Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 217 of 279
Found at i:71028052 original size:40 final size:40
Alignment explanation
Indices: 71027969--71028154 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
71027959 TTGAATGATG
* * * * *
71027969 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
71028009 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71028049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71028089 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71028130 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71028155 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71028172 original size:80 final size:79
Alignment explanation
Indices: 71027969--71028187 Score: 203
Period size: 80 Copynumber: 2.7 Consensus size: 79
71027959 TTGAATGATG
* ** * * * *
71027969 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCAT
71028032 TTGTGCGAGATACTAAA
63 TTGTGCGAGATACTAAA
* ** * *
71028049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
71028114 GTGCTAGTTACTATAA
65 GTGCGAGATACTA-AA
* * *
71028130 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
71028188 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
79 16 0.14
80 89 0.77
81 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:71029878 original size:15 final size:16
Alignment explanation
Indices: 71029846--71029878 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
71029836 TCAAGATGGA
*
71029846 ATTTTGAATTCATCTG
1 ATTTTGAATTCATATG
71029862 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
71029877 AT
1 AT
71029879 ACTTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (16 bp):
ATTTTGAATTCATATG
Found at i:71033000 original size:26 final size:26
Alignment explanation
Indices: 71032962--71033047 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
71032952 TGATGTTCAC
71032962 ATACCCCCAGATTGTAAAATTATCGAA
1 ATACCCCC-GATTGTAAAATTATCGAA
*
71032989 ATACCCCCGATTTGTAAAATTATTGAA
1 ATACCCCCGA-TTGTAAAATTATCGAA
* ** * *
71033016 ATAACCTTGTAGTGTAAAATTACCGAA
1 ATACCCCCG-ATTGTAAAATTATCGAA
71033043 ATACC
1 ATACC
71033048 TCTGTAGGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.04
27 46 0.94
28 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (26 bp):
ATACCCCCGATTGTAAAATTATCGAA
Found at i:71033031 original size:27 final size:27
Alignment explanation
Indices: 71033001--71033061 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
71032991 ACCCCCGATT
**
71033001 TGTAAAATTATTGAAATAACCT-TGTAG
1 TGTAAAATTACCGAAAT-ACCTCTGTAG
71033028 TGTAAAATTACCGAAATACCTCTGTAG
1 TGTAAAATTACCGAAATACCTCTGTAG
*
71033055 GGTAAAA
1 TGTAAAA
71033062 GATAGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCTCTGTAG
Found at i:71033640 original size:26 final size:25
Alignment explanation
Indices: 71033583--71033640 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
71033573 TGTAAGCAGT
*
71033583 ATATATATATCTGGTAGCTTTGCTGC
1 ATAT-TATATCTGGTAGCTATGCTGC
*
71033609 ATTATTATTTCTGGTAGCTATGCTGC
1 A-TATTATATCTGGTAGCTATGCTGC
71033635 GATATT
1 -ATATT
71033641 GGTGTGCTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (25 bp):
ATATTATATCTGGTAGCTATGCTGC
Found at i:71034837 original size:94 final size:93
Alignment explanation
Indices: 71034716--71034889 Score: 294
Period size: 94 Copynumber: 1.9 Consensus size: 93
71034706 GATAAAAAGG
* * *
71034716 GGATTTGATATATTCCTTATCAAATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTTTTATA
1 GGATATGATATATTCCTTAACAAATAAGGAAATAAAATTTAATTATT-TTTAAAAGAGTTTTAAA
71034781 TAAATAATAATTAAAATTCAAAATCAAAA
65 TAAATAATAATTAAAATTCAAAATCAAAA
* *
71034810 GGATATGATATATTCCTTAACAGATAAGGAAATAGAATTTAATTATTTTTAAAAGAGTTTTAAAT
1 GGATATGATATATTCCTTAACAAATAAGGAAATAAAATTTAATTATTTTTAAAAGAGTTTTAAAT
71034875 AAATAATAATTAAAA
66 AAATAATAATTAAAA
71034890 AATTTAATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 32 0.43
94 43 0.57
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (93 bp):
GGATATGATATATTCCTTAACAAATAAGGAAATAAAATTTAATTATTTTTAAAAGAGTTTTAAAT
AAATAATAATTAAAATTCAAAATCAAAA
Found at i:71034944 original size:49 final size:47
Alignment explanation
Indices: 71034845--71034970 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
71034835 AAGGAAATAG
71034845 AATTT-AATTATT-TTTAAAAGAGTTTTAAATAAATAATAATTAAAA
1 AATTTAAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAA
*
71034890 AATTTAATTATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAAT
1 AATTTAA--ATTATTATTTAAAAGAGTTTTAAATAAATA-ATAATTAAAA
* * * *
71034939 TATTTAAAATATTATTGAAAAAAGTATTTAAA
1 AATTTAAATTATTATTTAAAAGAGT-TTTAAA
71034971 AGTCAAGATA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
45 5 0.07
46 1 0.01
47 15 0.21
48 13 0.19
49 36 0.51
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (47 bp):
AATTTAAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAA
Found at i:71036432 original size:19 final size:19
Alignment explanation
Indices: 71036410--71036446 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71036400 CAATGATCCC
* *
71036410 TCATCCCTTCATTCCTTAA
1 TCATCCCTACATCCCTTAA
71036429 TCATCCCTACATCCCTTA
1 TCATCCCTACATCCCTTA
71036447 TTCAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (19 bp):
TCATCCCTACATCCCTTAA
Found at i:71040145 original size:45 final size:45
Alignment explanation
Indices: 71040096--71040203 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
71040086 GATGCCGATG
* * * *
71040096 TCCCAGACATGGACTTACACGTAACCAGATATATCAATGCCAACA
1 TCCCAGACGTGGTCTTACACGTAACCAAATATATCAACGCCAACA
* * * *
71040141 TCCCAGACGTGGTTTTACACGTATCCAAATATATCGACGCCAACG
1 TCCCAGACGTGGTCTTACACGTAACCAAATATATCAACGCCAACA
*
71040186 TACCAGACGTGGTCTTAC
1 TCCCAGACGTGGTCTTAC
71040204 TCGAAAACAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACACGTAACCAAATATATCAACGCCAACA
Found at i:71040509 original size:15 final size:15
Alignment explanation
Indices: 71040485--71040514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71040475 GTTCTTGATC
71040485 TAAACATATTCAAAT
1 TAAACATATTCAAAT
*
71040500 TAAACTTATTCAAAT
1 TAAACATATTCAAAT
71040515 ATATTTTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAACATATTCAAAT
Found at i:71043795 original size:10 final size:10
Alignment explanation
Indices: 71043782--71043820 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
71043772 ATATATGAAT
71043782 ATATCATGGC
1 ATATCATGGC
71043792 ATATCATGTGC
1 ATATCATG-GC
*
71043803 ATATCATTGC
1 ATATCATGGC
71043813 ATATCATG
1 ATATCATG
71043821 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:71043808 original size:21 final size:21
Alignment explanation
Indices: 71043782--71043821 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
71043772 ATATATGAAT
71043782 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
71043803 ATATCATTGCATATCATGT
1 ATATCATGGCATATCATGT
71043822 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:71047536 original size:27 final size:26
Alignment explanation
Indices: 71047501--71047612 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
71047491 AGCATGGCTG
* *
71047501 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
71047527 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
71047555 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
71047582 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
71047609 CCAG
1 CCAG
71047613 GATGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:71047564 original size:54 final size:54
Alignment explanation
Indices: 71047501--71047612 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
71047491 AGCATGGCTG
* *
71047501 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
71047555 CCAGAACAGAAATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
71047609 CCAG
1 CCAG
71047613 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:71049565 original size:40 final size:40
Alignment explanation
Indices: 71049475--71049694 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
71049465 ACCCAAGTAT
* ** * * *
71049475 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
71049513 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
71049553 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71049593 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
71049633 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
71049673 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71049695 CATTCGAATA
Statistics
Matches: 154, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 121 0.79
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:71052546 original size:24 final size:24
Alignment explanation
Indices: 71052519--71052589 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
71052509 CTAGATTTCC
** *
71052519 TCCCTTATCTGCTCCTAAATCGTA
1 TCCCTTATCAACTCCTAAATCCTA
71052543 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
71052567 TCCTTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
71052590 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.03, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:71061705 original size:14 final size:14
Alignment explanation
Indices: 71061686--71061716 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
71061676 ACACACAGCC
