Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 96 of 373
Found at i:31065977 original size:30 final size:30
Alignment explanation
Indices: 31065943--31066019 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
31065933 GCATAAGGGT
* *
31065943 AAAATGGCCATTTTGCCAAAGTCTAGGGGC
1 AAAATGGTCATTTTACCAAAGTCTAGGGGC
31065973 AAAATGGTCATTTTACCAAAGTCTAGGGGC
1 AAAATGGTCATTTTACCAAAGTCTAGGGGC
31066003 AAAATGGTCATTTTACC
1 AAAATGGTCATTTTACC
31066020 TGTAACACCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAATGGTCATTTTACCAAAGTCTAGGGGC
Found at i:31066763 original size:38 final size:38
Alignment explanation
Indices: 31066707--31066800 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 38
31066697 CTCAACATGT
*
31066707 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAC
* * **
31066746 ACTGGGTCGAAGCCTTTTCATTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
31066784 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
31066801 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
38 39 0.80
39 10 0.20
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
Found at i:31067044 original size:24 final size:24
Alignment explanation
Indices: 31067008--31067111 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
31066998 TTGGAGGCCT
*
31067008 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
31067033 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31067057 ATCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31067080 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31067103 AGCCCTTTT
1 AGCCCTTTT
31067112 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:31067186 original size:20 final size:20
Alignment explanation
Indices: 31067161--31067227 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
31067151 TTATGAATAC
31067161 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31067181 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
31067201 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31067221 ACCATGT
1 ATCATGT
31067228 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31069515 original size:46 final size:46
Alignment explanation
Indices: 31069410--31069637 Score: 160
Period size: 46 Copynumber: 4.8 Consensus size: 46
31069400 GCCACATTAT
* *
31069410 GAGAGCCAGTGTAAGACTATGTCTGGGAAATGGCATCGGCATTGATAC
1 GAGAGCCAGTGTAAGAC-ATGTCTGGGAAAT-GCATCGGCATCGAGAC
* * * *
31069458 GAGAGCTAGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGAAATGCATCGGCATCGAGAC
* * *
31069504 GTA-AGCCAGTGTAAGACATGTCTGGGACATGCATTGGC-TACGATG-T
1 G-AGAGCCAGTGTAAGACATGTCTGGGAAATGCATCGGCAT-CGA-GAC
* * * * * * * *
31069550 GATAGTCAATGTAAGACCATGTTTGGGACATGGCATTGAC-TTGAGA-
1 GAGAGCCAGTGTAAGA-CATGTCTGGGAAAT-GCATCGGCATCGAGAC
* *
31069596 TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GA-GAGCCAGTGTAAGA-CATGTCTGGGAAAT-GCATCGGCA
31069638 CCTTACCCAC
Statistics
Matches: 148, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 62 0.42
47 60 0.41
48 24 0.16
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGAAATGCATCGGCATCGAGAC
Found at i:31069610 original size:47 final size:47
Alignment explanation
Indices: 31069407--31069632 Score: 162
Period size: 47 Copynumber: 4.8 Consensus size: 47
31069397 TCGGCCACAT
* * * * *
31069407 TATGAGAGCCAGTGTAAGACTATGTCTGGGAAATGGCATCGGC-ATTGA
1 TATGA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTA-CGA
* * * * * *
31069455 TACGAGAGCTAGTGTAAGA-CATGTCTAGGATAT-GCATCGGCCT-CGA
1 TATGA-AGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTACGA
* * *
31069501 GACGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACGA
1 TATG-AAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTACGA
* * * *
31069547 TGTGATAGTCAATGTAAGACCATGTTTGGGACATGGCATTGACTTGA-GA
1 TATGA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-T-ACGA
31069596 TATG-AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TATGAAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
31069633 CGGCACCTTA
Statistics
Matches: 144, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
45 4 0.03
46 52 0.36
47 57 0.40
48 24 0.17
49 6 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
TATGAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTACGA
Found at i:31076108 original size:21 final size:21
Alignment explanation
Indices: 31076046--31076108 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
31076036 AAATGATTTT
* **
31076046 TATTTTT-GAAATTTATTTAA
1 TATTTTTAAAAATTTATAAAA
*
31076066 TATTTTTATAAATTT-TAAAAA
1 TATTTTTAAAAATTTAT-AAAA
*
31076087 TGTTTTTAAAAATTTATAAAA
1 TATTTTTAAAAATTTATAAAA
31076108 T
1 T
31076109 TTAAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.23
21 26 0.74
22 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAAATTTATAAAA
Found at i:31076128 original size:30 final size:29
Alignment explanation
Indices: 31076070--31076127 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
31076060 ATTTAATATT
* *
31076070 TTTATAAATTTTAAAAATGTTTTTAAAAA
1 TTTATAAAATTTAAAAATATTTTTAAAAA
31076099 TTTATAAAATTTAAAAATATTTTTAAAAA
1 TTTATAAAATTTAAAAATATTTTTAAAAA
31076128 AATTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTATAAAATTTAAAAATATTTTTAAAAA
Found at i:31076454 original size:11 final size:12
Alignment explanation
Indices: 31076433--31076457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31076423 CCCCTAGCTC
31076433 TTTCTTTTTTTT
1 TTTCTTTTTTTT
31076445 TTTCTTTTTTTT
1 TTTCTTTTTTTT
31076457 T
1 T
31076458 AATCTTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:31079726 original size:29 final size:30
Alignment explanation
Indices: 31079693--31079759 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
31079683 TCTATGACTT
31079693 GATCAAATTAATATTTCTACTATTAAAT-G
1 GATCAAATTAATATTTCTACTATTAAATAG
* * * *
31079722 GATCAATTTAATCTTTGTACTGTTAAATAG
1 GATCAAATTAATATTTCTACTATTAAATAG
*
31079752 AATCAAAT
1 GATCAAAT
31079760 AAGGTCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (30 bp):
GATCAAATTAATATTTCTACTATTAAATAG
Found at i:31087732 original size:79 final size:81
Alignment explanation
Indices: 31087623--31087805 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
31087613 TACTCGTTCA
* *
31087623 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
31087686 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
31087703 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
31087766 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
31087782 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
31087806 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:31087805 original size:40 final size:40
Alignment explanation
Indices: 31087602--31087805 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
31087592 CGGAATTTAA
** *
31087602 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31087642 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31087682 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31087721 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
31087761 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31087801 CCGGA
1 CCGGA
31087806 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31089758 original size:43 final size:43
Alignment explanation
Indices: 31089677--31089761 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
31089667 AAGTCATACA
**
31089677 ATGCCAACGTCCCAAACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACATGTAAACACATATCG
31089720 ATGCC-ACTGTCCCAAACAG-GGTCTTAC-TCGTAAACACATATC
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACAT-GTAAACACATATC
31089762 AGAATCACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACATGTAAACACATATCG
Found at i:31094673 original size:48 final size:47
Alignment explanation
Indices: 31094602--31094830 Score: 341
Period size: 48 Copynumber: 4.8 Consensus size: 47
31094592 CAAGATAAAT
* *
31094602 ATATGTATATGTGGTAAAGCCGAATGATGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGCT-AATGTGAAATATATATGAG
* *
31094650 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAAT-GCTAATGTGAAATATATATGAG
* *
31094698 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAAT-GCTAATGTGAAATATATATGAG
* *
31094746 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAAT-GCTAATGTGAAATATATATGAG
31094794 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAAT-GCTAATGTGAA
31094831 TGTTGTAACA
Statistics
Matches: 171, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 169 0.99
49 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (47 bp):
ATATGTATATGTGGTAAAGCCGAATGCTAATGTGAAATATATATGAG
Found at i:31094924 original size:37 final size:37
Alignment explanation
Indices: 31094874--31094976 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
31094864 GGAAATGTAT
31094874 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
31094911 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
31094948 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
31094977 GGACTATTCG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31098297 original size:22 final size:22
Alignment explanation
Indices: 31098271--31098315 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31098261 TTTCGTTATA
31098271 GATTAAAATGAATAGAAGCTGT
1 GATTAAAATGAATAGAAGCTGT
*
31098293 GATTAAAGTGAATAGAAGCTGT
1 GATTAAAATGAATAGAAGCTGT
31098315 G
1 G
31098316 CACAAGGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (22 bp):
GATTAAAATGAATAGAAGCTGT
Found at i:31098911 original size:28 final size:27
Alignment explanation
Indices: 31098860--31098912 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
31098850 CAATTCAGAA
* *
31098860 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAATGTTAACTGGGCCATAGCCCAT
