Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 219 of 290
Found at i:75687256 original size:15 final size:15
Alignment explanation
Indices: 75687205--75687256 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
75687195 ATTCAATATT
75687205 AATATATTAATAATA
1 AATATATTAATAATA
*
75687220 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
75687239 AATATATTAATAATA
1 AATATATTAATAATA
75687254 AAT
1 AAT
75687257 GTTTTGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 13 0.42
17 8 0.26
19 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:75706540 original size:27 final size:27
Alignment explanation
Indices: 75706510--75706687 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
75706500 ATATTGAGTC
* * * *
75706510 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
75706537 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75706564 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
75706592 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
75706619 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
75706646 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75706673 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75706688 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:75706649 original size:82 final size:81
Alignment explanation
Indices: 75706531--75706686 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
75706521 TGCTATATAA
* *
75706531 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
75706596 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
75706613 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
75706677 CACTTAGTGC
65 CACTTAGTGC
75706687 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:75710165 original size:29 final size:29
Alignment explanation
Indices: 75710115--75710172 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
75710105 GAAAAACAAA
*
75710115 ACAAATAAAAATCTACTATTAATTCTATC
1 ACAAATAAAAATATACTATTAATTCTATC
* *
75710144 ACAAATAAAAATATATTGTTAATTCTATC
1 ACAAATAAAAATATACTATTAATTCTATC
75710173 CTAAAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (29 bp):
ACAAATAAAAATATACTATTAATTCTATC
Found at i:75715737 original size:29 final size:29
Alignment explanation
Indices: 75715679--75715793 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
75715669 GTGAGCATGA
* * *
75715679 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
75715707 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
75715736 ATATACAA-GTGATTTGGGCCTAATGGGCC
1 ATATA-AATGTGATTTGGGCCTAATGGGCC
* * * *
75715765 ATATGAATATGA-TTGGACTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
75715793 A
1 A
75715794 GATACTAGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.37
29 45 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:75716489 original size:55 final size:55
Alignment explanation
Indices: 75716405--75716513 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
75716395 GGATAATTTG
* *
75716405 GATGGGACTGCATTGCATGTTTGATGATTTCTCTTTGAATGCTTGTTTTTCATCA
1 GATGGGACTGCATTGCATGTTGGATGATTTCTCTTTGAATGATTGTTTTTCATCA
*
75716460 GATGGGATTGCATTGCATGTTGGATGATTTCTCTTTGAATGATTGTTTTTCATC
1 GATGGGACTGCATTGCATGTTGGATGATTTCTCTTTGAATGATTGTTTTTCATC
75716514 GAGGGTTGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (55 bp):
GATGGGACTGCATTGCATGTTGGATGATTTCTCTTTGAATGATTGTTTTTCATCA
Found at i:75717791 original size:43 final size:43
Alignment explanation
Indices: 75717735--75717847 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
75717725 CTTACGTGTT
* * * * *
75717735 ATCACATATCGATGCCACTGTCCTAGACAGGGTCTTATACGAA
1 ATCACATAACGATGCCAATGTCCCAGAAAGGGTCTTACACGAA
* *
75717778 ATCATATAACGATGCCAATGTCCCAGAAATGGTCTTACACGAA
1 ATCACATAACGATGCCAATGTCCCAGAAAGGGTCTTACACGAA
* * *
75717821 ATTAGA-ATACAATGCCAATGTCCCAGA
1 ATCACATA-ACGATGCCAATGTCCCAGA
75717848 CTTGGTCTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAGAAAGGGTCTTACACGAA
Found at i:75729426 original size:27 final size:26
Alignment explanation
Indices: 75729385--75729488 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 26
75729375 AGGAAGCGTC
75729385 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
75729412 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
75729439 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * **
75729467 CTAGTGACTCTATCACATTATC
1 CTGGTGGCTCTGCCACATTATC
75729489 GGTTCTGGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 49 0.73
28 15 0.22
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:75729494 original size:54 final size:54
Alignment explanation
Indices: 75729385--75729496 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
75729375 AGGAAGCGTC
* * * *
75729385 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTAGTGACTCTACCACATATATCGGTT
* *
75729439 CTGGTGGCT-CTGCCACGATTATCTGTATCTAGTGACTCTATCACAT-TATCGGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCGGTT
75729493 CTGG
1 CTGG