71061686 GTGTCTCAGCTTAT
1 GTGTCTCAGCTTAT
71061700 GTGTCTCAGCTTAT
1 GTGTCTCAGCTTAT
71061714 GTG
1 GTG
71061717 GCTAACACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (14 bp):
GTGTCTCAGCTTAT
Found at i:71063560 original size:49 final size:48
Alignment explanation
Indices: 71063468--71063586 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
71063458 TCAATTTGAT
* *
71063468 GCCATGTCCCAGACATGGTCTTACACTGACTATTAAAACCGAGGCCGAC
1 GCCATGTCCCAGACAT-GTCTTAAACTGACTATCAAAACCGAGGCCGAC
* * * *
71063517 GCCATGTCCCAGACATGTCTTAAACTGGCT-TGCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGTCTTAAACTGACTAT-CAAAAC-CGAGGCCGAC
*
71063566 G-CATGTGCCAGACATGTCTTA
1 GCCATGTCCCAGACATGTCTTA
71063587 CACTAGCTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
47 1 0.02
48 34 0.56
49 26 0.43
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (48 bp):
GCCATGTCCCAGACATGTCTTAAACTGACTATCAAAACCGAGGCCGAC
Found at i:71067357 original size:30 final size:29
Alignment explanation
Indices: 71067314--71067389 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
71067304 CAACCATATG
* *
71067314 ATTCATATATATATATGTCACATAT-TTC-C
1 ATTCATTTGTATATAT-T-ACATATATTCTC
*
71067343 AATTCATTTGTATATATTGCATATATTCTC
1 -ATTCATTTGTATATATTACATATATTCTC
71067373 ATTCATTTGTCATATAT
1 ATTCATTTGT-ATATAT
71067390 CATCACTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 14 0.35
30 21 0.52
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTCATTTGTATATATTACATATATTCTC
Found at i:71067672 original size:42 final size:43
Alignment explanation
Indices: 71067564--71067673 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
71067554 TCGTACAATG
* * *
71067564 CCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGATA
* * *
71067607 CCACTATCCCAGACAAGGTCTTACATGAAATCAAATA-CGATA
1 CCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGATA
*
71067649 CCAATGTCCCAGACGTGGTCTTACA
1 CCAATGTCCCAGACATGGTCTTACA
71067674 CGATAACTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCGATA
Found at i:71070562 original size:48 final size:48
Alignment explanation
Indices: 71070493--71070828 Score: 537
Period size: 48 Copynumber: 7.0 Consensus size: 48
71070483 AGATAAATAT
* *
71070493 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
71070541 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
71070589 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
71070637 ATATGTATGAGATATGTATATGTGGTAAAACCGAATGACTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
71070685 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGATAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
71070733 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
71070781 ATATGTATGAGATAAGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
71070829 TGTTGTAACA
Statistics
Matches: 263, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 263 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:71070763 original size:144 final size:144
Alignment explanation
Indices: 71070503--71070828 Score: 607
Period size: 144 Copynumber: 2.3 Consensus size: 144
71070493 ATATATGTGT
71070503 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
*
71070568 AAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATG
66 AAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATG
71070633 TGAAATATGTATGA
131 TGAAATATGTATGA
* *
71070647 GATATGTATATGTGGTAAAACCGAATGACTAATGTGAAATATATATGAGATATGTATATGTGGTA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
71070712 AAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATG
66 AAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATG
71070777 TGAAATATGTATGA
131 TGAAATATGTATGA
* *
71070791 GATAAGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
71070829 TGTTGTAACA
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 175 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (144 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
AAGCCGAATGGATAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATG
TGAAATATGTATGA
Found at i:71070931 original size:37 final size:37
Alignment explanation
Indices: 71070881--71070980 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
71070871 ATTCCGAGTG
71070881 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
*
71070918 AGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
* *
71070955 AGACCCGATAACTTCGTGTGGAGATT
1 AGACCCGATGACTACGTGTGGAGATT
71070981 TCGTCTGAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
Found at i:71074522 original size:19 final size:19
Alignment explanation
Indices: 71074488--71074524 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71074478 TTCATCATAA
*
71074488 TAAAACAAAATAATAAAAG
1 TAAAACAAAACAATAAAAG
*
71074507 TAAAACAAAACCATAAAA
1 TAAAACAAAACAATAAAA
71074525 ATAAGTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.11, G:0.03, T:0.14
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAG
Found at i:71075028 original size:55 final size:56
Alignment explanation
Indices: 71074963--71075077 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
71074953 AGCATGGGTG
* *
71074963 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
71075019 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
71075074 CCAG
1 CCAG
71075078 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:71075040 original size:27 final size:27
Alignment explanation
Indices: 71074988--71075077 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71074978 GTGACAGAGT
71074988 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71075017 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71075044 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71075072 CACCAG
1 CACCAG
71075078 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71075120 original size:75 final size:75
Alignment explanation
Indices: 71075030--71075179 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
71075020 CAGAACAGAT
71075030 ATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGGACGCTTCCTCCATAAT
1 ATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGGACGCTTCCTCCATAAT
71075095 ATAACCCATG
66 ATAACCCATG
* *
71075105 ATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGGATGCTTCCTTCATAAT
1 ATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGGACGCTTCCTCCATAAT
71075170 ATAACCCATG
66 ATAACCCATG
71075180 TCCCCATGCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (75 bp):
ATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCAGGACGCTTCCTCCATAAT
ATAACCCATG
Found at i:71075304 original size:27 final size:27
Alignment explanation
Indices: 71075261--71075317 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
71075251 TTAACCCTAG
* *
71075261 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGAATACATA
*
71075288 GGGTATAATGGTAATTTTGAATACATA
1 GGGTATAAAGGTAATTTTGAATACATA
71075315 GGG
1 GGG
71075318 GTATTCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGAATACATA
Found at i:71075596 original size:8 final size:8
Alignment explanation
Indices: 71075570--71075599 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
71075560 CAAAATACCA
71075570 GCTTTTCG
1 GCTTTTCG
*
71075578 GCATTTCG
1 GCTTTTCG
71075586 GCTTTTCG
1 GCTTTTCG
71075594 GCTTTT
1 GCTTTT
71075600 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:71081451 original size:28 final size:28
Alignment explanation
Indices: 71081419--71081546 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
71081409 ATAGTAAGTC
*
71081419 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
71081447 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
71081476 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
71081504 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71081533 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71081547 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71081509 original size:57 final size:57
Alignment explanation
Indices: 71081418--71081546 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
71081408 TATAGTAAGT
*
71081418 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
71081475 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
71081532 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
71081547 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:71085038 original size:19 final size:19
Alignment explanation
Indices: 71085004--71085040 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71084994 TTCATCATAA
*
71085004 TAAAACAAAATAATAAAAG
1 TAAAACAAAACAATAAAAG
*
71085023 TAAAACAAAACCATAAAA
1 TAAAACAAAACAATAAAA
71085041 ATAAGTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.11, G:0.03, T:0.14
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAG
Found at i:71085543 original size:55 final size:56
Alignment explanation
Indices: 71085478--71085592 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
71085468 AGCATGGGTG
* *
71085478 CCAGATACAGA-AAATGTCACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTCACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* ** *
71085534 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTCACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
71085589 CCAG