*
31098887 ATCAATGTTAATCTGGTCCATAGCCC
1 ATCAATGTTAA-CTGGGCCATAGCCC
31098913 CTTACATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (27 bp):
ATCAATGTTAACTGGGCCATAGCCCAT
Found at i:31101640 original size:15 final size:15
Alignment explanation
Indices: 31101620--31101648 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31101610 TTTTCCTATC
31101620 TAATAATAATAATTA
1 TAATAATAATAATTA
31101635 TAATAATAATAATT
1 TAATAATAATAATT
31101649 TTAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:31101657 original size:15 final size:15
Alignment explanation
Indices: 31101624--31101657 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31101614 CCTATCTAAT
*
31101624 AATAATAATTATAAT
1 AATAATAATTATAAA
*
31101639 AATAATAATTTTAAA
1 AATAATAATTATAAA
31101654 AATA
1 AATA
31101658 TATCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAATTATAAA
Found at i:31101657 original size:27 final size:27
Alignment explanation
Indices: 31101627--31101708 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 27
31101617 ATCTAATAAT
31101627 AATAATTATAATAATAATAATTTTAAA
1 AATAATTATAATAATAATAATTTTAAA
* * *
31101654 AAT-ATATCTAATAATAAAAATTTCAAA
1 AATAAT-TATAATAATAATAATTTTAAA
* *
31101681 TATCAATAATACAGTAAATAATAATTTT
1 AAT-AATTATA-A-T-AATAATAATTTT
31101709 CATAAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 2 0.05
27 23 0.56
28 2 0.05
29 3 0.07
30 1 0.02
31 10 0.24
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (27 bp):
AATAATTATAATAATAATAATTTTAAA
Found at i:31101774 original size:19 final size:18
Alignment explanation
Indices: 31101737--31101780 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
31101727 ATACATGCAG
31101737 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
31101754 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
31101773 TACTAATT
1 TAATAATT
31101781 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:31114501 original size:13 final size:13
Alignment explanation
Indices: 31114478--31114512 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
31114468 ACGCTTGAAT
31114478 AAAAT-AAAATAA
1 AAAATAAAAATAA
*
31114490 AAAGTAAAAATAA
1 AAAATAAAAATAA
31114503 AAAATAAAAA
1 AAAATAAAAA
31114513 ATGTATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:31115109 original size:13 final size:13
Alignment explanation
Indices: 31115091--31115146 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
31115081 CATTTTGAAT
31115091 TATTTAGTGATAA
1 TATTTAGTGATAA
31115104 TATTTAGTGATAA
1 TATTTAGTGATAA
*
31115117 TATTTA-AGAT--
1 TATTTAGTGATAA
*
31115127 TATTTAGTGACAA
1 TATTTAGTGATAA
31115140 TATTTAG
1 TATTTAG
31115147 GAAAAATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 3 0.08
13 26 0.70
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:31116904 original size:46 final size:46
Alignment explanation
Indices: 31116854--31117026 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
31116844 TGGTTGAGCA
*
31116854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
31116900 TCCGAACTCGTTGAGTTGAGTCCGTGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
31116947 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
31116993 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31117027 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31117010 original size:93 final size:93
Alignment explanation
Indices: 31116851--31117021 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
31116841 GGATGGTTGA
* *
31116851 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
31116916 TGAGTCCGTGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
31116944 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
31117008 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
31117022 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31124381 original size:46 final size:46
Alignment explanation
Indices: 31124331--31124503 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
31124321 TGGTTGAGCA
*
31124331 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
31124377 TCCGAACTCGTTGAGTTGAGTCCGTGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
31124424 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
31124470 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31124504 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31124487 original size:93 final size:93
Alignment explanation
Indices: 31124328--31124498 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
31124318 GGATGGTTGA
* * *
31124328 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
31124393 TGAGTCCGTGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
31124421 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31124486 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31124499 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31124765 original size:19 final size:20
Alignment explanation
Indices: 31124728--31124765 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31124718 ATAAGGTGGT
31124728 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31124748 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31124766 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31125864 original size:28 final size:27
Alignment explanation
Indices: 31125824--31125884 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
31125814 GGGCGTTACA
*
31125824 TGATTCGTACAAATTTATCCTTCAAAG
1 TGATTCGTACAAATTCATCCTTCAAAG
*
31125851 TTGATTCGTACAAATTCATGCTTCAAAG
1 -TGATTCGTACAAATTCATCCTTCAAAG
31125879 TGATTC
1 TGATTC
31125885 ATTTCAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (27 bp):
TGATTCGTACAAATTCATCCTTCAAAG
Found at i:31129112 original size:27 final size:27
Alignment explanation
Indices: 31129082--31129198 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
31129072 GGCAAAATGA
* * *
31129082 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
31129109 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
31129136 TATTTCTACCCTACAAAGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* * *
31129163 TAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
31129190 TAATTCTAC
1 TAATTCTAC
31129199 AACTTATCCA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:31129197 original size:54 final size:54
Alignment explanation
Indices: 31129080--31129198 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 54
31129070 GAGGCAAAAT
* *
31129080 GATAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GATAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
31129134 GATATTTCTACCCTACAAAGGTATTTCGGTAATTCTACCTTACAGGGGTATTTC
1 GATAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
31129188 -AGTAATTCTAC
1 GA-TAATTCTAC
31129199 AACTTATCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (54 bp):
GATAATTCTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:31132356 original size:37 final size:37
Alignment explanation
Indices: 31132306--31132379 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
31132296 TTCGATACTT
31132306 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
1 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
31132343 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
1 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
31132380 TGATTTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (37 bp):
AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
Found at i:31134124 original size:23 final size:23
Alignment explanation
Indices: 31134082--31134128 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
31134072 TTTGGTGTGA
**
31134082 TAGTTGTGGATATTTAGGATTGT
1 TAGTTGTGGATACCTAGGATTGT
*
31134105 TAGTTGTGGATACCTGGGATTGT
1 TAGTTGTGGATACCTAGGATTGT
31134128 T
1 T
31134129 TGTATGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (23 bp):
TAGTTGTGGATACCTAGGATTGT
Found at i:31136324 original size:28 final size:28
Alignment explanation
Indices: 31136267--31136328 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
31136257 TGGGAAGTAG
* *
31136267 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTAATGGGCCATATGAAGATGA
31136295 TTGGGCCTAATGGGCCATATGAACGA-GA
1 TTGGGCCTAATGGGCCATATGAA-GATGA
31136323 TTGGGC
1 TTGGGC
31136329 TTAAAGGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAAGATGA
Found at i:31136677 original size:27 final size:27
Alignment explanation
Indices: 31136647--31136932 Score: 160
Period size: 27 Copynumber: 10.6 Consensus size: 27
31136637 TAATAAAGAG
31136647 AAATTATCGAAATACCCTCGAATTGTA
1 AAATTATCGAAATACCCTCGAATTGTA
* * *
31136674 AAATTATCGAAGTACCC-CCAGTTTGTA
1 AAATTATCGAAATACCCTCGA-ATTGTA
* * *
31136701 AAATTATCGAAGTACCC-CCAGTTTGTA
1 AAATTATCGAAATACCCTCGA-ATTGTA
* * *
31136728 AAATTATTG-AATACCTTC-AGTTCGTA
1 AAATTATCGAAATACCCTCGAATT-GTA
* *
31136754 AAATTACCGAAATACCC-CAAATTTGTA
1 AAATTATCGAAATACCCTCGAA-TTGTA
* **
31136781 AAATTA-CCAAA-ACACCTTAAATTTGTA
1 AAATTATCGAAATAC-CCTCGAA-TTGTA
* * * *
31136808 AAATTACCAAAACACCCT-TAATTTGTA
1 AAATTATCGAAATACCCTCGAA-TTGTA
* * * *
31136835 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGAATTGTA
* *
31136862 AAATTA-CTAAAATACCCTAG-ATATGTA
1 AAATTATC-GAAATACCCTCGAAT-TGTA
* * * *
31136889 AAATTATCAAAACACCCCCGATTTGATA
1 AAATTATCGAAATACCCTCGAATTG-TA
31136917 AAATTATCGAAATACC
1 AAATTATCGAAATACC
31136933 TTTACAGTGT
Statistics
Matches: 215, Mismatches: 28, Indels: 31
0.78 0.10 0.11
Matches are distributed among these distances:
25 4 0.02
26 27 0.13
27 154 0.72
28 28 0.13
29 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAATTGTA
Found at i:31136770 original size:53 final size:54
Alignment explanation
Indices: 31136647--31136786 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 54