75729497 CAACTATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.66
55 16 0.32
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTAGTGACTCTACCACATATATCGGTT
Found at i:75737234 original size:27 final size:26
Alignment explanation
Indices: 75737192--75737276 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
75737182 AGGAAGCGTC
*
75737192 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
75737219 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
75737247 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
75737273 CTGG
1 CTGG
75737277 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.10
27 30 0.59
28 16 0.31
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:75738774 original size:25 final size:23
Alignment explanation
Indices: 75738720--75738766 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
75738710 ATAACATTTC
75738720 AAAAT-TTTTCTTTCCATTTATT
1 AAAATATTTTCTTTCCATTTATT
*
75738742 AAAATATTTT-TTTGCATTTATT
1 AAAATATTTTCTTTCCATTTATT
75738764 AAA
1 AAA
75738767 TCTATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (23 bp):
AAAATATTTTCTTTCCATTTATT
Found at i:75740927 original size:59 final size:54
Alignment explanation
Indices: 75740854--75740988 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
75740844 TAGGGTCTGA
* *
75740854 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTAAT-TA-GAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAA--TAATCTATGAGT--TTAT-ATTGCAGGGG
* *
75740913 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATAATCTATGAGTTTATATTGCAGGGG
75740967 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
75740989 TGCTGCAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 32 0.46
55 6 0.09
56 2 0.03
57 7 0.10
59 23 0.33
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATAATCTATGAGTTTATATTGCAGGGG
Found at i:75741585 original size:23 final size:23
Alignment explanation
Indices: 75741559--75741603 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
75741549 TGGGTATGTA
*
75741559 ATGACGTTATCTT-ACAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
75741582 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
75741604 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:75741626 original size:14 final size:14
Alignment explanation
Indices: 75741603--75741632 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75741593 TTGAAAATAT
75741603 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
75741617 GTTGATTTGGATTG
1 GTTGAATTGGATTG
75741631 GT
1 GT
75741633 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:75742371 original size:28 final size:28
Alignment explanation
Indices: 75742339--75742396 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
75742329 GTAAACAAAA
** *
75742339 AAGGAAGCTACATGGGAAAATGACATCC
1 AAGGAAGAAACATGGGAAAACGACATCC
*
75742367 AAGGAAGAAACTTGGGAAAACGACATCC
1 AAGGAAGAAACATGGGAAAACGACATCC
75742395 AA
1 AA
75742397 ATGTAGACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (28 bp):
AAGGAAGAAACATGGGAAAACGACATCC
Found at i:75743541 original size:27 final size:27
Alignment explanation
Indices: 75743510--75743589 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
75743500 ATTCATTAAT
75743510 CAAATTTTCATGGTCTAAATTAAACCA
1 CAAATTTTCATGGTCTAAATTAAACCA
* * ** * *
75743537 CAAATATCCA-CAT-T-CATT-AATC-
1 CAAATTTTCATGGTCTAAATTAAACCA
75743559 -AAATTTTCATGGTCTAAATTAAACCA
1 CAAATTTTCATGGTCTAAATTAAACCA
75743585 CAAAT
1 CAAAT
75743590 ATTTAGTACT
Statistics
Matches: 35, Mismatches: 12, Indels: 12
0.59 0.20 0.20
Matches are distributed among these distances:
21 7 0.20
22 1 0.03
23 4 0.11
24 6 0.17
25 4 0.11
26 1 0.03
27 12 0.34
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (27 bp):
CAAATTTTCATGGTCTAAATTAAACCA
Found at i:75743552 original size:48 final size:48
Alignment explanation
Indices: 75743496--75743591 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
75743486 AACATAAAAA
75743496 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
1 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
75743544 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
1 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
75743592 TTAGTACTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (48 bp):
CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
Found at i:75744971 original size:45 final size:44
Alignment explanation
Indices: 75744866--75745040 Score: 155
Period size: 45 Copynumber: 4.0 Consensus size: 44
75744856 ATGCTATCTC
* * * *
75744866 ATATCGATGCC-ACTATCCCAGGCAGGATCTTACACGAATCA-A-
1 ATATCGATGCCAAC-GTCCCAGACATGATCTTACACGAAACACAT
* *
75744908 ATA-CGATACCAACGTCCCAGACATGATCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGATCTTACACG-AAACACAT
* *
75744952 ATATCGATGCCAACGTCCCA-ACCGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGA-CATGATCTTACACG-AAACACAT
* * * **
75744997 ATATTGATGCCAACGTCCTAGACGTGGCCTTACACGAAA-ACAT
1 ATATCGATGCCAACGTCCCAGACATGATCTTACACGAAACACAT