1 CCAG
71085593 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTCACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:71085555 original size:27 final size:27
Alignment explanation
Indices: 71085503--71085592 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71085493 GTCACAGAGT
71085503 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71085532 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71085559 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71085587 CACCAG
1 CACCAG
71085593 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71085745 original size:28 final size:28
Alignment explanation
Indices: 71085698--71085762 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
71085688 AAATTAACCC
*
71085698 TAGGGGTATAAAGGCCATTTTGCATACA
1 TAGGGGTATAAAGGCAATTTTGCATACA
* *
71085726 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGCAATTTTGCATACA
71085754 TAGGGGTAT
1 TAGGGGTAT
71085763 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGCAATTTTGCATACA
Found at i:71092551 original size:62 final size:62
Alignment explanation
Indices: 71092454--71092576 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
71092444 GAAAGAAACC
*
71092454 AGGTTCGTAGAAACATGTGGCCAGTCCGAATCCCTCACAGCTCCAATCCCACTATGGTTGAA
1 AGGTTCGTAGAAACATGTGGCCAGTCCGAATCCCTCACAGCTCCAAGCCCACTATGGTTGAA
*
71092516 AGGTTCGTAGAAACATGTGGCCAGTCCGAATCCCTCGCAGCTCCAAGCCCACTATGGTTGA
1 AGGTTCGTAGAAACATGTGGCCAGTCCGAATCCCTCACAGCTCCAAGCCCACTATGGTTGA
71092577 GGATTACCTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (62 bp):
AGGTTCGTAGAAACATGTGGCCAGTCCGAATCCCTCACAGCTCCAAGCCCACTATGGTTGAA
Found at i:71092950 original size:27 final size:27
Alignment explanation
Indices: 71092898--71092987 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71092888 GTGACAGAGT
71092898 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71092927 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71092954 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71092982 CACCAG
1 CACCAG
71092988 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71100145 original size:44 final size:42
Alignment explanation
Indices: 71100057--71100150 Score: 116
Period size: 44 Copynumber: 2.2 Consensus size: 42
71100047 TCCCAGACAG
*
71100057 GGTCTTACACGAAATCAAAAACGATGCCAACATACCAGAGGT
1 GGTCTTACACGAAATCAAAAACGATGCCAACATACCAAAGGT
** * * *
71100099 GGTCTTACACGTAAATCATAAGTCGATGCCAACATTCTAAATGT
1 GGTCTTACACG-AAATCA-AAAACGATGCCAACATACCAAAGGT
71100143 GGTCTTAC
1 GGTCTTAC
71100151 GTGATAACTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 11 0.25
43 6 0.14
44 27 0.61
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAAAACGATGCCAACATACCAAAGGT
Found at i:71101262 original size:13 final size:13
Alignment explanation
Indices: 71101246--71101270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71101236 CACACAAACA
71101246 ATTAAATTTTCAT
1 ATTAAATTTTCAT
71101259 ATTAAATTTTCA
1 ATTAAATTTTCA
71101271 CACATACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAATTTTCAT
Found at i:71102224 original size:20 final size:21
Alignment explanation
Indices: 71102189--71102229 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
71102179 TATATTTTGC
*
71102189 AAAAATTTTCTAAGTT-TCGT
1 AAAAATTTCCTAAGTTATCGT
*
71102209 AAAAATTTCCTGAGTTATCGT
1 AAAAATTTCCTAAGTTATCGT
71102230 TTTAGTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
AAAAATTTCCTAAGTTATCGT
Found at i:71104211 original size:16 final size:16
Alignment explanation
Indices: 71104190--71104233 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
71104180 GGCAAAAGCT
*
71104190 GAAAAGCCAAAATACC
1 GAAAAGCCAAAACACC
*
71104206 GAAAAGCCAAAACGCC
1 GAAAAGCCAAAACACC
71104222 GAAAAGCCAAAA
1 GAAAAGCCAAAA
71104234 GTTTGGCTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.25, G:0.16, T:0.02
Consensus pattern (16 bp):
GAAAAGCCAAAACACC
Found at i:71104486 original size:29 final size:29
Alignment explanation
Indices: 71104444--71104547 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
71104434 GTGAGCATGA
* *
71104444 ATAT-AAGGTGATTTGGGTGTAACT-GGCC
1 ATATAAAGGTGAATTGGGTCTAA-TAGGCC
*
71104472 ATATAAAGGTGATTTGGGTCTAATAGGCC
1 ATATAAAGGTGAATTGGGTCTAATAGGCC
* * * * *
71104501 ATGTGAATGTGAATTGGGTCTGATGGGCC
1 ATATAAAGGTGAATTGGGTCTAATAGGCC
*
71104530 ATATAAATGTGAATTGGG
1 ATATAAAGGTGAATTGGG
71104548 CCCGATGGGC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 5 0.08
29 60 0.92
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.32
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGTCTAATAGGCC
Found at i:71104554 original size:29 final size:29
Alignment explanation
Indices: 71104468--71104567 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
71104458 GGGTGTAACT
* * * *
71104468 GGCCATATAAAGGTGATTTGGGTCTAATA
1 GGCCATATAAATGTGAATTGGGTCTGATG
* *
71104497 GGCCATGTGAATGTGAATTGGGTCTGATG
1 GGCCATATAAATGTGAATTGGGTCTGATG
* *
71104526 GGCCATATAAATGTGAATTGGGCCCGATG
1 GGCCATATAAATGTGAATTGGGTCTGATG
*
71104555 GGCCATATGAATG
1 GGCCATATAAATG
71104568 AGATGGGTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (29 bp):
GGCCATATAAATGTGAATTGGGTCTGATG
Found at i:71110989 original size:25 final size:25
Alignment explanation
Indices: 71110961--71111009 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
71110951 TTTTCTCCTA
*
71110961 AATTTATTTAATTATTTAAT-TTTTC
1 AATTTATTAAATTA-TTAATATTTTC
71110986 AATTTATTAAATTATTAATATTTT
1 AATTTATTAAATTATTAATATTTT
71111010 ATACTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
AATTTATTAAATTATTAATATTTTC
Found at i:71112378 original size:27 final size:27
Alignment explanation
Indices: 71112254--71112369 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
71112244 ATAAATACAT
* * *
71112254 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * **
71112280 CATATGAGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
71112307 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
71112334 CACATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
71112361 CACATAAGG
1 CACATAAGG
71112370 CCATGATAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 4 0.05
27 76 0.95
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:71112387 original size:54 final size:54
Alignment explanation
Indices: 71112276--71112405 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
71112266 AACAATCATC
* * * *
71112276 TTACCATATGAGGGCAAAACAGTCATCCTACCACATAAGGGCAAAATAGTCATT
1 TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTCAAT
* * ** **
71112330 TTACCACATAAGGGTAAAATAGTCATTTTACCACATAAGGCCATGATAG-CAAAT
1 TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTC-AAT
* * *
71112384 TTACCTCATAGGGGCAGAACAG
1 TTACCACATAAGGGCAAAACAG
71112406 ACATTTATCA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (54 bp):
TTACCACATAAGGGCAAAACAGTCATCCTACCACATAAGGCCAAAATAGTCAAT
Found at i:71113440 original size:39 final size:38
Alignment explanation
Indices: 71113381--71113456 Score: 125
Period size: 39 Copynumber: 2.0 Consensus size: 38
71113371 TGATGAAAAT
*
71113381 AGGGAAAGATTTGGCCAAGGGAAACCAAAGTGGAGAAC
1 AGGGAAAGATTTGGCCAAGGGAAAACAAAGTGGAGAAC
*
71113419 NAGGGAAAGATTTGGCTAAGGGAAAACAAAGTGGAGAA
1 -AGGGAAAGATTTGGCCAAGGGAAAACAAAGTGGAGAA
71113457 TGTTTTCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.34, T:0.12
Consensus pattern (38 bp):
AGGGAAAGATTTGGCCAAGGGAAAACAAAGTGGAGAAC
Found at i:71122390 original size:17 final size:18
Alignment explanation
Indices: 71122361--71122394 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
71122351 TGTGGCTTGA
71122361 CTGTGTGGGCCCACATGC
1 CTGTGTGGGCCCACATGC
71122379 CTGTGT-GGCCCACATG
1 CTGTGTGGGCCCACATG
71122395 GCCCAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (18 bp):
CTGTGTGGGCCCACATGC
Found at i:71125841 original size:47 final size:47
Alignment explanation
Indices: 71125787--71126281 Score: 738
Period size: 47 Copynumber: 10.5 Consensus size: 47
71125777 TATTTGAATA
*
71125787 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125834 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125883 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125932 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
71125981 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG--GCCGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG-TGATG
*
71126029 --TGATGAATGTG-A-A-A-GTG-TAAGGCCTAATGGCCGATGTGATG
1 AATG-TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
71126070 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
71126117 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
71126164 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
71126211 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
71126258 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
71126282 GAGTCCCGAA
Statistics
Matches: 421, Mismatches: 14, Indels: 26
0.91 0.03 0.06
Matches are distributed among these distances:
40 16 0.04
41 7 0.02
42 9 0.02
43 4 0.01
44 2 0.00
45 1 0.00
46 5 0.01
47 200 0.48
48 4 0.01
49 173 0.41
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:71125866 original size:49 final size:49
Alignment explanation
Indices: 71125787--71126281 Score: 464