31136637 TAATAAAGAG
* * *
31136647 AAATTATCGAAATACCCTC-GAATTGTAAAATTATCGAAGTACCCCCAGTTTGTA
1 AAATTATCGAAATACCCCCAG-TTTGTAAAATTATCGAAGTACCCCCAGTTCGTA
* * **
31136701 AAATTATCGAAGTACCCCCAGTTTGTAAAATTATTGAA-TACCTTCAGTTCGTA
1 AAATTATCGAAATACCCCCAGTTTGTAAAATTATCGAAGTACCCCCAGTTCGTA
* * *
31136754 AAATTACCGAAATACCCCAAATTTGTAAAATTA
1 AAATTATCGAAATACCCCCAGTTTGTAAAATTA
31136787 CCAAAACACC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
53 41 0.55
54 32 0.43
55 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTATCGAAATACCCCCAGTTTGTAAAATTATCGAAGTACCCCCAGTTCGTA
Found at i:31136863 original size:81 final size:81
Alignment explanation
Indices: 31136751--31136928 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 81
31136741 CCTTCAGTTC
* * *
31136751 GTAAAATTACCGAAATACCCCAAATTTGTAAAATTACCAAAACACCTTAAATTTGTAAAATTACC
1 GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
**
31136816 AAAACACCCTTAATTT
66 AAAACACCCCCAATTT
*** * * * *
31136832 GTAAAATTACCGAAACACCCTTGATTTGTAAAATTACTAAAATACCCTAGATATGTAAAATTATC
1 GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
*
31136897 AAAACACCCCCGATTT
66 AAAACACCCCCAATTT
*
31136913 GATAAAATTATCGAAA
1 G-TAAAATTACCGAAA
31136929 TACCTTTACA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 69 0.84
82 13 0.16
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (81 bp):
GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
AAAACACCCCCAATTT
Found at i:31136905 original size:54 final size:53
Alignment explanation
Indices: 31136751--31136932 Score: 204
Period size: 54 Copynumber: 3.4 Consensus size: 53
31136741 CCTTCAGTTC
* * *
31136751 GTAAAATTACCGAAATACCCCAAATTTGTAAAATTACCAAAACA-CCTTAAATTT
1 GTAAAATTACCAAAATA-CCCTAATTTGTAAAATTACCAAAACACCCTT-GATTT
* *
31136805 GTAAAATTACCAAAACACCCTTAATTTGTAAAATTACCGAAACACCCTTGATTT
1 GTAAAATTACCAAAATACCC-TAATTTGTAAAATTACCAAAACACCCTTGATTT
* * * **
31136859 GTAAAATTACTAAAATACCCTAGATATGTAAAATTATCAAAACACCCCCGATTT
1 GTAAAATTACCAAAATACCCTA-ATTTGTAAAATTACCAAAACACCCTTGATTT
* *
31136913 GATAAAATTATCGAAATACC
1 G-TAAAATTACCAAAATACC
31136933 TTTACAGTGT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
53 5 0.05
54 85 0.78
55 19 0.17
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAACACCCTTGATTT
Found at i:31142941 original size:44 final size:44
Alignment explanation
Indices: 31142878--31142961 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
31142868 ATAGGATTTC
**
31142878 GATATATGTGAGTGAGTAAGACCAAGGCATCGATATGTGACTCT
1 GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGACTCT
* *
31142922 GATATATGTGTGCAAGTAAGACCATGGCATCGATATGTGA
1 GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGA
31142962 TTACATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (44 bp):
GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGACTCT
Found at i:31148245 original size:64 final size:64
Alignment explanation
Indices: 31148167--31148307 Score: 194
Period size: 64 Copynumber: 2.2 Consensus size: 64
31148157 TTGGTATCGA
* * * *
31148167 GGTAAGTTCGTATGCGAGTAATGCAATATGTAATC-TATTTTAAATGCTTAAATATTGCACGTAT
1 GGTAAGTTCATATGCAAATAATGCAATATGT-ACCATATTTTAAATGCTTAAATATTGCACGTAT
* * *
31148231 GGTAAGTTCATATGCAAATTATGCAATATGTACCATATTTTAAATGCTTTAATATTGCATGTAT
1 GGTAAGTTCATATGCAAATAATGCAATATGTACCATATTTTAAATGCTTAAATATTGCACGTAT
*
31148295 GGTAAGTACATAT
1 GGTAAGTTCATAT
31148308 ATAATTAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.03
64 66 0.97
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (64 bp):
GGTAAGTTCATATGCAAATAATGCAATATGTACCATATTTTAAATGCTTAAATATTGCACGTAT
Found at i:31148533 original size:22 final size:22
Alignment explanation
Indices: 31148508--31148549 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31148498 TACTAGGGAC
31148508 TATGCAATCTGAGCTCATGAGT
1 TATGCAATCTGAGCTCATGAGT
***
31148530 TATGTGGTCTGAGCTCATGA
1 TATGCAATCTGAGCTCATGA
31148550 TATATGTGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (22 bp):
TATGCAATCTGAGCTCATGAGT
Found at i:31148555 original size:22 final size:22
Alignment explanation
Indices: 31148515--31148557 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31148505 GACTATGCAA
31148515 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTTATGTGG
31148537 TCTGAGCTCATGA-TATATGTG
1 TCTGAGCTCATGAGT-TATGTG
31148558 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:31151495 original size:8 final size:8
Alignment explanation
Indices: 31151482--31151520 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
31151472 GGCAAAAGCT
31151482 GAAATGCC
1 GAAATGCC
31151490 GAAATGCC
1 GAAATGCC
* *
31151498 GAAATACT
1 GAAATGCC
31151506 GAAATGCC
1 GAAATGCC
31151514 GAAATGC
1 GAAATGC
31151521 AGAGATGCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (8 bp):
GAAATGCC
Found at i:31151528 original size:16 final size:16
Alignment explanation
Indices: 31151482--31151529 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
31151472 GGCAAAAGCT
*
31151482 GAAATGCCGAAATGCC
1 GAAATGCAGAAATGCC
* *
31151498 GAAATACTGAAATGCC
1 GAAATGCAGAAATGCC
*
31151514 GAAATGCAGAGATGCC
1 GAAATGCAGAAATGCC
31151530 AAAAGTTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.15
Consensus pattern (16 bp):
GAAATGCAGAAATGCC
Found at i:31151854 original size:28 final size:29
Alignment explanation
Indices: 31151744--31151854 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
31151734 GTGAGCATGA
* * *
31151744 ATATGAATGTGA-CTGGGCCTAACGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
31151772 ACATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
31151801 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
31151830 ATATGAATATGA-TTGGGCTTAATGG
1 ATATGAATGTGATTTGGGCCTAATGG
31151855 TCAAGAAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.33
29 46 0.66
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:31155869 original size:17 final size:18
Alignment explanation
Indices: 31155830--31155870 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
31155820 AATATGGATT
31155830 AAACACAGTTTTCGATGA
1 AAACACAGTTTTCGATGA
*
31155848 AAACACAGTTTTCGCT-A
1 AAACACAGTTTTCGATGA
31155865 AAACAC
1 AAACAC
31155871 TTCAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (18 bp):
AAACACAGTTTTCGATGA
Found at i:31157692 original size:27 final size:27
Alignment explanation
Indices: 31157653--31157830 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
31157643 ATGTTGAGCC
* *
31157653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
31157680 CACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31157707 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31157735 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31157762 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
31157789 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31157816 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
31157831 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31157813 original size:54 final size:55
Alignment explanation
Indices: 31157653--31157830 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
31157643 ATGTTGAGCC
* * * * * * * *
31157653 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
31157707 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
31157762 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
*
31157816 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
31157831 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.58
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:31165669 original size:26 final size:27
Alignment explanation
Indices: 31165604--31165697 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
31165594 ATGTTGAGCC
* *
31165604 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
31165631 CACACACTTAGTGCTACGTAAT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31165657 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
31165684 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31165698 CGTGGTCCGC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.39
27 35 0.61
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31188505 original size:40 final size:40
Alignment explanation
Indices: 31188433--31188617 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
31188423 GCTACTCGTT
* * * *
31188433 CAAATGCCTTTGGGACATAGCCTGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31188473 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
31188513 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31188552 CAAATGCCTTC-GGACCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31188593 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31188618 CATCAGTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31188544 original size:79 final size:80
Alignment explanation
Indices: 31188461--31188617 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
31188451 AGCCTGGTTA
* * *
31188461 TAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGACCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
31188524 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
* ** * *
31188540 TAGTATCTCGCACAAATGCCTTCGGACCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
31188605 GACTTAGCCCGGA
66 GACTTAGCCCGGA
31188618 CATCAGTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 45 0.67
80 19 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:31191843 original size:53 final size:53
Alignment explanation
Indices: 31191740--31191843 Score: 118
Period size: 53 Copynumber: 2.0 Consensus size: 53
31191730 TTCCTTTTTA
* * * * * *
31191740 AACTTACCATAGCCTTGTCTTGACATGGTTTTACGTGGTATCCTTACCTTATG
