT
912902 AAAAAAAATAAAGGTCAAACTTAAA-
1 AAAAAAAATAAAGGTCAAACTTAAAT
912927 AAAAAAA
1 AAAAAAA
912934 TCTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.16
Consensus pattern (26 bp):
AAAAAAAATAAAGGTCAAACTTAAAT
Found at i:914698 original size:30 final size:30
Alignment explanation
Indices: 914662--914729 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
914652 TTAAATTTAC
914662 ATCTTAACGTTAAAAATATATTTTATTCTT
1 ATCTTAACGTTAAAAATATATTTTATTCTT
914692 ATCTTAACGTTAAAAATATATTTTATTCTT
1 ATCTTAACGTTAAAAATATATTTTATTCTT
914722 ATCTTAAC
1 ATCTTAAC
914730 TAAAGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.49
Consensus pattern (30 bp):
ATCTTAACGTTAAAAATATATTTTATTCTT
Found at i:914803 original size:34 final size:34
Alignment explanation
Indices: 914747--914814 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
914737 AAAAAAATAT
* * *
914747 ATTTGAATCTTAAATTCATATTTTTATTTTTTAA
1 ATTTAAATATTAAATTCATATTTTTAATTTTTAA
*
914781 ATTTAAATATTAAATTCTTATTTTTAATTTTTAA
1 ATTTAAATATTAAATTCATATTTTTAATTTTTAA
914815 TTCATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (34 bp):
ATTTAAATATTAAATTCATATTTTTAATTTTTAA
Found at i:914822 original size:20 final size:20
Alignment explanation
Indices: 914793--914834 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
914783 TTAAATATTA
*
914793 AATTCTTATTTTTAATTTTT
1 AATTCATATTTTTAATTTTT
*
914813 AATTCATATTTTTATTTTTT
1 AATTCATATTTTTAATTTTT
914833 AA
1 AA
914835 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
AATTCATATTTTTAATTTTT
Found at i:915081 original size:19 final size:18
Alignment explanation
Indices: 915052--915090 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
915042 GATTTGAATT
915052 TAAGTTAAAGATATACAC
1 TAAGTTAAAGATATACAC
*
915070 TAAGTTATAAGATATATAC
1 TAAGTTA-AAGATATACAC
915089 TA
1 TA
915091 CATGTAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (18 bp):
TAAGTTAAAGATATACAC
Found at i:923973 original size:72 final size:72
Alignment explanation
Indices: 923887--924029 Score: 286
Period size: 72 Copynumber: 2.0 Consensus size: 72
923877 TAAAAGCGGA
923887 AAAATAATACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACCTCTCCGGACTACTGCGG
1 AAAATAATACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACCTCTCCGGACTACTGCGG
923952 ATCTTTG
66 ATCTTTG
923959 AAAATAATACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACCTCTCCGGACTACTGCGG
1 AAAATAATACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACCTCTCCGGACTACTGCGG
924024 ATCTTT
66 ATCTTT
924030 TACTAAGAGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (72 bp):
AAAATAATACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACCTCTCCGGACTACTGCGG
ATCTTTG
Found at i:925797 original size:18 final size:17
Alignment explanation
Indices: 925769--925802 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
925759 GTACCAATGG
925769 CTTTTTCTTGGTTTTCA
1 CTTTTTCTTGGTTTTCA
925786 CTTTTGTCTTGGTTTTC
1 CTTTT-TCTTGGTTTTC
925803 TCGATTGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.03, C:0.18, G:0.15, T:0.65
Consensus pattern (17 bp):
CTTTTTCTTGGTTTTCA
Found at i:927427 original size:29 final size:29
Alignment explanation
Indices: 927393--927465 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
927383 TATTTAAGGC
927393 TTCTAAACTCTTAAATTTTA-A-CTAAAAAA
1 TTCTAAA-TCTTAAATTTTAGATCT-AAAAA
* * *
927422 TTCTAAAT-GTAAACTTTAGATCTAAAAG
1 TTCTAAATCTTAAATTTTAGATCTAAAAA
927450 TTCTAAATCTTAAATT
1 TTCTAAATCTTAAATT
927466 AAATAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 8 0.22
28 14 0.39
29 14 0.39
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (29 bp):
TTCTAAATCTTAAATTTTAGATCTAAAAA
Found at i:933008 original size:9 final size:9
Alignment explanation
Indices: 932994--933052 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
932984 GTGGCTGAAA
932994 ACCGGTTTG
1 ACCGGTTTG
*
933003 ACCGGTTCG
1 ACCGGTTTG
* *
933012 AACCAGTCTG
1 -ACCGGTTTG
*
933022 ACCGGTCTTA
1 ACCGGT-TTG
933032 ACCGGTTTG
1 ACCGGTTTG
*
933041 ACCGGTCTG
1 ACCGGTTTG
933050 ACC
1 ACC
933053 CGACCCAACC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 26 0.67
10 13 0.33
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.25
Consensus pattern (9 bp):
ACCGGTTTG
Done.