Period size: 49 Copynumber: 10.5 Consensus size: 49
71125777 TATTTGAATA
*
71125787 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125834 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125883 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125932 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
71125981 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAT----GGCCGATGTGATG
* * *
71126034 AATGTGAAAGTG----TA-A-G-GCCTAATGGCC-GAT-G-TGATGAATG-TG
1 AATGTGAAAGTGTATATATATGTG-ATAA-GGCCTAATGGCCGATG--TGATG
* * * * * * * *
71126076 AAAGTG-TA-TATATGTGATAAG-GCCTAATGGCC-GAT-G-TGATGAATG-TG
1 AATGTGAAAGTGTATAT-ATATGTG-ATAA-GGCCTAATGGCCGATG--TGATG
71126123 -A-----AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
71126164 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
71126211 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
71126258 GATGTGAAAGTGTATA-A-ATGTGAT
1 AATGTGAAAGTGTATATATATGTGAT
71126282 GAGTCCCGAA
Statistics
Matches: 395, Mismatches: 22, Indels: 62
0.82 0.05 0.13
Matches are distributed among these distances:
39 4 0.01
40 12 0.03
41 11 0.03
42 14 0.04
43 3 0.01
44 1 0.00
45 1 0.00
46 3 0.01
47 143 0.36
48 6 0.02
49 172 0.44
53 25 0.06
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:71132187 original size:37 final size:37
Alignment explanation
Indices: 71132118--71132380 Score: 222
Period size: 37 Copynumber: 7.0 Consensus size: 37
71132108 CGTATCAATG
* * **
71132118 GATAATGCTCGTTTGAGCGTGCATTCCTTATAATCAGTA
1 GATATTGCTCGTTTGAGC--ACATTCAGTATAATCAGTA
* * * * *
71132157 GATATCGCTCATTTGAGCCCATTCAGTATAATCAATG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * *
71132194 GACATTGCTCGTTTGAGTAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAG-CACATTCAGTATAATCAGTA
* * * ** * *
71132232 GACATTTCTCTTTTGAGCATGTTCAGTATATTCAATA
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
* * * *
71132269 GATATTGCTCGTTTGAGCCCATTCAATATAATTAGTG
1 GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
*
71132306 GATATTGCTCGTTTGAGCAACTTTCAGTATAATCAGTA
1 GATATTGCTCGTTTGAGC-ACATTCAGTATAATCAGTA
* * * *
71132344 AATATTGCT-TTTATGAGCACGTTCAGTATATTCAGTA
1 GATATTGCTCGTT-TGAGCACATTCAGTATAATCAGTA
71132381 TTCCATTTTT
Statistics
Matches: 178, Mismatches: 43, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
37 106 0.60
38 57 0.32
39 15 0.08
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (37 bp):
GATATTGCTCGTTTGAGCACATTCAGTATAATCAGTA
Found at i:71132314 original size:112 final size:112
Alignment explanation
Indices: 71132146--71132377 Score: 331
Period size: 112 Copynumber: 2.1 Consensus size: 112
71132136 GTGCATTCCT
* * *
71132146 TATAATCAGTAGATATCGCTCATTTGAGCCCATTCAGTATAATCAATGGACATTGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
* * * *
71132211 TAACTTTCAGTATAATCAGTAGACATTTCTCTTT-TGAGCATGTTCAG
66 CAACTTTCAGTATAATCAGTAAACATTGCT-TTTATGAGCACGTTCAG
* * * * *
71132258 TATATTCAATAGATATTGCTCGTTTGAGCCCATTCAATATAATTAGTGGATATTGCTCGTTTGAG
1 TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
*
71132323 CAACTTTCAGTATAATCAGTAAATATTGCTTTTATGAGCACGTTCAG
66 CAACTTTCAGTATAATCAGTAAACATTGCTTTTATGAGCACGTTCAG
71132370 TATATTCA
1 TATATTCA
71132378 GTATTCCATT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
111 3 0.03
112 103 0.97
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (112 bp):
TATATTCAATAGATATCGCTCATTTGAGCCCATTCAATATAATCAATGGACATTGCTCGTTTGAG
CAACTTTCAGTATAATCAGTAAACATTGCTTTTATGAGCACGTTCAG
Found at i:71132349 original size:75 final size:74
Alignment explanation
Indices: 71132111--71132380 Score: 229
Period size: 75 Copynumber: 3.6 Consensus size: 74
71132101 TATTTCACGT
* * * ** * *
71132111 ATCAATGGATAATGCTCGTTTGAGCGTGCATTCCTTATAATCAGTAGATATCGCTCATTTGAGCC
1 ATCAATAGATATTGCTCGTTTGAGC--ACATTCAATATAATCAGTAGATATTGCTCATTTGAGCA
*
71132176 CATTCAGTATA
64 CTTTCAGTATA
* * * * * * * *
71132187 ATCAATGGACATTGCTCGTTTGAGTAACTTTCAGTATAATCAGTAGACATTTCTCTTTTGAGCA-
1 ATCAATAGATATTGCTCGTTTGAG-CACATTCAATATAATCAGTAGATATTGCTCATTTGAGCAC
71132251 TGTTCAGTATA
65 T-TTCAGTATA
* * * * *
71132262 TTCAATAGATATTGCTCGTTTGAGCCCATTCAATATAATTAGTGGATATTGCTCGTTTGAGCAAC
1 ATCAATAGATATTGCTCGTTTGAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGC-AC
71132327 TTTCAGTATA
65 TTTCAGTATA
* * * * * *
71132337 ATCAGTAAATATTGCT-TTTATGAGCACGTTCAGTATATTCAGTA
1 ATCAATAGATATTGCTCGTT-TGAGCACATTCAATATAATCAGTA
71132381 TTCCATTTTT
Statistics
Matches: 154, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
74 31 0.20
75 100 0.65
76 23 0.15
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (74 bp):
ATCAATAGATATTGCTCGTTTGAGCACATTCAATATAATCAGTAGATATTGCTCATTTGAGCACT
TTCAGTATA
Found at i:71134459 original size:18 final size:18
Alignment explanation
Indices: 71134436--71134478 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
71134426 TAAGTTTCTA
*
71134436 AAAATGGAAATAGAAATG
1 AAAATGAAAATAGAAATG
71134454 AAAATGAAAATAGAAATG
1 AAAATGAAAATAGAAATG
71134472 AAAATGA
1 AAAATGA
71134479 TGCATTCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:71143287 original size:13 final size:13
Alignment explanation
Indices: 71143269--71143293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71143259 CAAACTTACG
71143269 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
71143282 AGAAGAAAAAAA
1 AGAAGAAAAAAA
71143294 TTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:71144615 original size:17 final size:17
Alignment explanation
Indices: 71144593--71144627 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71144583 ACCTTGTGCT
71144593 TCAGAACTTAGGAAAAG
1 TCAGAACTTAGGAAAAG
71144610 TCAGAACTTAGGAAAAG
1 TCAGAACTTAGGAAAAG
71144627 T
1 T
71144628 TAGTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (17 bp):
TCAGAACTTAGGAAAAG
Found at i:71145015 original size:13 final size:13
Alignment explanation
Indices: 71144941--71145017 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
71144931 AGTTTGGCAA
71144941 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
71144954 TGCTGTAT-AAAAG
1 TGCT-TTTGAAAAG
* *
71144967 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
71144980 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
71144993 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
71145006 TACTTTTGAAAA
1 TGCTTTTGAAAA
71145018 ATTTAAGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 2 0.04
13 51 0.93
14 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:71145196 original size:8 final size:9
Alignment explanation
Indices: 71145178--71145225 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
71145168 TATTATAACT
71145178 TATTATTAA
1 TATTATTAA
71145187 TATT-TTAATA
1 TATTATT-A-A
71145197 TATTATTAA
1 TATTATTAA
71145206 TATT-TTAA
1 TATTATTAA
71145214 TA-TA-TAA
1 TATTATTAA
71145221 TATTA
1 TATTA
71145226 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:71145224 original size:21 final size:19
Alignment explanation
Indices: 71145178--71145236 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
71145168 TATTATAACT
71145178 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
71145197 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
71145216 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
71145236 T
1 T
71145237 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:71146129 original size:29 final size:30
Alignment explanation
Indices: 71146083--71146146 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
71146073 TAATTTGGTT
71146083 AAAATAGATTTTTAAAATAAGGTTTAATTTG
1 AAAATAGATTTTTAAAATAAGGTTTAA-TTG
* * *
71146114 AAAATA-A-TTTTGAAATTAGTTTTAATTG
1 AAAATAGATTTTTAAAATAAGGTTTAATTG
71146142 AAAAT
1 AAAAT
71146147 TAAGGACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 15 0.50
30 1 0.03
31 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (30 bp):
AAAATAGATTTTTAAAATAAGGTTTAATTG
Found at i:71147511 original size:27 final size:29
Alignment explanation
Indices: 71147461--71147576 Score: 80
Period size: 29 Copynumber: 3.9 Consensus size: 29
71147451 TAAAAGGTAT
71147461 GTGTATATATAATAGATACGTATA-GAAGTTTT-
1 GTGTATATAT-ATA-ATA--TATATG-AGTTTTG
71147493 GT-TATATATATAATATATATGAGTTTTG
1 GTGTATATATATAATATATATGAGTTTTG
* * * *
71147521 GTGTTTTTATATAATATATAT--GTGTGG
1 GTGTATATATATAATATATATGAGTTTTG
* *
71147548 GTTTTATTATATATAATATATATGTGTTT
1 G-TGTA-TATATATAATATATATGAGTTT
71147577 ATAGGTTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
27 15 0.22
28 5 0.07
29 34 0.49
30 3 0.04
31 10 0.14
32 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (29 bp):
GTGTATATATATAATATATATGAGTTTTG
Found at i:71147541 original size:29 final size:29
Alignment explanation
Indices: 71147494--71147603 Score: 98
Period size: 29 Copynumber: 3.7 Consensus size: 29
71147484 AGAAGTTTTG
* *
71147494 TTATATATATAATATATATGAGTTTTGGTG
1 TTATTTATATAATATATATG-GTTTTGGTT
* *
71147524 TT-TTTATATAATATATAT-GTGTGGGTT
1 TTATTTATATAATATATATGGTTTTGGTT
71147551 TTATTATATATAATATATATGTGTTTATAGGTT
1 TTATT-TATATAATATATATG-GTTT-T-GGTT
* *
71147584 TTGTATTATCTAATATATAT
1 TTAT-TTATATAATATATAT
71147604 AAATGTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.12
28 2 0.03
29 29 0.45
30 2 0.03
31 3 0.05
33 20 0.31
34 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (29 bp):