75745040 A
1 A
75745041 ATTGGAATCC
Statistics
Matches: 113, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
41 25 0.22
42 9 0.08
43 6 0.05
44 7 0.06
45 65 0.58
46 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.21
Consensus pattern (44 bp):
ATATCGATGCCAACGTCCCAGACATGATCTTACACGAAACACAT
Found at i:75746151 original size:14 final size:16
Alignment explanation
Indices: 75746127--75746159 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
75746117 AAATCACGAA
75746127 AAATATCACACAT-AT
1 AAATATCACACATAAT
75746142 AAAT-TCACACATAAT
1 AAATATCACACATAAT
75746157 AAA
1 AAA
75746160 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATATCACACATAAT
Found at i:75748962 original size:103 final size:103
Alignment explanation
Indices: 75748783--75749195 Score: 817
Period size: 103 Copynumber: 4.0 Consensus size: 103
75748773 AGCATAAGGT
75748783 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
75748848 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
75748886 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
75748951 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
75748989 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
75749054 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
*
75749092 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACG
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
75749157 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
75749195 T
1 T
75749196 GTAGATTCAA
Statistics
Matches: 309, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 309 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (103 bp):
TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
Found at i:75753478 original size:30 final size:30
Alignment explanation
Indices: 75753444--75753504 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
75753434 TTCCCGAGCC
75753444 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
75753474 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
75753504 T
1 T
75753505 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:75754325 original size:64 final size:64
Alignment explanation
Indices: 75754244--75754427 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
75754234 AGACATTATG
* * * *
75754244 ATGTACCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
75754308 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
75754373 AA
63 AA
* * *
75754375 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
75754428 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
66 21 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:75757666 original size:30 final size:30
Alignment explanation
Indices: 75757632--75757692 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
75757622 TTCCCGAGCC
75757632 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
75757662 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
75757692 T
1 T
75757693 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:75759638 original size:15 final size:16
Alignment explanation
Indices: 75759620--75759649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75759610 GTGGAAACTA
75759620 TGGTAT-ATGAAATAT
1 TGGTATAATGAAATAT
75759635 TGGTATAATGAAATA
1 TGGTATAATGAAATA
75759650 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TGGTATAATGAAATAT
Found at i:75786447 original size:12 final size:13
Alignment explanation
Indices: 75786409--75786451 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
75786399 AATATTAAGG
*
75786409 CAAGTATTAAGAA
1 CAAGAATTAAGAA
*
75786422 CACATAATTAAGAA
1 CA-AGAATTAAGAA
75786436 CAAGAA-TAAGAA
1 CAAGAATTAAGAA
75786448 CAAG
1 CAAG
75786452 TATTCATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 10 0.38
13 5 0.19
14 11 0.42
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (13 bp):
CAAGAATTAAGAA
Found at i:75789048 original size:40 final size:40
Alignment explanation
Indices: 75788993--75789072 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
75788983 GACGAATACA
*
75788993 TAGCATGACATACATGATAGATCTAATAATCAAAGCATAT
1 TAGCATGACATACATGATAAATCTAATAATCAAAGCATAT
*
75789033 TAGCATGACATACATGATAAATCTAATAGTCAAAGCATAT
1 TAGCATGACATACATGATAAATCTAATAATCAAAGCATAT
75789073 GGAATCTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (40 bp):
TAGCATGACATACATGATAAATCTAATAATCAAAGCATAT
Found at i:75793069 original size:40 final size:40
Alignment explanation
Indices: 75792887--75793109 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
75792877 TCCTCGTTCA
* * * * *
75792887 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
75792926 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
75792966 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
75793006 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
75793046 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
75793086 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