1 AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* * * *
31191793 AACTAACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTA
31191844 CCGTAGTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTACCTTATG
Found at i:31214129 original size:40 final size:40
Alignment explanation
Indices: 31214077--31214470 Score: 617
Period size: 40 Copynumber: 9.8 Consensus size: 40
31214067 ATAACCACAA
* * * *
31214077 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
31214117 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAGCTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31214157 GCACAATTGCCTTCTGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
31214197 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31214237 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
31214279 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31214319 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
* *
31214361 GAACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31214401 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31214441 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31214471 GTATTCAAAT
Statistics
Matches: 329, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
40 251 0.76
42 78 0.24
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:31214312 original size:82 final size:81
Alignment explanation
Indices: 31214077--31214470 Score: 641
Period size: 82 Copynumber: 4.9 Consensus size: 81
31214067 ATAACCACAA
* * * *
31214077 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAG-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
31214141 CCGGATATATCAGCTT
66 CCGGATATATCAACTT
* * *
31214157 GCACAATTGCCTTCTGGTCTTAGCCCGGATATA-TCAACTCGCACAATTGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
*
31214221 CCGGATATATCAACTC
66 CCGGATATATCAACTT
31214237 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTCGCACAAATGCCTTCGGGTCTTAG
31214302 CCCGGATATATCAACTT
65 CCCGGATATATCAACTT
*
31214319 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGAACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA-GTCAACTCGCACAAATGCCTTCGGGTCTTAG
31214384 CCCGGATATATCAACTT
65 CCCGGATATATCAACTT
* *
31214401 GCACAAATGCCTTCGGGTCTTAGCCCAGATATA-TCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
31214465 CCGGAT
66 CCGGAT
31214471 GTATTCAAAT
Statistics
Matches: 296, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
80 138 0.47
82 158 0.53
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATATATCAACTT
Found at i:31214338 original size:122 final size:120
Alignment explanation
Indices: 31214077--31214470 Score: 635
Period size: 122 Copynumber: 3.2 Consensus size: 120
31214067 ATAACCACAA
* * * * *
31214077 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * * *
31214142 CGGATATATCAGCTTGCACAATTGCCTTCTGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
31214197 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
31214262 CGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CGGATATA--TCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
31214319 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGAACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTCGCACAAATGCCTTCGGGTCTTAG
*
31214384 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTT
64 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
31214441 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
31214471 GTATTCAAAT
Statistics
Matches: 257, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
120 69 0.27
122 149 0.58
124 39 0.15
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
Found at i:31218688 original size:42 final size:42
Alignment explanation
Indices: 31218641--31218793 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
31218631 GAGAATACGT
* * * * *
31218641 GTAAGACCATATCTGGGATATGGTATCGGTATGATATTACGG
1 GTAAGACCATATCTGAGATATGGCATCGATATGAAATTACAG
* * * * * **
31218683 GTAAGACCATGTTTGGGACATGGCATCGATACGAAATTTTAG
1 GTAAGACCATATCTGAGATATGGCATCGATATGAAATTACAG
* * *
31218725 GTAAGACCATAGT-TGAGCTATTGGCATCGATATGAGATTACAT
1 GTAAGACCATA-TCTGAGATA-TGGCATCGATATGAAATTACAG
31218768 GTAAGACCATATCTGAGATATGGCAT
1 GTAAGACCATATCTGAGATATGGCAT
31218794 TGTACGACTT
Statistics
Matches: 88, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 53 0.60
43 35 0.40
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
GTAAGACCATATCTGAGATATGGCATCGATATGAAATTACAG
Found at i:31219941 original size:22 final size:22
Alignment explanation
Indices: 31219914--31219959 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
31219904 ATACCTTGTG
31219914 TTGGTATATTTTATGGCATGAA
1 TTGGTATATTTTATGGCATGAA
31219936 TTGGTATATTTTATGGCATGAA
1 TTGGTATATTTTATGGCATGAA
31219958 TT
1 TT
31219960 AGATGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (22 bp):
TTGGTATATTTTATGGCATGAA
Found at i:31219972 original size:22 final size:22
Alignment explanation
Indices: 31219925--31219973 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
31219915 TGGTATATTT
* **
31219925 TATGGCATGAATTGGTATATTT
1 TATGGCATGAATTAGTATATAA
31219947 TATGGCATGAATTAG-ATGATAA
1 TATGGCATGAATTAGTAT-ATAA
31219969 TATGG
1 TATGG
31219974 TGAGAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (22 bp):
TATGGCATGAATTAGTATATAA
Found at i:31229236 original size:42 final size:42
Alignment explanation
Indices: 31229170--31229265 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
31229160 TGAGAATATA
* * *
31229170 TGTAAGACCATATCTAGGATATGGCATC-AGTATGATATTAT-G
1 TGTAAGACCATATCTAGGACATGGCATCGA-TACGAAATT-TCG
* *
31229212 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
1 TGTAAGACCATATCTAGGACATGGCATCGATACGAAATTTCG
31229254 TGTAAGACCATA
1 TGTAAGACCATA
31229266 GTTGGGCTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGACATGGCATCGATACGAAATTTCG
Found at i:31230804 original size:43 final size:43
Alignment explanation
Indices: 31230722--31230877 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
31230712 TGAGACATCG
** * *
31230722 TGTAAGACTGTGTCTGGGACA-CAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTACA
* *
31230765 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* ** *
31230807 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* *
31230850 TGTAAGACCACGTCTTGGACATCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
31230878 TGTACTTGTT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 33 0.36
43 57 0.63
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:31230856 original size:85 final size:85
Alignment explanation
Indices: 31230719--31230877 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 85
31230709 GTCTGAGACA
** * *
31230719 TCGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
31230784 CATCGGCATCATATCTGATT
66 CATCGGCATCATATCTGATT
* * *
31230804 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTTG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
31230867 GACATCGGCAT
64 GACATCGGCAT
31230878 TGTACTTGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 59 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGCATCATATCTGATT
Found at i:31251561 original size:39 final size:40
Alignment explanation
Indices: 31251453--31251677 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
31251443 TTGAATGATG
* * * *
31251453 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
31251493 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31251533 TCCGGGCTAAG-CCCGAACGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31251572 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31251612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31251653 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31251678 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31251695 original size:80 final size:80
Alignment explanation
Indices: 31251453--31251710 Score: 224
Period size: 80 Copynumber: 3.2 Consensus size: 80
31251443 TTGAATGATG
* * * * * * * *
31251453 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
31251516 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
31251533 TCCGGGCTAAG-CCCGAACGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
31251597 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
31251612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
31251676 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
31251692 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31251711 TACGTGATTT
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.48
80 75 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:31251699 original size:119 final size:119
Alignment explanation
Indices: 31251453--31251710 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
31251443 TTGAATGATG
* * *
31251453 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
31251518 GTGCGAGATACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAACGCATTGGAACGAGTGACTAAA
* * * **
31251572 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
31251635 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAACGCATTGGAACGAGTGA-CTAAA
* *
31251692 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31251711 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAACGCATTGGAACGAGTGACTAAA
Found at i:31259475 original size:40 final size:40
Alignment explanation
Indices: 31259391--31259615 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
31259381 TTGAATGATG
* * * *
31259391 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