TTATTTATATAATATATATGGTTTTGGTT
Found at i:71151593 original size:42 final size:42
Alignment explanation
Indices: 71151491--71151645 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 42
71151481 TTCTGAAATG
*
71151491 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
71151533 ATGATTACGTGTAAGACCATGTCTGGAACATTGCCATCGTATT
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
71151576 TGATTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * *
71151619 TGATAACATGTAAGATCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
71151646 TATGACATTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 33 0.34
43 64 0.66
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:71161802 original size:46 final size:47
Alignment explanation
Indices: 71161692--71161813 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
71161682 TGTCCTCGAC
** * *
71161692 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
71161742 ATGGGCTTATATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
71161788 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
71161814 CTGTCCTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:71165935 original size:30 final size:30
Alignment explanation
Indices: 71165901--71165975 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
71165891 CTGCTGGTGA
*
71165901 TGGTGGTGGTGGTGAAAGTTTTTCTCCTAG
1 TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
* * *
71165931 TGGTGGCGGTGGTGAATGTTTTTCTTCTTG
1 TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
71165961 TGGTGGCGGTGGTGA
1 TGGTGGCGGTGGTGA
71165976 CGTTTTAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.09, C:0.09, G:0.41, T:0.40
Consensus pattern (30 bp):
TGGTGGCGGTGGTGAAAGTTTTTCTCCTAG
Found at i:71168213 original size:32 final size:31
Alignment explanation
Indices: 71168172--71168242 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
71168162 TGGGTCAGCT
*
71168172 TACAAATT-AATTACAAGAATATGTTGTTTGC
1 TACAAATTAAATTACAA-AATAGGTTGTTTGC
* * *
71168203 TACAATATTAAATTTCGAAATGGGTTGTTTGC
1 TACAA-ATTAAATTACAAAATAGGTTGTTTGC
71168235 TACAAATT
1 TACAAATT
71168243 GGTAGGGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 20 0.59
33 6 0.18
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (31 bp):
TACAAATTAAATTACAAAATAGGTTGTTTGC
Found at i:71169320 original size:19 final size:20
Alignment explanation
Indices: 71169290--71169327 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
71169280 TTTAAGGGCC
71169290 ACACGCCCATGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
*
71169310 ACACG-CCATGTGGGTTGG
1 ACACGCCCATGTGGCTTGG
71169328 CCGTGTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (20 bp):
ACACGCCCATGTGGCTTGGG
Found at i:71172076 original size:45 final size:45
Alignment explanation
Indices: 71172012--71172101 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
71172002 AAGGAAGTGG
*
71172012 TGTAGGGGAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGA
1 TGTAGGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGA
71172057 TGTAGGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGA
1 TGTAGGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGA
71172102 GGAGAAGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.39, C:0.04, G:0.39, T:0.18
Consensus pattern (45 bp):
TGTAGGGAAGAGTGGTAGAAGGATTCAGCTATGGAGAAAAGAAGA
Found at i:71177885 original size:37 final size:37
Alignment explanation
Indices: 71177835--71177909 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
71177825 AAATAATATC
71177835 TTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTT
1 TTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTT
*
71177872 TTGAGTTTCACAACTCGAAATTCAGTTTTGTGATTTT
1 TTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTT
71177909 T
1 T
71177910 CCCTGAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (37 bp):
TTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTT
Found at i:71178836 original size:40 final size:40
Alignment explanation
Indices: 71178656--71178876 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
71178646 CTCGTTCAAG
* * * * *
71178656 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
71178695 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
71178735 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
71178775 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
71178815 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
71178855 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
71178877 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:71178885 original size:41 final size:41
Alignment explanation
Indices: 71178808--71178885 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71178798 TTAGTATCTC
* * *
71178808 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71178849 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71178886 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71180357 original size:37 final size:37
Alignment explanation
Indices: 71180307--71180380 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
71180297 AGCGGTCCCG
71180307 AAACCACTTCCCGACTAGGGTCAACCTTGGGCTGTCA
1 AAACCACTTCCCGACTAGGGTCAACCTTGGGCTGTCA
*
71180344 AAACCACTTCCCGACTAGGGTCAACTTTGGGCTGTCA
1 AAACCACTTCCCGACTAGGGTCAACCTTGGGCTGTCA
71180381 CAGCCTCCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (37 bp):
AAACCACTTCCCGACTAGGGTCAACCTTGGGCTGTCA
Found at i:71182100 original size:38 final size:37
Alignment explanation
Indices: 71182056--71182175 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 37
71182046 TTTAAACTTA
71182056 GATATAATACCAGCATTAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCATTA-GCCTGCGGGATTTAACCCG
** *
71182094 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 GATATAATACCAGCA-TTAGCCTGCGGGATTTAACCCG
*** *
71182132 GATATAATTTTAGCATATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATACCAGCAT-TAGCCTGCGGG-ATTTAA-CCCG
71182172 GATA
1 GATA
71182176 CACATCAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 55 0.81
39 6 0.09
40 7 0.10
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (37 bp):
GATATAATACCAGCATTAGCCTGCGGGATTTAACCCG
Found at i:71182156 original size:76 final size:80
Alignment explanation
Indices: 71182019--71182175 Score: 189
Period size: 78 Copynumber: 2.0 Consensus size: 80
71182009 AAACCCAAAC
**
71182019 ATAACACCAGCACGAAGCCTACAGGACTTTAAACTTAGATATAATACCAGCATTAGGCCTGCGGG
1 ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCATTAGGCCTGCGGG
71182084 -ATTTAA-CCCGGAT
66 TATTTAAGCCCGGAT
* * * ***
71182097 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCAGATATAATTTTAGCATATA-GCCTGCGG
1 ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCAT-TAGGCCTGCGG
*
71182159 GTCTTTAAGCCCGGAT
65 GTATTTAAGCCCGGAT
71182175 A
1 A
71182176 CACATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 26 0.39
77 10 0.15
78 31 0.46
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (80 bp):
ATAACACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCATTAGGCCTGCGGG
TATTTAAGCCCGGAT
Found at i:71185810 original size:38 final size:37
Alignment explanation
Indices: 71185754--71185829 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
71185744 ATAGTTACTC
* * *
71185754 TTTCCCACTTCCATAGTGGAATTTTCATCTGTTGCAG
1 TTTCCCACTTCCACAGTGGAATTTTCACCGGTTGCAG
*
71185791 NTTTCCCACTTCTACAGTGGAATTTTCACCGGTTGCAG
1 -TTTCCCACTTCCACAGTGGAATTTTCACCGGTTGCAG
71185829 T
1 T
71185830 AATCCAGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.38
Consensus pattern (37 bp):
TTTCCCACTTCCACAGTGGAATTTTCACCGGTTGCAG
Found at i:71189704 original size:15 final size:17
Alignment explanation
Indices: 71189684--71189722 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
71189674 CTCCTTTCAA
71189684 CAAAAAAATT-G-TTTT
1 CAAAAAAATTAGATTTT
71189699 CAAAAAAATTAGATTTTT
1 CAAAAAAATTAGA-TTTT
71189717 CAAAAA
1 CAAAAA
71189723 TACCCTCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
18 10 0.48
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (17 bp):
CAAAAAAATTAGATTTT
Found at i:71192033 original size:49 final size:48
Alignment explanation
Indices: 71191961--71192054 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 48
71191951 AAGGAAGTGG
71191961 TGTAGGGAAGAGTGGTAGAAGGATT-CAGCTATGGAGAAAAGAAGAGGA
1 TGTAGGGAAGAGTGGTAGAAGGATTCCA-CTATGGAGAAAAGAAGAGGA
71192009 NTGTAGGGAAGAGTGGTAGAAGGATTCCACTATGGAGAAAAGAAGA
1 -TGTAGGGAAGAGTGGTAGAAGGATTCCACTATGGAGAAAAGAAGA
71192055 TGAGAAGGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 42 0.95
50 2 0.05
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.17
Consensus pattern (48 bp):
TGTAGGGAAGAGTGGTAGAAGGATTCCACTATGGAGAAAAGAAGAGGA
Found at i:71193637 original size:13 final size:13
Alignment explanation
Indices: 71193619--71193643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71193609 AATATTGCAT
71193619 GAAAATTTTTATA
1 GAAAATTTTTATA
71193632 GAAAATTTTTAT
1 GAAAATTTTTAT
71193644 CAATTATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:71194124 original size:20 final size:22
Alignment explanation
Indices: 71194101--71194141 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