75793110 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:75793118 original size:41 final size:41
Alignment explanation
Indices: 75793041--75793118 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
75793031 TTAGTATCTC
* * *
75793041 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
75793082 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
75793119 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:75800895 original size:40 final size:39
Alignment explanation
Indices: 75800797--75801019 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
75800787 TCCTCGTTCA
* * * * *
75800797 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
75800836 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
75800875 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
75800915 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
75800955 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
75800996 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
75801020 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:75801019 original size:120 final size:119
Alignment explanation
Indices: 75800797--75801019 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
75800787 TCCTCGTTCA
* * * *
75800797 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
75800862 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
75800916 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
75800980 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
75801020 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:75803890 original size:27 final size:27
Alignment explanation
Indices: 75803858--75803922 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
75803848 CTAATTGGTT
*
75803858 GTAAAATTACTGTTTTGCCCCTATGTG
1 GTAAAATGACTGTTTTGCCCCTATGTG
* * *
75803885 GTAAAATGACTGTTTTTCCCTTTTGTG
1 GTAAAATGACTGTTTTGCCCCTATGTG
75803912 GTAAAATGACT
1 GTAAAATGACT
75803923 AAAATGCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCCTATGTG
Found at i:75809084 original size:16 final size:15
Alignment explanation
Indices: 75809054--75809082 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
75809044 ATTCTTAATA
75809054 ATTATCCAGATAAAT
1 ATTATCCAGATAAAT
75809069 ATTATCCAGATAAA
1 ATTATCCAGATAAA
75809083 ATGAACAATA
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:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
ATTATCCAGATAAAT
Found at i:75810260 original size:3 final size:3
Alignment explanation
Indices: 75810252--75810276 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
75810242 TGTTTATGAA
75810252 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
75810277 GTAATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:75811320 original size:45 final size:45
Alignment explanation
Indices: 75811270--75811357 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
75811260 TTTAAAACAA
75811270 CTTTTTCTTCTCAAATATTGGTTGTCGATTACTCCATTGGTTGTC
1 CTTTTTCTTCTCAAATATTGGTTGTCGATTACTCCATTGGTTGTC
*
75811315 CTTTTTCTTCTCAAATATTGGTTGTCGATTACTCCTTTGGTTG
1 CTTTTTCTTCTCAAATATTGGTTGTCGATTACTCCATTGGTTG
75811358 AAACCATATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.15, C:0.19, G:0.16, T:0.50
Consensus pattern (45 bp):
CTTTTTCTTCTCAAATATTGGTTGTCGATTACTCCATTGGTTGTC
Found at i:75812760 original size:26 final size:25
Alignment explanation
Indices: 75812691--75812761 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
75812681 GAGGAAGTGC
*
75812691 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
75812716 AAAAGGGCTTTGCCCCAGTTTGCCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
75812741 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
75812762 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 31 0.72
26 12 0.28
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:75813016 original size:31 final size:31
Alignment explanation
Indices: 75812981--75813057 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
75812971 TTGTTACAGT
*
75812981 AAAGGCTTCGACCCAGTGATATGAATAATAA
1 AAAGGCTTCGGCCCAGTGATATGAATAATAA
**
75813012 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATAA
75813043 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
75813058 ATATATGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATAA
Found at i:75814977 original size:40 final size:41
Alignment explanation
Indices: 75814923--75815202 Score: 202
Period size: 41 Copynumber: 6.9 Consensus size: 41
75814913 GCAAAAATTG
*
75814923 TAAAATACAGAGCAATAGCGGCGTTTTTAG-TAAAATGACC-C
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTAGCTAAAACG-CCGC
* *
75814964 TAAAAACATAGCAATAGCGGCGTTTTTTGCTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTAGCTAAAACGCCGC
* * ** * *
75815005 TAAAAATAGAGCAATAGAGGCGTTTTCGGC-AAAATGCTGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTAGCTAAAACGCCGC
* * * **
75815045 TAAAAACCAGAGCATTAGAGTGC--TTTCAG-TAAAACGCTAC
1 TAAAAA-CAGAGCAATAGCG-GCGTTTTTAGCTAAAACGCCGC