31259431 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31259471 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31259510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31259550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31259591 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31259616 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31259633 original size:80 final size:80
Alignment explanation
Indices: 31259391--31259648 Score: 217
Period size: 80 Copynumber: 3.2 Consensus size: 80
31259381 TTGAATGATG
* * * * * * *
31259391 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATATCCGGACTAAGAT-CCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGCT-ACTAAATCCGGGCTAAG-TCCCGAAGGCA
** *
31259453 TTTGTGCGAGAT-ACTAAT
63 TTTGAACGAG-TGACTAAA
* * *
31259471 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
31259535 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
31259550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
31259614 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
31259630 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31259649 TACGTGATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.01
79 72 0.47
80 76 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:31259637 original size:119 final size:119
Alignment explanation
Indices: 31259391--31259648 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
31259381 TTGAATGATG
* * *
31259391 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
31259456 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
31259510 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
31259573 TTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
31259630 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31259649 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:31263221 original size:16 final size:16
Alignment explanation
Indices: 31263202--31263236 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31263192 GCTGATACAA
31263202 AAACATAAGTTTAATG
1 AAACATAAGTTTAATG
* *
31263218 AAACATAATTTTATTG
1 AAACATAAGTTTAATG
31263234 AAA
1 AAA
31263237 AGGAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (16 bp):
AAACATAAGTTTAATG
Found at i:31263958 original size:39 final size:39
Alignment explanation
Indices: 31263863--31263960 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
31263853 TTCACTTTTG
* * *
31263863 AGCATGTATCACATTACACATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTTA
* *
31263902 GGCATACATCACAATACTCATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTTA
31263941 AGCATATATCACAATACTCA
1 AGCATATATCACAATACTCA
31263961 AAATCATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (39 bp):
AGCATATATCACAATACTCATATAATCACATAACATTTA
Found at i:31267806 original size:46 final size:46
Alignment explanation
Indices: 31267739--31267886 Score: 224
Period size: 46 Copynumber: 3.2 Consensus size: 46
31267729 GAGATCAATT
** *
31267739 GATTGAAGAAGCCACAAATCCTATACCCCTGAGCTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
* *
31267785 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTAGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
* * *
31267831 GATTAAAGATGATACAAATCCTATACCCTTGAGTTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
31267877 GATTGAAGAA
1 GATTGAAGAA
31267887 ACCAAATTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
Found at i:31268341 original size:44 final size:45
Alignment explanation
Indices: 31268238--31268475 Score: 149
Period size: 44 Copynumber: 5.2 Consensus size: 45
31268228 TGAATCCATA
* * * * * **
31268238 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CC
1 AATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
** *
31268282 AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
1 AATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
* * * * * *
31268327 AATCTTA-CTTCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTATGG
1 AATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAG--AC--A--GT-G
* * * * *
31268378 CAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-TC
1 -A-ATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
* * * *
31268424 AGTCTTATCTTCCTGAAGTTACAGCAGAGCAGACTGAAGACAGTA
1 AATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
31268469 AATCTTA
1 AATCTTA
31268476 CTTTCCTAAC
Statistics
Matches: 150, Mismatches: 32, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
44 95 0.63
45 13 0.09
46 2 0.01
47 1 0.01
48 1 0.01
50 2 0.01
51 1 0.01
52 2 0.01
53 6 0.04
54 27 0.18
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
AATCTTATCTTCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGTG
Found at i:31268559 original size:143 final size:142
Alignment explanation
Indices: 31268237--31268983 Score: 914
Period size: 143 Copynumber: 5.3 Consensus size: 142
31268227 ATGAATCCAT
* *
31268237 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * *
31268302 GCAGCGGAGCAGACTGAAGACAGTGAATCTTACTTCCTGAAGTTGTAGTGGAACAGATTAAAGCT
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCTGAAGTTGCAGTGGAACAGATTAAAGCT
31268367 ACAAATTATGGC
131 ACAAATTATGGC
* * * * *
31268379 AGATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCATCAGTCTTATCTTCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * ** * * *
31268444 ACAGCAGAGCAGACTGAAGACAGTAAATCTTACTTTCCT-AACATTGCAGTGGAATAAATTAAAG
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTA-TTTCCTGAA-GTTGCAGTGGAACAGATTAAAG
*
31268508 TTACAAATTATGGC
129 CTACAAATTATGGC
** ** *
31268522 GGATCTTATCTTCCTGAAGTTGCAGTGGAATAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * * * *
31268587 ACAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGAAATAGATTGAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTT-CCTGAAGTTGCAGTGGAACAGATTAAAGC
31268652 TACAAATTATGGC
130 TACAAATTATGGC
* * *
31268665 AAATCTTATCTTCCTGATGTTGCAGTGGAGGAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* *
31268730 GCAGCAGAGCAGACTGAAGACAGCGAATCTTATCTTCCTGAAGTT---GTGGAACAGATTGAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTAT-TTCCTGAAGTTGCAGTGGAACAGATTAAAGC
*
31268792 TACAAATTATGGA
130 TACAAATTATGGC
* * * *
31268805 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTTAAGCAACCAGCTTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * ** ** * *
31268870 GCAGCGGAGAAGACTGAAGACAGCGAATCCTATTTCCCTGAAGTTATAGCAGAATAGATTGAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTT-CCTGAAGTTGCAGTGGAACAGATTAAAGC
* *
31268935 TAC-AA--GTCGC
130 TACAAATTATGGC
* * * *
31268945 AAACCTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAA
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAA
31268984 ATTACCAATT
Statistics
Matches: 526, Mismatches: 70, Indels: 20
0.85 0.11 0.03
Matches are distributed among these distances:
139 2 0.00
140 159 0.30
142 94 0.18
143 267 0.51
144 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (142 bp):
AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCTGAAGTTGCAGTGGAACAGATTAAAGCT
ACAAATTATGGC
Found at i:31268650 original size:45 final size:44
Alignment explanation
Indices: 31268524--31268651 Score: 123
Period size: 45 Copynumber: 2.9 Consensus size: 44
31268514 ATTATGGCGG
*
31268524 ATCTTATCTT-CCTGAAGTTGCAGTGGAATAGATTGAAGCCACCA
1 ATCTTAT-TTCCCTGAAGTTGCAGTGGAATAGATTGAAGCAACCA
** * * * ** * * *
31268568 GCCTCATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACGA
1 ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAG-CAACCA
*
31268613 ATCTTATTTCCCTGAAGTTGCAGTGAAATAGATTGAAGC
1 ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGC
31268652 TACAAATTAT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
43 1 0.02
44 28 0.46
45 32 0.52
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCAACCA
Found at i:31268939 original size:283 final size:283
Alignment explanation
Indices: 31268237--31268976 Score: 945
Period size: 283 Copynumber: 2.6 Consensus size: 283
31268227 ATGAATCCAT
* *
31268237 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * *
31268302 GCAGCGGAGCAGACTGAAGACAGTGAATCTTACTT-CCTGAAGTTGTAGTGGAACAGATTAAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAG-AGAATAGATTGAAGC
* * * *
31268366 TACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCATCAGTCTTA
130 TACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTCA
* *
31268431 TCTTCCTGAAGTTACAGCAGAGCAGACTGAAGACAGTAAATCTTACTTTCCTAACATTGCAGTGG
195 TCTCCCTGAAGTTACAGCAGAGCAGACTGAAGACAGCAAATCTTACTTTCCTAACATT--AGTGG
* * *
31268496 AATAAATTAAAGTTACAAATTATGGC
258 AACAAATTAAAGCTACAAATTATGGA
** ** *
31268522 GGATCTTATCTTCCTGAAGTTGCAGTGGAATAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * * *
31268587 ACAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGCAGTGAAATAGATTGAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGAG-AATAGATTGAAGC
* * *
31268652 TACAAATTATGGCAAATCTTATCTTCCTGATGTTGCAGTGGAGGAGATTGAAGCCACCAGCCTCA
130 TACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTCA
* * *
31268717 TCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTA-TCTTCCTGAA-GTT-GTGG
195 TCTCCCTGAAGTTACAGCAGAGCAGACTGAAGACAGCAAATCTTACT-TTCCT-AACATTAGTGG
* *
31268779 AACAGATTGAAGCTACAAATTATGGA
258 AACAAATTAAAGCTACAAATTATGGA
* * * *
31268805 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTTAAGCAACCAGCTTTATCTCCCTGAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * *
31268870 GCAGCGGAGAAGACTGAAGACAGCGAATCCTATTTCCCTGAAGTTATAGCAGAATAGATTGAAGC
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAG-AGAATAGATTGAAGC
* * * * *
31268935 TAC-AA--GTCGCAAACCTTATCTCCCTGAAGTTGAAGTGGAGCA
130 TACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCA
31268977 GGTTGAAATT
Statistics
Matches: 391, Mismatches: 59, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
280 30 0.08
282 2 0.01
283 138 0.35
284 1 0.00
285 89 0.23