71194091 GCTGTAAACA
*
71194101 GAAAGTTTA-TGATA-AGAAAT
1 GAAAGGTTATTGATAGAGAAAT
71194121 GAAAGGTTATTGATAGAGAAA
1 GAAAGGTTATTGATAGAGAAA
71194142 CCACTTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (22 bp):
GAAAGGTTATTGATAGAGAAAT
Found at i:71194809 original size:32 final size:32
Alignment explanation
Indices: 71194773--71194834 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
71194763 AAAGGGTGAT
* *
71194773 ACTTGAAAAGGTTACGTGCACTTTGTGTGTAC
1 ACTTGAAAAGGTTACGTACACATTGTGTGTAC
71194805 ACTTGAAAAGGTTACGTACACATTGTGTGT
1 ACTTGAAAAGGTTACGTACACATTGTGTGT
71194835 GTAACACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (32 bp):
ACTTGAAAAGGTTACGTACACATTGTGTGTAC
Found at i:71207925 original size:20 final size:20
Alignment explanation
Indices: 71207859--71207925 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
71207849 ATTTTAGTAA
*
71207859 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
71207879 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
71207899 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71207919 ACATGAT
1 ACATGAT
71207926 GTATTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71208006 original size:23 final size:23
Alignment explanation
Indices: 71207976--71208024 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
71207966 AGGAAGTGCA
71207976 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71207999 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71208022 AAA
1 AAA
71208025 AGAGGCTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71208274 original size:31 final size:31
Alignment explanation
Indices: 71208239--71208298 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
71208229 CGTTTACAGT
71208239 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
71208270 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
71208299 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:71212364 original size:40 final size:40
Alignment explanation
Indices: 71212263--71212474 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
71212253 TATTCGAATG
* * *
71212263 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
71212304 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
71212344 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
71212384 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
71212424 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
71212463 ATATCC-GGCTAA
1 ATATCCGGGCTAA
71212475 ATCCTGAAGA
Statistics
Matches: 145, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 6 0.04
39 15 0.10
40 96 0.66
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:71219266 original size:20 final size:20
Alignment explanation
Indices: 71219199--71219266 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
71219189 GATTTTAGTA
*
71219199 AACATGGTATGTATGATATG
1 AACATGATATGTATGATATG
* * * *
71219219 CACATGACATTTATGCTATG
1 AACATGATATGTATGATATG
*
71219239 CACATGATATGTATGATATG
1 AACATGATATGTATGATATG
71219259 AACATGAT
1 AACATGAT
71219267 GTATTCATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
AACATGATATGTATGATATG
Found at i:71219347 original size:23 final size:23
Alignment explanation
Indices: 71219317--71219389 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
71219307 AGGAAGTGCA
71219317 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71219340 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71219363 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
71219387 AAA
1 AAA
71219390 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71219406 original size:25 final size:24
Alignment explanation
Indices: 71219316--71219410 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
71219306 GAGGAAGTGC
71219316 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
71219340 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
71219363 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
71219387 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71219411 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:71219639 original size:31 final size:31
Alignment explanation
Indices: 71219604--71219663 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
71219594 CGTTTACAGT
71219604 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
71219635 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
71219664 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:71223095 original size:131 final size:131
Alignment explanation
Indices: 71222861--71223122 Score: 497
Period size: 131 Copynumber: 2.0 Consensus size: 131
71222851 TTTTGCCAAG
*
71222861 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAGTTCACTTGAACTGACATAAGGT
1 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
71222926 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
66 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
71222991 T
131 T
*
71222992 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAATTGACATAAGGT
1 CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
*
71223057 AAGTCATTATACATGAACAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
66 AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
71223122 T
131 T
71223123 GAACATTTCC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (131 bp):
CCTAAGCACCATCAACAACACATGTTAGTGCATCAACTAACAATTCACTTGAACTGACATAAGGT
AAGTCATTATACATGAAAAAATTCATTTGAAATCATCATTTTCATGAACATATATATACTTTCAT
T
Found at i:71225074 original size:27 final size:27
Alignment explanation
Indices: 71225042--71225345 Score: 256
Period size: 27 Copynumber: 11.3 Consensus size: 27
71225032 TTAGTTTACC
*
71225042 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
71225069 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * * * *
71225096 AAATTATTGAAATAACATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
71225123 AAATTACCAAAATACCCTCAATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
71225150 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
71225177 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
71225204 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** * *
71225231 AAATTACTGAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
71225258 AAATTATCGAAATA-CCTCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * ** *
71225284 AAATTACTAAAATACCATTAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
71225311 AAATTACGAAAGTACCCCCAATTT-TCA
1 AAATTACCAAAATACCCTCGATTTGT-A
71225338 AAATTACC
1 AAATTACC
71225346 GTTTTACCTT
Statistics
Matches: 223, Mismatches: 50, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 23 0.10
27 199 0.89
28 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:71225180 original size:81 final size:81
Alignment explanation
Indices: 71225042--71225343 Score: 304
Period size: 81 Copynumber: 3.7 Consensus size: 81
71225032 TTAGTTTACC
* * *
71225042 AAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCTCGATTAGCAAAATTATTGAA
1 AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
*
71225107 ATAACATTGGTTTGTA
66 ATAACCTTGGTTTGTA
* * * * * * *
71225123 AAATTACCAAAATACCCTCAATTAGCAAAATTACAAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
* *
71225188 ATACCCCTGGTTTGTA
66 ATAACCTTGGTTTGTA
* ** *
71225204 AAATTACCAAAATACCC-CTGATTTGTAAAATTACTGAAATACCCCCGATTTGCAAAATTATCGA
1 AAATTACCAAAATACCCTC-GATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGA
* * *
71225268 AAT-ACCTCGATTTGCA
65 AATAACCTTGGTTTGTA
* * ** * * * * *
71225284 AAATTACTAAAATACCATTAACTT-GTAAAATTACGAAAGTACCCCCAATTTTCAAAATTA
1 AAATTACCAAAATACCCTCGA-TTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTA
71225344 CCGTTTTACC
Statistics
Matches: 180, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
80 56 0.31
81 124 0.69
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTAGTAAAATTACAAAAATACCCTCGATTTGCAAAATTATCGAA
ATAACCTTGGTTTGTA
Found at i:71225314 original size:53 final size:52
Alignment explanation
Indices: 71225199--71225344 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 52
71225189 TACCCCTGGT
* * * * * *
71225199 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCCCGAT
1 TTGTAAAATTA-CGAAATACCCC-GATTTGCAAAATTACTAAAATACCACCAAC
* * **
71225253 TTGCAAAATTATCGAAATACCTCGATTTGCAAAATTACTAAAATACCATTAAC
1 TTGTAAAATTA-CGAAATACCCCGATTTGCAAAATTACTAAAATACCACCAAC
* *
71225306 TTGTAAAATTACGAAAGTACCCCCAATTTTCAAAATTAC
1 TTGTAAAATTACGAAA-TA-CCCCGATTTGCAAAATTAC
71225345 CGTTTTACCT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 5 0.07
53 35 0.47
54 35 0.47
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (52 bp):
TTGTAAAATTACGAAATACCCCGATTTGCAAAATTACTAAAATACCACCAAC
Found at i:71225433 original size:27 final size:27
Alignment explanation
Indices: 71225366--71225451 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
71225356 CGGTTTACAA
* * *
71225366 AATTATCGAAACAACCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
71225393 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
71225420 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
71225447 AATTA
1 AATTA
71225452 CCATTTTTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:71225835 original size:22 final size:22
Alignment explanation