* * * * *
75815085 TAAAAACTAGAGCATTAGCGGCG-CTTTCGGTAAAACTCCGC
1 TAAAAAC-AGAGCAATAGCGGCGTTTTTAGCTAAAACGCCGC
* *
75815126 TAAAAACTAGAGCATTAGCGGCGCTTTCT-G-TAAAACGCCGC
1 TAAAAAC-AGAGCAATAGCGGCG-TTTTTAGCTAAAACGCCGC
* * *
75815167 TAAAAACCAGAGCATTAGCGGTGCTTTT-GCTAAAAC
1 TAAAAA-CAGAGCAATAGCGGCGTTTTTAGCTAAAAC
75815203 ATTGCTAAAA
Statistics
Matches: 199, Mismatches: 28, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.02
40 75 0.38
41 115 0.58
42 4 0.02
43 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGTTTTTAGCTAAAACGCCGC
Found at i:75815169 original size:122 final size:122
Alignment explanation
Indices: 75814963--75815193 Score: 304
Period size: 122 Copynumber: 1.9 Consensus size: 122
75814953 TAAAATGACC
* * * *
75814963 CTAAAAACATAGCAATAGCGGCGTTTTTTGCTAAAACGCCGCTAAAAATAGAGCAATAGAGGCGT
1 CTAAAAACAGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAATAGAGCAATAGAGGCGC
* *
75815028 TTTCGGCAAAATGCTGCTAAAAACCAGAGCATTAG-AGTGCTTTCAGTAAAACGCTA
66 TTTCGGCAAAACGCCGCTAAAAACCAGAGCATTAGCAGTGCTTTCAGTAAAACGCTA
* * * * *
75815084 CTAAAAACTAGAGCATTAGCGGCG-CTTTCGGTAAAACTCCGCTAAAAACTAGAGCATTAGCGGC
1 CTAAAAAC-AGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAA-TAGAGCAATAGAGGC
* * *
75815148 GCTTTCTGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTT
64 GCTTTCGGCAAAACGCCGCTAAAAACCAGAGCATTAGCAGTGCTTT
75815194 TGCTAAAACA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
121 28 0.30
122 58 0.62
123 7 0.08
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (122 bp):
CTAAAAACAGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAATAGAGCAATAGAGGCGC
TTTCGGCAAAACGCCGCTAAAAACCAGAGCATTAGCAGTGCTTTCAGTAAAACGCTA
Found at i:75815179 original size:82 final size:82
Alignment explanation
Indices: 75814923--75815202 Score: 268
Period size: 81 Copynumber: 3.4 Consensus size: 82
75814913 GCAAAAATTG
* * ** * *
75814923 TAAAATAC-AGAGCAATAGCGGCGTTTTTAGTAAAA-TGACC-CTAAAAACATAGCAATAGCGGC
1 TAAAA-ACTAGAGCATTAGCGGCGCTTTCGGTAAAACTG-CCGCTAAAAACAGAGCATTAGCGGC
* *
75814985 GTTTTTTGCTAAAACGCCGC
64 GCTTTCTG-TAAAACGCCGC
* * * * * * *
75815005 TAAAAA-TAGAGCAATAGAGGCGTTTTCGGCAAAA-TGCTGCTAAAAACCAGAGCATTAG-AGTG
1 TAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACTGCCGCTAAAAA-CAGAGCATTAGCGGCG
* **
75815067 CTTTCAGTAAAACGCTAC
65 CTTTCTGTAAAACGCCGC
75815085 TAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACT-CCGCTAAAAACTAGAGCATTAGCGGCG
1 TAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACTGCCGCTAAAAAC-AGAGCATTAGCGGCG
75815149 CTTTCTGTAAAACGCCGC
65 CTTTCTGTAAAACGCCGC
* * * *
75815167 TAAAAACCAGAGCATTAGCGGTGCTTTTGCTAAAAC
1 TAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAAC
75815203 ATTGCTAAAA
Statistics
Matches: 163, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
80 17 0.10
81 82 0.50
82 64 0.39
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (82 bp):
TAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACTGCCGCTAAAAACAGAGCATTAGCGGCGC
TTTCTGTAAAACGCCGC
Found at i:75815210 original size:41 final size:41
Alignment explanation
Indices: 75814963--75815212 Score: 229
Period size: 41 Copynumber: 6.1 Consensus size: 41
75814953 TAAAATGACC
* * * * *
75814963 CTAAAAA-CATAGCAATAGCGGCGTTTTTTGCTAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTG-TAAAACGCTG
* * * * * * *
75815004 CTAAAAA-TAGAGCAATAGAGGCGTTTTCGGCAAAATGCTG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCTG
* * * *
75815044 CTAAAAACCAGAGCATTAG-AGTGCTTTCAGTAAAACGCTA
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCTG
* * * *
75815084 CTAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACTCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCTG
* *
75815125 CTAAAAACTAGAGCATTAGCGGCGCTTTCTGTAAAACGCCG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCTG
* **
75815166 CTAAAAACCAGAGCATTAGCGGTGCTTT-TGCTAAAACATTG
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCTG-TAAAACGCTG
75815207 CTAAAA
1 CTAAAA
75815213 GTCATATAAC
Statistics
Matches: 175, Mismatches: 31, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
40 48 0.27
41 127 0.73
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (41 bp):
CTAAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCTG
Found at i:75815401 original size:14 final size:14
Alignment explanation
Indices: 75815379--75815423 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
75815369 TTAATTATCA
*
75815379 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
75815393 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
75815407 ATATGGTTTATGGT
1 TTATGGTTTAAGGT
75815421 TTA
1 TTA
75815424 AGATTTAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:75815549 original size:21 final size:22
Alignment explanation
Indices: 75815501--75815549 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
75815491 TTTAAGATTT
75815501 AGGG-TTGGAGTTTAAGGTGTA
1 AGGGTTTGGAGTTTAAGGTGTA
75815522 AGGGTTTGGAG-TTAAGG-GTTA
1 AGGGTTTGGAGTTTAAGGTG-TA