286 129 0.33
287 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (283 bp):
AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGAGAATAGATTGAAGCT
ACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTCAT
CTCCCTGAAGTTACAGCAGAGCAGACTGAAGACAGCAAATCTTACTTTCCTAACATTAGTGGAAC
AAATTAAAGCTACAAATTATGGA
Found at i:31269921 original size:27 final size:28
Alignment explanation
Indices: 31269868--31269923 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
31269858 CAAACGTTGC
*
31269868 ATTTTTATTATGTTTTTATTTTCATTTT
1 ATTTTTATTATGTTTTTAGTTTCATTTT
* * *
31269896 ATTTTT-TTATTTTTTTGGTTTGATTTT
1 ATTTTTATTATGTTTTTAGTTTCATTTT
31269923 A
1 A
31269924 CTCCTAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (28 bp):
ATTTTTATTATGTTTTTAGTTTCATTTT
Found at i:31272683 original size:23 final size:25
Alignment explanation
Indices: 31272642--31272695 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
31272632 CTTTAACTTG
*
31272642 TATTATATACTTATCTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
31272667 TATTA-ATAATTA-CTTTATTTATA
1 TATTATATAATTATCTTTATTTATA
*
31272690 TTTTAT
1 TATTAT
31272696 TATTACCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.58
24 6 0.23
25 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTATATAATTATCTTTATTTATA
Found at i:31272805 original size:15 final size:15
Alignment explanation
Indices: 31272784--31272815 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31272774 TGTACTTAAC
31272784 TTATAT-TTATAT-A
1 TTATATATTATATAA
31272797 TTATATATTATATAA
1 TTATATATTATATAA
31272812 TTAT
1 TTAT
31272816 TTTATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 6 0.35
15 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATATTATATAA
Found at i:31272963 original size:18 final size:20
Alignment explanation
Indices: 31272913--31272978 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 20
31272903 AATTATAAAT
* * *
31272913 TTTTGTTATTATATATTATA
1 TTTTATTATTAAATATCATA
31272933 TATTGTA-TATTAAATA-C-TA
1 T-TT-TATTATTAAATATCATA
31272952 TTTTATTATTAAATATCATA
1 TTTTATTATTAAATATCATA
31272972 TTTTATT
1 TTTTATT
31272979 TGTATTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 2 0.05
18 11 0.29
19 4 0.11
20 10 0.26
21 10 0.26
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTATTATTAAATATCATA
Found at i:31280596 original size:17 final size:18
Alignment explanation
Indices: 31280569--31280602 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31280559 TCTTTTCTAT
31280569 TTTTCTATTTTTATTATC
1 TTTTCTATTTTTATTATC
31280587 TTTT-TATTTTTATTAT
1 TTTTCTATTTTTATTAT
31280603 AAATCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTATTTTTATTATC
Found at i:31282074 original size:22 final size:21
Alignment explanation
Indices: 31282044--31282085 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
31282034 TTTTTTATGT
31282044 ATTACTTATTTAAAATTGTCTC
1 ATTACTTATTTAAAA-TGTCTC
* *
31282066 ATTATTTATTTTAAATGTCT
1 ATTACTTATTTAAAATGTCT
31282086 TTGTGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTACTTATTTAAAATGTCTC
Found at i:31286517 original size:38 final size:38
Alignment explanation
Indices: 31286475--31286558 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
31286465 TTTAAATTTT
* *
31286475 TTTTTCTTTTTTTCCTTTTCTCTCTT-TATTTTTCCTTA
1 TTTTTCTTTCTTTCCTTTTCTATCTTATATTTTTCC-TA
* *
31286513 TTTTTCTTTCTTTCTTTTTCTATCTTATTTTTTTCCTA
1 TTTTTCTTTCTTTCCTTTTCTATCTTATATTTTTCCTA
*
31286551 TTCTTCTT
1 TTTTTCTT
31286559 CTTCTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 32 0.80
39 8 0.20
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (38 bp):
TTTTTCTTTCTTTCCTTTTCTATCTTATATTTTTCCTA
Found at i:31286573 original size:27 final size:27
Alignment explanation
Indices: 31286509--31286575 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
31286499 TTTATTTTTC
*
31286509 CTTATTTTTCTTT-CTTTCTTTTTCTAT
1 CTTATTTTT-TTTCCTTTCTTCTTCTAT
31286536 CTTA-TTTTTTTCCTATTCTTCTTCT-T
1 CTTATTTTTTTTCCT-TTCTTCTTCTAT
31286562 CTTATTTTTTTTCC
1 CTTATTTTTTTTCC
31286576 ACAAAAACTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.08
26 11 0.31
27 22 0.61
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (27 bp):
CTTATTTTTTTTCCTTTCTTCTTCTAT
Found at i:31293481 original size:40 final size:40
Alignment explanation
Indices: 31293414--31293638 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
31293404 GGATATAACC
* * * * * *
31293414 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCTGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
31293453 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
31293493 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
31293533 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
31293573 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
31293613 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
31293639 ACCCCGTTAG
Statistics
Matches: 172, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 7 0.04
40 163 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:31302981 original size:40 final size:39
Alignment explanation
Indices: 31302879--31302992 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
31302869 AATTATGCAT
**
31302879 TAGCGGCGTTTTTGTGAAAACGCCGCTAAAAAACTGAGTAA
1 TAGCGGCGTTTTTAAGAAAACGCCGCT--AAAACTGAGTAA
* *
31302920 TAGCAGCG-TTTGAAGCAAAAACGCCGCTAAAACTGAGTAA
1 TAGCGGCGTTTTTAAG--AAAACGCCGCTAAAACTGAGTAA
*
31302960 TAGCGGCGTTTCTTAAGAAAACGCCGCAAAAAC
1 TAGCGGCGTTT-TTAAGAAAACGCCGCTAAAAC
31302993 ACCGCAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
40 38 0.61
41 9 0.15
42 15 0.24
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAGAAAACGCCGCTAAAACTGAGTAA
Found at i:31304515 original size:40 final size:40
Alignment explanation
Indices: 31304469--31304652 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
31304459 CTCGCACAAG
* * *
31304469 GCCTTCGGGTCTTGGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
31304509 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
31304549 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
31304589 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
31304629 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
31304653 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:31304567 original size:80 final size:79
Alignment explanation
Indices: 31304433--31304652 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
31304423 ACCCAAGTAT
* * * * * * *
31304433 CTTCGGGATTTAGCTGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTGGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
31304497 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
31304511 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
31304576 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
31304591 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
31304653 CATTCGAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 90 0.74
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:31312684 original size:40 final size:40
Alignment explanation
Indices: 31312590--31312809 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
31312580 ACCCAAGTAT
* * ** * *
31312590 CTTCGGGATTTAG-CTGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
31312628 CTTCGGGTCTTGGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
31312668 CTTCAGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
31312708 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
31312748 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
31312788 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
31312810 CATTCGAATA
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 117 0.79
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:31315277 original size:20 final size:18
Alignment explanation
Indices: 31315233--31315271 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
31315223 GTCTTAGTAC
31315233 ATGTTTAGAGTATTATAT
1 ATGTTTAGAGTATTATAT
*
31315251 ATGTTTATAGTATTATAT
1 ATGTTTAGAGTATTATAT
31315269 ATG
1 ATG
31315272 GTTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
ATGTTTAGAGTATTATAT
Found at i:31319254 original size:64 final size:64
Alignment explanation
Indices: 31319185--31319318 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
31319175 TAATATTTCT
* *
31319185 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATAGACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAA
* *
31319249 ATATTTCTATCACGATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAA
31319313 ATATTT
1 ATATTT
31319319 AATAAAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAA
Found at i:31319331 original size:64 final size:64
Alignment explanation
Indices: 31319198--31319332 Score: 184
Period size: 64 Copynumber: 2.1 Consensus size: 64
31319188 TTTCTATCAC
* * * * *
31319198 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATAGACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAAATATTTATATAAA
* *
31319262 GATTTTTGATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAAATATTTATATAAA
31319325 -ATATTTTA
1 GAT-TTTTA
31319333 TATAGTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 53 0.85
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATAGACAAATATTTATATAAA
Found at i:31319393 original size:24 final size:24
Alignment explanation
Indices: 31319366--31319436 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
31319356 ATTATTATTG
*
31319366 AAATATTCTCTTCCGTTTTATCAC
1 AAATATTATCTTCCGTTTTATCAC
*
31319390 AAATTTTAT-TGTCCGTTTTATCAC
1 AAATATTATCT-TCCGTTTTATCAC
* *
31319414 AAATATTATCGTCTGTTTTATCA
1 AAATATTATCTTCCGTTTTATCA
31319437 TTTAAGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 39 0.98