Indices: 71225810--71225859 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
71225800 GATGGCTCTG
71225810 TGCCAACCTAAATATGGCTTCA
1 TGCCAACCTAAATATGGCTTCA
* * * * *
71225832 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCA
71225854 TGCCAA
1 TGCCAA
71225860 ACGTATTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCA
Found at i:71226039 original size:26 final size:26
Alignment explanation
Indices: 71226009--71226065 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
71225999 TACCACGTAT
71226009 TCTGTT-AAGTGGCTATGCCAAAAATA
1 TCTGTTCAAGTGGCTATGCC-AAAATA
** *
71226035 TCTGTTCTGGTGGCTCTGCCAAAATA
1 TCTGTTCAAGTGGCTATGCCAAAATA
71226061 TCTGT
1 TCTGT
71226066 ATCTGGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTATGCCAAAATA
Found at i:71226047 original size:27 final size:27
Alignment explanation
Indices: 71226017--71226073 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
71226007 ATTCTGTTAA
71226017 GTGGCTATGCCAAAAATATCTGT-TCTG
1 GTGGCTATGCC-AAAATATCTGTATCTG
*
71226044 GTGGCTCTGCCAAAATATCTGTATCTG
1 GTGGCTATGCCAAAATATCTGTATCTG
71226071 GTG
1 GTG
71226074 ACTCTATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (27 bp):
GTGGCTATGCCAAAATATCTGTATCTG
Found at i:71226078 original size:27 final size:26
Alignment explanation
Indices: 71226024--71226097 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
71226014 TAAGTGGCTA
*
71226024 TGCCAAAAATATCTGTTCTGGTGGCTC
1 TGCC-AAAATATCTGTTCTGGTGACTC
71226051 TGCCAAAATATCTGTATCTGGTGACTC
1 TGCCAAAATATCTGT-TCTGGTGACTC
** *
71226078 TATCACAATATCTGTTCTGG
1 TGCCAAAATATCTGTTCTGG
71226098 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.38
27 26 0.62
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (26 bp):
TGCCAAAATATCTGTTCTGGTGACTC
Found at i:71226246 original size:6 final size:6
Alignment explanation
Indices: 71226215--71226305 Score: 87
Period size: 6 Copynumber: 14.8 Consensus size: 6
71226205 TTGCATTCAC
* *
71226215 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
71226264 ATTCTG ATTC-G GTCACCTG ATTCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
71226306 AGTTTTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
5 4 0.06
6 58 0.84
7 4 0.06
8 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:71226266 original size:37 final size:37
Alignment explanation
Indices: 71226215--71226305 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
71226205 TTGCATTCAC
71226215 ATTCTGATTTTGATTCTG-TTACCTGAT-A-CTGATTCTG
1 ATTCTGATTTTGATTCTGATT--C-GATCACCTGATTCTG
* *
71226252 ATTCTGATTCTGATTCTGATTCGGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGATTCGATCACCTGATTCTG
71226289 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
71226306 AGTTTTGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.04
36 2 0.04
37 42 0.88
38 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGATTCGATCACCTGATTCTG
Found at i:71226282 original size:43 final size:43
Alignment explanation
Indices: 71226215--71226305 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
71226205 TTGCATTCAC
* * *
71226215 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
* *
71226258 ATTCTGATTCTGATTCGGTCACCTGATTCTGATTCTGATTTTG
1 ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
71226301 ATTCT
1 ATTCT
71226306 AGTTTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (43 bp):
ATTCTGATTCTGATTCGGTCACCTGATACTGATTCTGATTCTG
Found at i:71228285 original size:27 final size:27
Alignment explanation
Indices: 71228246--71228606 Score: 291
Period size: 27 Copynumber: 13.4 Consensus size: 27
71228236 TTAGTTTACC
* *
71228246 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCGAAATACCCTCGATTTGCA
** * * *
71228273 AAATTATTGAAATACCAT-TAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGCA
* *
71228300 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCGAAATACCCTCGATTTGCA
* * * *
71228327 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * *
71228354 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * *
71228380 AAATTACCAAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* * * *
71228407 AACTTACTGAAATACCCCCAATTTAG-A
1 AAATTACCGAAATACCCTCGATTT-GCA
71228434 AAATTACCGAAATACCCTCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTGCA
**
71228461 AAATTACCGAAATACTTTCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTGCA
** * *
71228488 AAATTATTGAAATACCC-CAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
** * * *
71228514 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGCA
* *
71228541 AAATTACC-AAAGTACCCCCGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGCA
*** * *
71228568 AAATTACCGTTTTACCCTCAATTTACA
1 AAATTACCGAAATACCCTCGATTTGCA
71228595 AAATTACCGAAA
1 AAATTACCGAAA
71228607 CAACCCTATA
Statistics
Matches: 269, Mismatches: 57, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
26 51 0.19
27 216 0.80
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGCA
Found at i:71228474 original size:134 final size:134
Alignment explanation
Indices: 71228246--71228606 Score: 388
Period size: 134 Copynumber: 2.7 Consensus size: 134
71228236 TTAGTTTACC
* * * * *** * *
71228246 AAATTACCAAAATACCCTCGATTAGCAAAATTATTGAAATACCATTAGTTT-GTAAAATTACCAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAG-AAAATTACCGA
* * * * * *
71228310 AATACCCTCGATTAGCAAAATTACCAAAATACCCTT-GGTTTGTAAAATTACCAAAATACCCTAG
65 AATACCCTCGATTTGCAAAATTACCGAAATA-CCTTCGATTTGCAAAATTACCAAAATACCCCAA
71228374 TTTGTA
129 TTTGTA
*
71228380 AAATTACCAAAATACCCTTGATTTGTAAACTTACTGAAATACCCCCAATTTAGAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAGAAAATTACCGAA
* ***
71228445 ATACCCTCGATTTGCAAAATTACCGAAATACTTTCGATTTGCAAAATTATTGAAATACCCCAATT
66 ATACCCTCGATTTGCAAAATTACCGAAATACCTTCGATTTGCAAAATTACCAAAATACCCCAATT
71228510 TGTA
131 TGTA
* * * * *
71228514 AAATTACTAAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTACAAAATTACCG
1 AAATTACCAAAATACCCTT-GATTTGTAAAATTACTGAAA-TACCCCCAATTTAGAAAATTACCG
*** * *
71228577 TTTTACCCTCAATTTACAAAATTACCGAAA
64 AAATACCCTCGATTTGCAAAATTACCGAAA
71228607 CAACCCTATA
Statistics
Matches: 192, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
133 10 0.05
134 181 0.94
135 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (134 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTAGAAAATTACCGAA
ATACCCTCGATTTGCAAAATTACCGAAATACCTTCGATTTGCAAAATTACCAAAATACCCCAATT
TGTA
Found at i:71228584 original size:80 final size:81
Alignment explanation
Indices: 71228240--71228602 Score: 313
Period size: 80 Copynumber: 4.5 Consensus size: 81
71228230 AATACTTTAG
* * * * * *** * *
71228240 TTTACCAAATTACCAAAATACCCTCGATTAGCAAAATTATTGAAATACCAT-TAGTTTGTAAAAT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGA-TTTGTAAAAT
71228304 TACCAAAATACCCTCGA
65 TACCAAAATACCCTCGA
* *** *
71228321 -TTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAAT
1 TTTA-CAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAAT
*
71228384 TACCAAAATACCCTTGA
65 TACCAAAATACCCTCGA
** * * * * *
71228401 TTTGTAAACTTACTGAAATACCCCCAATTTAG-AAAATTACCGAAATACCCTCGATTTGCAAAAT
1 TTTACAAAATTACCGAAATACCCTCAATTT-GTAAAATTACCAAAATACCCTCGATTTGTAAAAT
* **
71228465 TACCGAAATACTTTCGA
65 TACCAAAATACCCTCGA
* ** * * *
71228482 TTTGCAAAATTATTGAAATACCC-CAATTTGTAAAATTACTAAAATACCTTCGACTTGTAAAATT
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
* *
71228546 ACCAAAGTACCCCCGA
66 ACCAAAATACCCTCGA
*** **
71228562 TTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACC
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACC
71228603 GAAACAACCC
Statistics
Matches: 226, Mismatches: 49, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
79 1 0.00
80 128 0.57
81 97 0.43
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATT
ACCAAAATACCCTCGA
Found at i:71228626 original size:27 final size:27
Alignment explanation
Indices: 71228596--71228845 Score: 304
Period size: 27 Copynumber: 9.3 Consensus size: 27
71228586 CAATTTACAA
* * *
71228596 AATTACCGAAACAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
***
71228623 AATTACCGAAATACCCCTGTAGAACAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71228650 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
71228677 AATTACCAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
71228704 AATTACTGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
71228731 AATTATCGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
71228758 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
71228785 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
71228812 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
71228839 AATTACC
1 AATTACC
71228846 ATTTTGCCCC
Statistics
Matches: 188, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 184 0.98
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:71228627 original size:134 final size:133
Alignment explanation
Indices: 71228353--71228639 Score: 301
Period size: 134 Copynumber: 2.1 Consensus size: 133
71228343 CTTGGTTTGT
* * * * * *
71228353 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAACTTACTGAA
1 AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTTGACTTGTAAAATTACTCAA
* * * * *
71228418 ATACCCCCAATTTAGAAAATTACCGAAATACCCTCGATTTGCAAAATTACCGAAATACTTTCGAT