75815543 AGGGTTT
1 AGGGTTT
75815550 AGTGTTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.04
21 19 0.73
22 6 0.23
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (22 bp):
AGGGTTTGGAGTTTAAGGTGTA
Found at i:75818949 original size:29 final size:30
Alignment explanation
Indices: 75818904--75818965 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
75818894 GAGTCTGGAT
75818904 TTCAGCAATTTTTTAATGTAGTCAATGTTA
1 TTCAGCAATTTTTTAATGTAGTCAATGTTA
75818934 TTCAG-AATTTTTTAATGTAGTCAATGTTA
1 TTCAGCAATTTTTTAATGTAGTCAATGTTA
75818963 TTC
1 TTC
75818966 CGGTATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (30 bp):
TTCAGCAATTTTTTAATGTAGTCAATGTTA
Found at i:75823657 original size:15 final size:16
Alignment explanation
Indices: 75823630--75823659 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75823620 TGACATGAAG
75823630 TGTGAGTAAAGTACGT
1 TGTGAGTAAAGTACGT
75823646 TGTGAG-AAAGTACG
1 TGTGAGTAAAGTACG
75823660 ATGCTATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (16 bp):
TGTGAGTAAAGTACGT
Found at i:75825765 original size:28 final size:28
Alignment explanation
Indices: 75825733--75825789 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
75825723 ACAAAAGTTA
75825733 AATGCTATAGATTTAAAATACTAAAAGG
1 AATGCTATAGATTTAAAATACTAAAAGG
*
75825761 AATGCTATAGATTTAAAATACTCAAAGG
1 AATGCTATAGATTTAAAATACTAAAAGG
75825789 A
1 A
75825790 CTAAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (28 bp):
AATGCTATAGATTTAAAATACTAAAAGG
Found at i:75826518 original size:16 final size:16
Alignment explanation
Indices: 75826497--75826533 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
75826487 GGTCCCAAAC
*
75826497 AATTCTTTTATGATTG
1 AATTCTTTTATGATGG
75826513 AATTCTTTTATGATGG
1 AATTCTTTTATGATGG
75826529 AATTC
1 AATTC
75826534 ATGAAATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (16 bp):
AATTCTTTTATGATGG
Found at i:75832558 original size:17 final size:17
Alignment explanation
Indices: 75832536--75832568 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
75832526 AAAATTGGGG
75832536 AAAG-AAAGAAGAAAAGA
1 AAAGAAAAGAA-AAAAGA
75832553 AAAGAAAAGAAAAAAG
1 AAAGAAAAGAAAAAAG
75832569 GAGAAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAAAGA
Found at i:75837689 original size:31 final size:32
Alignment explanation
Indices: 75837651--75837714 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
75837641 TGATAAAATA
*
75837651 ATGATTTTA-CCTCATAGGGTAAAATGACTGT
1 ATGATTTTACCCTCATAGAGTAAAATGACTGT
75837682 ATGATTTTACCCTCATAGAGTAAAATGACTGT
1 ATGATTTTACCCTCATAGAGTAAAATGACTGT
75837714 A
1 A
75837715 ATACCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
ATGATTTTACCCTCATAGAGTAAAATGACTGT
Found at i:75837719 original size:27 final size:26
Alignment explanation
Indices: 75837660--75837747 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 26
75837650 AATGATTTTA
75837660 CCTCATAGGGTAAAATGACTGTATGATTTTAC
1 CCTCATA-GGTAAAATGACTGTA--A---TAC
75837692 CCTCATAGAGTAAAATGACTGTAATAC
1 CCTCATAG-GTAAAATGACTGTAATAC
75837719 CC-CAATATGGTAAAATGACTGTAATAC
1 CCTC-ATA-GGTAAAATGACTGTAATAC
75837746 CC
1 CC
75837748 CTGTAGGGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.02
27 28 0.53
28 1 0.02
30 1 0.02
31 1 0.02
32 21 0.40
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (26 bp):
CCTCATAGGTAAAATGACTGTAATAC
Found at i:75837748 original size:27 final size:27
Alignment explanation
Indices: 75837701--75837792 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
75837691 CCCTCATAGA
** *
75837701 GTAAAATGACTGTAATACCCCAATATG
1 GTAAAATGACTGTAATACCCCTGTAAG
*
75837728 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACTGTAATACCCCTGTAAG
* *
75837755 GTAAAATGATTATAA-ACCCCTGTAAG
1 GTAAAATGACTGTAATACCCCTGTAAG
75837781 GTAAAATGACTG
1 GTAAAATGACTG
75837793 ATTTGCTCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 20 0.35
27 37 0.65
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAAAATGACTGTAATACCCCTGTAAG
Found at i:75844423 original size:26 final size:26
Alignment explanation
Indices: 75844165--75844492 Score: 278
Period size: 27 Copynumber: 12.2 Consensus size: 26
75844155 TTTGCCTTAT
* * *
75844165 AGGGGTATTTTAGTAATTTTACACTAG
1 AGGGGTATTTTGGTAATTTTACA-AAC
* * *
75844192 AAGGATATTTTGGTAATTTTACACTAC
1 AGGGGTATTTTGGTAATTTTACA-AAC
* * * **
75844219 AAGGGTATTTCGTTAATTTTACCCTAC
1 AGGGGTATTTTGGTAATTTTA-CAAAC
* ***
75844246 AAGGGTATTTCAATTAATTTTACAAAC
1 AGGGGTATTT-TGGTAATTTTACAAAC
*
75844273 GAGGGGTATTTCGGTAATTTTACAAATC
1 -AGGGGTATTTTGGTAATTTTACAAA-C
* * *
75844301 AGGAGTATTTTGGTAACTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAA-C
* *
75844328 AGGGGTACTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAA-C
* * *
75844355 AGGGGAATTTCGATAATTTTACAAAC
1 AGGGGTATTTTGGTAATTTTACAAAC
75844381 TAGGGGTATTTTGGTAATTTTACAAAC
1 -AGGGGTATTTTGGTAATTTTACAAAC
* * *
75844408 GGGGGTATTTTAGTAATTTTACAAAT
1 AGGGGTATTTTGGTAATTTTACAAAC
*