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.48
Consensus pattern (24 bp):
AAATATTATCTTCCGTTTTATCAC
Found at i:31319912 original size:241 final size:241
Alignment explanation
Indices: 31319478--31320138 Score: 1216
Period size: 241 Copynumber: 2.7 Consensus size: 241
31319468 ATACCTTTTT
* * *
31319478 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTATCCCTTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
*
31319543 TACAACAATAGCTGACATTCTCTCCAACC-TTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
* *
31319607 CTGGAAACCTAACGGGTTGCCTTATATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAAGTGTAAC
31319672 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
31319718 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
*
31319783 TACAATAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
* *
31319848 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTTCCTAAGTGTAAC
131 CTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAAGTGTAAC
31319913 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
*
31319959 AAGTTCTATCAAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
31320024 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
31320089 CTGGAAGCCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
131 CTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
31320139 AAATTTCATA
Statistics
Matches: 407, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
240 89 0.22
241 318 0.78
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (241 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTGGAAACCTAACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAAGTGTAAC
AACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:31325038 original size:17 final size:16
Alignment explanation
Indices: 31325001--31325040 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
31324991 TATTATGAAT
31325001 TTATTAATTCTTTCAA
1 TTATTAATTCTTTCAA
* *
31325017 ATATTAATTACTTTCTA
1 TTATTAATT-CTTTCAA
31325034 TTATTAA
1 TTATTAA
31325041 ATAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAATTCTTTCAA
Found at i:31325969 original size:33 final size:33
Alignment explanation
Indices: 31325927--31326008 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
31325917 TTAGAATTAA
* *
31325927 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
31325960 TGTTTTTGGTTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
* *
31325991 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
31326009 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGC
Found at i:31326136 original size:43 final size:43
Alignment explanation
Indices: 31326078--31326197 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
31326068 CGTTTGTGGG
* *
31326078 AAAAGCGCCGCTAAAAGCAGTGACTTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCC
* * * * *
31326121 ACAAACGCTGTTAAAAGCCGTGACTTTTAGCAGCGCTTTGCCC
1 AAAAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCC
* *
31326164 AAAAACGCCGCTAAAATCCTTGACTTTTAGCGGC
1 AAAAACGCCGCTAAAAGCCGTGACTTTTAGCGGC
31326198 ATTTTTTTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGCCGTGACTTTTAGCGGCGCTTTACCC
Found at i:31327185 original size:27 final size:28
Alignment explanation
Indices: 31327133--31327191 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
31327123 ATCAAATTTA
* *
31327133 ATAACTAACAAAAATATTTCA-TAAAAT
1 ATAACTAACAAAAATATTACACAAAAAT
*
31327160 ATAACTAACTAAAAT-TTAACACAAAAAT
1 ATAACTAACAAAAATATT-ACACAAAAAT
31327188 ATAA
1 ATAA
31327192 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 16 0.59
28 9 0.33
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (28 bp):
ATAACTAACAAAAATATTACACAAAAAT
Found at i:31336906 original size:37 final size:37
Alignment explanation
Indices: 31336865--31336943 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
31336855 ATATAATATT
31336865 ATATGTTCTTATAGTTTATTATAATTATAAGGCTCAA
1 ATATGTTCTTATAGTTTATTATAATTATAAGGCTCAA
31336902 ATATGTTCTTATAGTTTATTATAATTATAAGGCTCAA
1 ATATGTTCTTATAGTTTATTATAATTATAAGGCTCAA
31336939 ATATG
1 ATATG
31336944 CATTTATTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (37 bp):
ATATGTTCTTATAGTTTATTATAATTATAAGGCTCAA
Found at i:31337191 original size:18 final size:19
Alignment explanation
Indices: 31337170--31337205 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31337160 AATACATAAA
31337170 AAATT-TAAAATATAAAAT
1 AAATTATAAAATATAAAAT
*
31337188 AAATTATAAATTATAAAA
1 AAATTATAAAATATAAAA
31337206 ATATATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTATAAAATATAAAAT
Found at i:31339052 original size:27 final size:27
Alignment explanation
Indices: 31339014--31339409 Score: 365
Period size: 27 Copynumber: 14.6 Consensus size: 27
31339004 TTAGTTTACC
* * *
31339014 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31339041 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
31339068 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
31339095 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
31339122 AAATTACCAAAATACCTTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** *
31339149 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
31339176 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** *
31339203 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
31339230 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
31339257 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
31339284 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
31339311 AAATTACCGAAATACCTTC-AGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** * *
31339338 AAATTACTGAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
31339365 AAATTACTAACATGCCCTCGACTTGTAA
1 AAATTACCAAAATACCCTCGATTTGT-A
*
31339393 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
31339410 CCAATTTATA
Statistics
Matches: 312, Mismatches: 47, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 291 0.93
28 18 0.06
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:31339596 original size:27 final size:27
Alignment explanation
Indices: 31339455--31339615 Score: 187
Period size: 27 Copynumber: 6.0 Consensus size: 27
31339445 CAAAATTATT
* *
31339455 GAAATACCCATGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
31339482 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
31339509 AAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* **
31339536 GAAATACCCTTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
31339563 GAAATACCCCTATAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
31339590 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
31339616 TATTTTGCTC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:31339597 original size:81 final size:81
Alignment explanation
Indices: 31339446--31339614 Score: 212
Period size: 81 Copynumber: 2.1 Consensus size: 81
31339436 CTCGATTTAC
* * * *
31339446 AAAATTATTGAAATACCCATGTAGGATAGAATTACCGAAATACCCCTGTAGGATAGAATTACTAA
1 AAAATTATCGAAATACCCATGTAGGATAGAATTACCGAAATACCCCTATAGGATAAAATTACCAA
31339511 AATACCCCTGTAGGGT
66 AATACCCCTGTAGGGT
* * * ** * *
31339527 AGAATTATCGAAATACCCTTGTAGGGTAGAATTATTGAAATACCCCTATAGGGTAAAATTACCGA
1 AAAATTATCGAAATACCCATGTAGGATAGAATTACCGAAATACCCCTATAGGATAAAATTACCAA
* * *
31339592 GATACCCTTGTGGGGT
66 AATACCCCTGTAGGGT
31339608 AAAATTA
1 AAAATTA
31339615 CTATTTTGCT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (81 bp):
AAAATTATCGAAATACCCATGTAGGATAGAATTACCGAAATACCCCTATAGGATAAAATTACCAA
AATACCCCTGTAGGGT
Found at i:31339599 original size:54 final size:54
Alignment explanation
Indices: 31339448--31339614 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 54
31339438 CGATTTACAA
* * * *
31339448 AATTATTGAAATACCCATGTAGGATAGAATTACCGAAATACCCCTGTAGGATAG
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * *
31339502 AATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * *
31339556 AATTATTGAAATACCCCTATAGGGTAAAATTACCGAGATACCCTTGTGGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
31339610 AATTA
1 AATTA
31339615 CTATTTTGCT
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:31339859 original size:25 final size:25
Alignment explanation
Indices: 31339821--31339890 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
31339811 AGGAAGTGCT
*
31339821 AAAAGGGCTTTGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
31339845 GAAAGGGCCTTTGCCCCAGTTTATCA
1 AAAAGGG-CTTTGCCCCAGTTTATCA
31339871 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31339891 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 6 0.15
25 28 0.68
26 7 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:31339903 original size:24 final size:24
Alignment explanation
Indices: 31339821--31339903 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
31339811 AGGAAGTGCT
*
31339821 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
31339845 GAAAGGGCCTTTGCCCCAGTTTATC
1 AAAAGGG-CTTTGCCCCAGTTTATC
*
31339870 AAAAAGGGCTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTGCCCCAGTTTATC
31339894 AAAAGAGGCT
1 AAAAG-GGCT
31339904 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.10
24 14 0.27
25 27 0.52
26 6 0.12
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:31339914 original size:50 final size:50
Alignment explanation
Indices: 31339821--31339915 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
31339811 AGGAAGTGCT
* **
31339821 AAAAGGGCTTTGCCCCAGTTTACCGAAAGGGCCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAGGGCCTAGGCCCCAGTTTATCA
**
31339871 AAAAGGGCTTTGCCCCAG-TTATTAAAAGAGG-CTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAG-GGCCTAGGCC-CCAGTT
31339916 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