66 ATACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAAAAC-TCCGAT
**
71228483 TTGC
130 GGGC
** *
71228487 AAAATTATTGAAATACCCCAATTTGTAAAATTACTAAAATA-CCTTCGACTTGTAAAATTAC-CA
1 AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTT-GACTTGTAAAATTACTCA
* *** *
71228550 AAGTACCCCCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCGAAACAAC-CCT
65 AA-TACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAA-AACTCCG
*
71228614 ATAGGGT
128 AT-GGGC
*
71228621 AGAATTACCGAAATACCCC
1 AAAATTACCGAAATACCCC
71228640 TGTAGAACAG
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
133 10 0.08
134 112 0.90
135 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (133 bp):
AAAATTACCGAAATACCCCAATTTGTAAAATTACCAAAATACCCTTGACTTGTAAAATTACTCAA
ATACCCCCAATTTACAAAATTACCGAAATACCCTCAATTTACAAAATTACCGAAAAACTCCGATG
GGC
Found at i:71229226 original size:22 final size:23
Alignment explanation
Indices: 71229193--71229253 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
71229183 CATGTTATTG
71229193 ATGGC-TCTGTGCCAAAC-TAAAT
1 ATGGCTTC-GTGCCAAACTTAAAT
* * *
71229215 ATGGCTTCGTGCC-ATCTTGACT
1 ATGGCTTCGTGCCAAACTTAAAT
71229237 ATGGCTTCGTGCCAAAC
1 ATGGCTTCGTGCCAAAC
71229254 GTATTTACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.06
22 26 0.81
23 4 0.12
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (23 bp):
ATGGCTTCGTGCCAAACTTAAAT
Found at i:71229448 original size:27 final size:26
Alignment explanation
Indices: 71229418--71229516 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 26
71229408 AGTGGCTTTC
* *
71229418 CCACATTATCTGATTCTGGTGACTATG
1 CCACAATATCTG-TTCTGGTGACTCTG
*
71229445 CCACAAATATCTGTTCTGGTGGCTCTG
1 CCAC-AATATCTGTTCTGGTGACTCTG
*
71229472 CCAAAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGT-TCTGGTGACTCTG
*
71229499 TCACAATATCTGTTCTGG
1 CCACAATATCTGTTCTGG
71229517 CAGCCATGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 14 0.22
27 42 0.67
28 7 0.11
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTG
Found at i:71229668 original size:31 final size:31
Alignment explanation
Indices: 71229633--71229699 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
71229623 TTGCATTCAC
* * *
71229633 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATACTGTCACCTAATACTG
* *
71229664 ATTCTGATTCTGATACTGTCACCTGATTCTG
1 ATTCTGATTCTGATACTGTCACCTAATACTG
71229695 ATTCT
1 ATTCT
71229700 AGTTCTAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATACTGTCACCTAATACTG
Found at i:71230415 original size:11 final size:12
Alignment explanation
Indices: 71230400--71230431 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
71230390 CTTTCTTTTT
71230400 TTTATTAATTAC
1 TTTATTAATTAC
71230412 -TTATTAATTAC
1 TTTATTAATTAC
71230423 TTTATTAAT
1 TTTATTAAT
71230432 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTATTAATTAC
Found at i:71234751 original size:55 final size:55
Alignment explanation
Indices: 71234647--71234765 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
71234637 CGTGTGTGAC
* * * * **
71234647 ACTGACTTTAGGGCACGGCCATGACACATGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
* * *
71234702 ACTGACTTATA-GACACGGCTATGGCACACGCCCGTATGGCCTAATCGTGGAAAAT
1 ACTGACTT-TAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
71234757 ACTGA-TTTA
1 ACTGACTTTA
71234766 AAGGTTTAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.89
56 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (55 bp):
ACTGACTTTAGGACACGGCCATGACACACGCCCGTATGGCCTAACCGTGGAAAAT
Found at i:71244186 original size:40 final size:40
Alignment explanation
Indices: 71244131--71244268 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
71244121 TGGATGATAA
* *
71244131 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* *
71244171 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
*
71244211 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATAT
* *
71244251 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71244269 TACTTGGCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.17
40 74 0.83
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
Found at i:71264565 original size:27 final size:27
Alignment explanation
Indices: 71264534--71264711 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
71264524 TAAATTTTAC
71264534 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
71264561 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71264587 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
71264615 GGCACTAAGTGTTCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71264643 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71264670 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71264697 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71264712 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71264675 original size:82 final size:81
Alignment explanation
Indices: 71264535--71264690 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
71264525 AAATTTTACA
* *
71264535 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
71264600 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * ** *
71264616 GCACTAAGTGTTCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACTAAGT
*
71264680 GTGCGAGTTGA
64 GTGCGAATTGA
71264691 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71264702 original size:82 final size:81
Alignment explanation
Indices: 71264531--71264711 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
71264521 GATTAAATTT
* *
71264531 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
71264596 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
71264612 TGCGGCACTAAGTGTTCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACT
* **
71264676 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71264694 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71264712 GACTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71269073 original size:40 final size:40
Alignment explanation
Indices: 71269025--71269291 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
71269015 GCAAACACAT
* *
71269025 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71269065 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71269105 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71269145 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
71269185 TTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71269225 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71269265 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
71269292 ATCCAATGCT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:71271720 original size:27 final size:26
Alignment explanation
Indices: 71271666--71271749 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
71271656 AGCATTGCTG
* * *
71271666 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
71271692 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
* *
71271719 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
71271746 CCAG
1 CCAG
71271750 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 12 0.24
27 37 0.73
28 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:71273199 original size:24 final size:24
Alignment explanation
Indices: 71273164--71273264 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
71273154 CCAACACTGT
*
71273164 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
71273188 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
71273212 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
71273236 TATCCTTTATC-GACTCCTAAATCC
1 TCTCCCTTATCAG-CTCCTAAATCC
71273260 TCTCC
1 TCTCC
71273265 TGACAGACTT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.24, C:0.40, G:0.03, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:71273901 original size:48 final size:48
Alignment explanation
Indices: 71273838--71273962 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
71273828 GGGCTATCGA
** *
71273838 CATCGATATGTGATCCCATGTAAGACCATGTCTCGGACATGGCGTTAG
1 CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
* * *
71273886 CATCGATCTACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
1 CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
** *
71273934 CATCGATATGTGAACCCATGTAAGACCAT
1 CATCGATATACGATCCCATGTAAGACCAT
71273963 ACCCGAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (48 bp):
CATCGATATACGATCCCATGTAAGACCATGTCTCGGACATGGCATTAG
Found at i:71273976 original size:48 final size:47
Alignment explanation
Indices: 71273838--71273985 Score: 161
Period size: 48 Copynumber: 3.1 Consensus size: 47
71273828 GGGCTATCGA
* * * *
71273838 CATCGATATGTGATCCCATGTAAGACCATGTCTCGGACATGGCGTTAG
1 CATCGATATGTGATCCCATGTAAGACCAT-ACCCGGACATGGCATTGG
* ** * **
71273886 CATCGATCTACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
1 CATCGATATGTGATCCCATGTAAGACCAT-ACCCGGACATGGCATTGG
* *
71273934 CATCGATATGTGAACCCATGTAAGACCATACCCGAGATATGGCATTGG
1 CATCGATATGTGATCCCATGTAAGACCATACCCG-GACATGGCATTGG
71273982 CATC
1 CATC
71273986 CTACCATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 2 0.02
48 83 0.98
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (47 bp):
CATCGATATGTGATCCCATGTAAGACCATACCCGGACATGGCATTGG
Done.