75844434 AGGGGTATTTCGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAA-C
* * *
75844461 AGGAGTATTTTTGTAATTTTCCAAAC
1 AGGGGTATTTTGGTAATTTTACAAAC
*
75844487 CGGGGT
1 AGGGGT
75844493 CTTAACGACC
Statistics
Matches: 251, Mismatches: 44, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
26 50 0.20
27 181 0.72
28 20 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAAAC
Found at i:75848682 original size:6 final size:6
Alignment explanation
Indices: 75848673--75848726 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
75848663 TATTAGAACT
* *
75848673 AGAATC AGAATC AGAATC AGAATC AGGTGAT- AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
75848722 AGAAT
1 AGAAT
75848727 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 2 0.05
6 35 0.85
7 2 0.05
8 2 0.05
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:75848893 original size:27 final size:26
Alignment explanation
Indices: 75848845--75848904 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
75848835 GCGAGGCTGC
*
75848845 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
75848872 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
75848898 CAGATAT
1 CAGATAT
75848905 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:75849266 original size:27 final size:27
Alignment explanation
Indices: 75849236--75849576 Score: 396
Period size: 27 Copynumber: 12.6 Consensus size: 27
75849226 ACACCCTAGA
** *
75849236 GGTAAAATGGTAATTTTATAAATCAAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
75849263 GGTAAAACGGTAATTCTATAAATTGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* *
75849290 GGTAAAATAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
75849317 GGTAAAATAGTAATTTTGTAAATTGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * * *
75849344 GGTAAAATAGTAATTCTGTCAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
** *
75849371 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* *
75849398 GGTAAAACAGTAATTTTGTAAATCAAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
75849425 GGTAAAACAATAATTCTATAAATCAAG
1 GGTAAAACAGTAATTTTATAAATCGAG
* * *
75849452 GGTAAAACAATAATTCTATAAATCGAT
1 GGTAAAACAGTAATTTTATAAATCGAG
* *
75849479 GGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
75849506 GGTAAAAC-GATAATTTTATAAATCGAG
1 GGTAAAACAG-TAATTTTATAAATCGAG
* *
75849533 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTTTATAAATCGAG
75849560 GGTAAAACAGTAATTTT
1 GGTAAAACAGTAATTTT
75849577 TTGTAATTCG
Statistics
Matches: 277, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 275 0.99
28 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
GGTAAAACAGTAATTTTATAAATCGAG
Found at i:75849372 original size:81 final size:81
Alignment explanation
Indices: 75849236--75849576 Score: 450
Period size: 81 Copynumber: 4.2 Consensus size: 81
75849226 ACACCCTAGA
** * * * *
75849236 GGTAAAATGGTAATTTTATAAATCAAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGT
1 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGT
* *
75849301 AATTTTGTAAATCGAG
66 AATTCTATAAATCGAG
* ** * * * **
75849317 GGTAAAATAGTAATTTTGTAAATTGAGGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGT
1 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGT
75849382 AATTCTATAAATCGAG
66 AATTCTATAAATCGAG
* * *
75849398 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACAAT
1 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGT
*
75849463 AATTCTATAAATCGAT
66 AATTCTATAAATCGAG
* * *
75849479 GGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC-GATAATTTTATAAATCGAGGGTAAAACAG
1 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACAG
*
75849543 TAATTCTGTAAATCGAG
65 TAATTCTATAAATCGAG
75849560 GGTAAAACAGTAATTTT
1 GGTAAAACAGTAATTTT
75849577 TTGTAATTCG
Statistics
Matches: 226, Mismatches: 33, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
81 226 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (81 bp):
GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGT
AATTCTATAAATCGAG
Found at i:75849630 original size:83 final size:81
Alignment explanation
Indices: 75849236--75849619 Score: 387
Period size: 81 Copynumber: 4.7 Consensus size: 81
75849226 ACACCCTAGA
** * * * * * ** *
75849236 GGTAAAATGGTAATTTTATAAATCAAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTACAAATCAAGGGTAAAACAGT
* *
75849301 AATTTTGTAAATCGAG
66 AATTCTATAAATCGAG
* * * * *
75849317 GGTAAAATAGTAATTTTGTAAATTGAGGGTAAAA-TAGTAATTCTGT-C-AATCGAGGGTAAAAT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGA-TAATT-T-TACAAATCAAGGGTAAAAC
*
75849379 GGTAATTCTATAAATCGAG
63 AGTAATTCTATAAATCGAG
* * * * *
75849398 GGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCAAGGGTAAAACAAT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTACAAATCAAGGGTAAAACAGT
*
75849463 AATTCTATAAATCGAT
66 AATTCTATAAATCGAG
* * *
75849479 GGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAACAGT
1 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTACAAATCAAGGGTAAAACAGT
*