49 12 0.32
50 26 0.68
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAGGGCCTAGGCCCCAGTTTATCA
Found at i:31351947 original size:43 final size:43
Alignment explanation
Indices: 31351842--31352039 Score: 192
Period size: 43 Copynumber: 4.7 Consensus size: 43
31351832 TGAGATTACA
* *
31351842 TGTAAGACCATGTCTGGGATATTGACAT--TGTATTGCGATTAT-
1 TGTAAGACCATGTCTGGGACATTGGCATCAT-TA-TGCGATTATG
31351884 TGTAAGACCATGTCTGGGACATTGGCATCATTATGCGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATGCGATTATG
* * *
31351927 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTCGATT-TAG
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATGCGATTAT-G
* * * * * *
31351970 TGTAAGACCTTGTCGGGGATAGTGGCATCGA-TATGTGATAATG
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATTATGCGATTATG
* * *
31352013 TGTAAGATCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
31352040 TGTACGAGCT
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
42 42 0.32
43 88 0.67
44 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATTATGCGATTATG
Found at i:31352014 original size:86 final size:85
Alignment explanation
Indices: 31351842--31352019 Score: 216
Period size: 86 Copynumber: 2.1 Consensus size: 85
31351832 TGAGATTACA
* * * * * *
31351842 TGTAAGACCATGTCTGGGATATTGACATTGTATTGCGATTATTGTAAGACCATGTCTGGGACATT
1 TGTAAGACCATGTCTAGGACATTGACATCGTATTGCGATTAGTGTAAGACCATGTCGGGGACAGT
*
31351907 GGCATCATTATGCGATTATG
66 GGCATCATTATGCGATAATG
* * *
31351927 TGTAAGACCATGTCTAGGACATTGGCATCGTTATT-CGATTTAGTGTAAGACCTTGTCGGGGATA
1 TGTAAGACCATGTCTAGGACATTGACATCG-TATTGCGA-TTAGTGTAAGACCATGTCGGGGACA
*
31351991 GTGGCATCGA-TATGTGATAATG
64 GTGGCATC-ATTATGCGATAATG
31352013 TGTAAGA
1 TGTAAGA
31352020 TCATATCTGG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 29 0.37
86 49 0.62
87 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (85 bp):
TGTAAGACCATGTCTAGGACATTGACATCGTATTGCGATTAGTGTAAGACCATGTCGGGGACAGT
GGCATCATTATGCGATAATG
Found at i:31358230 original size:54 final size:54
Alignment explanation
Indices: 31358025--31358231 Score: 202
Period size: 55 Copynumber: 3.9 Consensus size: 54
31358015 TTCCTTTTTA
* * * *
31358025 AACTTACCATTTCCATGTCTTGACATGGTCTTAC-TGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * * * * *
31358077 AAGTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
** * * * * * *
31358131 TAGTTTATCAATGCCATGTCTTGACACGGTCTTACATGATTTCCTTACCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* *
31358186 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
31358232 AACCCTAGTT
Statistics
Matches: 122, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
52 29 0.24
53 15 0.12
54 38 0.31
55 40 0.33
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:31359827 original size:40 final size:40
Alignment explanation
Indices: 31359644--31359813 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
31359634 TCCTCGTTCA
* * * * * *
31359644 AATGTCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31359683 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31359723 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31359763 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
31359803 AAGGCCTTCGG
1 AATGCCTTCGG
31359814 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31359852 original size:80 final size:80
Alignment explanation
Indices: 31359688--31359866 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
31359678 CACACAATGC
* * * *
31359688 CTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAAT
1 CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
* * *
31359753 AACTCGCACGAATGC
66 AACTAGCACGAAAGA
** * ** *
31359768 CTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATAT
1 CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAA
*
31359832 TCACTTAGCAC-AAAGA
65 TAAC-TAGCACGAAAGA
*
31359848 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGA
31359867 CAGCATTCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.04
80 74 0.90
81 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAAT
AACTAGCACGAAAGA
Found at i:31366201 original size:9 final size:9
Alignment explanation
Indices: 31366187--31366220 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
31366177 TTCTCATAAG
31366187 AGCTTACTA
1 AGCTTACTA
31366196 AGCTTACTA
1 AGCTTACTA
*
31366205 AGCTTAAT-
1 AGCTTACTA
31366213 AGCTTACT
1 AGCTTACT
31366221 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (9 bp):
AGCTTACTA
Found at i:31368342 original size:26 final size:25
Alignment explanation
Indices: 31368307--31368367 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
31368297 TTTACCCAAT
*
31368307 TAAAATTTTTGACAATTTTACGCTCGA
1 TAAAA-TTTTGACAATGTTA-GCTCGA
** *
31368334 TAAAATTTTGATGATGTTATCTCGA
1 TAAAATTTTGACAATGTTAGCTCGA
31368359 TAAAATTTT
1 TAAAATTTT
31368368 AAGAAAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.47
26 11 0.37
27 5 0.17
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (25 bp):
TAAAATTTTGACAATGTTAGCTCGA
Found at i:31370918 original size:21 final size:21
Alignment explanation
Indices: 31370878--31370919 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
31370868 TATTTAAATA
31370878 AAGTTTTCAATATTTATTTAT
1 AAGTTTTCAATATTTATTTAT
*
31370899 AAGTCTTTCACTATTT-TTTAT
1 AAGT-TTTCAATATTTATTTAT
31370920 TCCACCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
AAGTTTTCAATATTTATTTAT
Found at i:31380073 original size:110 final size:109
Alignment explanation
Indices: 31379862--31380075 Score: 275
Period size: 110 Copynumber: 2.0 Consensus size: 109
31379852 TCGGTGATCG
* * ** *
31379862 TTTAGCAAGTACTATGTACCTGTGATACAGACCATAGTGATGGCTGAGATCCTGCATCTGTTGCA
1 TTTAGCAAGTACTATGTACCAGTGATACAAACCATAACGATAGCTGAGATCCTGCATCTGTTGCA
* * * *
31379927 GATTTTCTACAGCTTGTGTGAGCAGTATCGTGAGTCAGTGATTA
66 GATTCTCTACAGCTTGTGAGAGCAGCATCGTAAGTCAGTGATTA
* * * *
31379971 TTTAGCAGGTACTATGTATCAGTGATACAAACCATAACGATAGCTTGAGATCTTGCATCTGTTGT
1 TTTAGCAAGTACTATGTACCAGTGATACAAACCATAACGATAGC-TGAGATCCTGCATCTGTTGC
* * *
31380036 GGATTCTCTATAGCTTGTGAGAGTAGCATCGTAAGTCAGT
65 AGATTCTCTACAGCTTGTGAGAGCAGCATCGTAAGTCAGT
31380076 CAAAGTTCTG
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
109 37 0.42
110 51 0.58
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (109 bp):
TTTAGCAAGTACTATGTACCAGTGATACAAACCATAACGATAGCTGAGATCCTGCATCTGTTGCA
GATTCTCTACAGCTTGTGAGAGCAGCATCGTAAGTCAGTGATTA
Found at i:31409001 original size:27 final size:27
Alignment explanation
Indices: 31408971--31409148 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
31408961 ATATTGAGCC
* * * *
31408971 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31408998 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31409025 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31409053 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31409080 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31409107 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
31409134 CGCACACTAAGTGCT
1 CGCACACTTAGTGCT
31409149 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31409110 original size:82 final size:81
Alignment explanation
Indices: 31408992--31409147 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31408982 TGCTATATAA
* *
31408992 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
*
31409057 CACTTAGTGCCGCATGG
65 CACTAAGTGCCGCATGG
* * **
31409074 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31409138 CACTAAGTGC
65 CACTAAGTGC
31409148 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTAAGTGCCGCATGG
Found at i:31417135 original size:27 final size:27
Alignment explanation
Indices: 31417105--31417282 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31417095 ATATTGAGCC
* * * *
31417105 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31417132 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31417159 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31417187 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31417214 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31417241 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31417268 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31417283 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31417244 original size:82 final size:81
Alignment explanation
Indices: 31417126--31417281 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31417116 TGCTATATAA
* *
31417126 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31417191 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31417208 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31417272 CACTTAGTGC
65 CACTTAGTGC
31417282 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31439839 original size:40 final size:40
Alignment explanation
Indices: 31439795--31439982 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
31439785 GCTACTAGCT
31439795 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
31439835 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
31439875 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
31439915 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
31439954 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31439983 CAATCCGAAT
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 104 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31443426 original size:5 final size:5
Alignment explanation
Indices: 31443416--31443453 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
31443406 TTTTCTTGTA
31443416 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
31443454 ACTTTTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Done.