75849544 AATTCTGTAAATCGAG
66 AATTCTATAAATCGAG
* **** **
75849560 GGTAAAACAGTAATTTTTTGTAATTCGAGGGTACTTTGATAATTTTACATGTCAAGGGTA
1 GGTAAAACAGTAA--TTTTGTAAATCGAGGGTAAAACGATAATTTTACAAATCAAGGGTA
75849620 TTTTAGTAAT
Statistics
Matches: 254, Mismatches: 41, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
81 215 0.85
82 1 0.00
83 37 0.15
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (81 bp):
GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGATAATTTTACAAATCAAGGGTAAAACAGT
AATTCTATAAATCGAG
Found at i:75849644 original size:27 final size:27
Alignment explanation
Indices: 75849614--75849737 Score: 112
Period size: 27 Copynumber: 4.7 Consensus size: 27
75849604 TTACATGTCA
** *
75849614 AGGGTATTTTAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTACAAACTG
75849641 AGGGTATTTCGGTAATTTTACAAA-TCG
1 AGGGTATTTCGGTAATTTTACAAACT-G
* * * *
75849668 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTACAAACTG
*
75849695 -GGGTACTTT-GGTAATTTTAC-AATTG
1 AGGGTA-TTTCGGTAATTTTACAAACTG
* *
75849720 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
75849738 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
25 6 0.08
26 27 0.34
27 47 0.59
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAACTG
Found at i:75849716 original size:53 final size:54
Alignment explanation
Indices: 75849585--75849716 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
75849575 TTTTGTAATT
* ** * * *
75849585 CGAGGGTACTTTGATAATTTTACATGTCAAGGGTATTTTAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAAATCAAGGATATTTGAGTAATTTTACAAAC
* * * *
75849639 TGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GGTAATTTTACAAATCAAGGATATTTGAGTAATTTTACAAAC
75849693 CG-GGGTACTTTGGTAATTTTACAA
1 CGAGGGTACTTTGGTAATTTTACAA
75849717 TTGGGGGTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 21 0.32
54 44 0.68
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
CGAGGGTACTTTGGTAATTTTACAAATCAAGGATATTTGAGTAATTTTACAAAC
Found at i:75849723 original size:26 final size:25
Alignment explanation
Indices: 75849581--75849737 Score: 84
Period size: 27 Copynumber: 5.9 Consensus size: 25
75849571 AATTTTTTGT
*
75849581 AATTCGAGGGTACTTTGATAATTTTAC
1 AATT-GAGGGTA-TTTGGTAATTTTAC
* * *
75849608 -ATGTCAAGGGTATTTTAGTAATTTTGC
1 AAT-T-GAGGGTA-TTTGGTAATTTTAC
*
75849635 AAACTGAGGGTATTTCGGTAATTTTAC
1 -AATTGAGGGTATTT-GGTAATTTTAC
* * *
75849662 AAATCGAGGATATTTGGGTAATTTTATA
1 -AATTGAGGGTATTT-GGTAATTTTA-C
**
75849690 AACCG-GGGTACTTTGGTAATTTTAC
1 AATTGAGGGTA-TTTGGTAATTTTAC
* *
75849715 AATTGGGGGTATTTCAGTAATTT
1 AATTGAGGGTATTT-GGTAATTT
75849738 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
25 6 0.06
26 31 0.30
27 63 0.62
28 1 0.01
29 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (25 bp):
AATTGAGGGTATTTGGTAATTTTAC
Found at i:75851579 original size:13 final size:14
Alignment explanation
Indices: 75851537--75851581 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
75851527 TAATAATGAT
75851537 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
75851552 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
75851565 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
75851578 TAAA
1 TAAA
75851582 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:75851962 original size:41 final size:41
Alignment explanation
Indices: 75851917--75851999 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
75851907 TATTAGGGAT
75851917 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTATAAA
1 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTATAAA
* *
75851958 TGAATTGAGAAGATGTTCTAATTAGTGTTTTATGCTGTAAA
1 TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTATAAA
75851999 T
1 T
75852000 TTAAGAGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (41 bp):
TGAATTGAGAAGATGTTATAATTAGTGTTTTATGCTATAAA
Found at i:75853473 original size:19 final size:20
Alignment explanation
Indices: 75853436--75853473 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75853426 CCACGGACAT
75853436 GTCCCAAGCCACACGGGCAA
1 GTCCCAAGCCACACGGGCAA
*
75853456 GTCCCAGGCCAC-CGGGCA
1 GTCCCAAGCCACACGGGCA
75853474 TGTGCCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.42, G:0.29, T:0.05
Consensus pattern (20 bp):
GTCCCAAGCCACACGGGCAA
Found at i:75862082 original size:26 final size:26
Alignment explanation
Indices: 75862046--75862096 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
75862036 TGATCGGGTC
* *
75862046 GGGTGTTACAAGTTAAGTTGTATCAA
1 GGGTGTTACAAGTTAAATGGTATCAA
75862072 GGGTGTTACAAGTTAAATGGTATCA
1 GGGTGTTACAAGTTAAATGGTATCA
75862097 GGGAATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33
Consensus pattern (26 bp):
GGGTGTTACAAGTTAAATGGTATCAA
Found at i:75865513 original size:44 final size:44
Alignment explanation
Indices: 75865444--75865575 Score: 126
Period size: 44 Copynumber: 2.9 Consensus size: 44
75865434 TAATACATGT
*
75865444 CTGGGACATGCATCGGCCTCA--AGATGTAAGTTAGTGTAAGATGG
1 CTGGGACATGCATCGG-CT-ATGAGATGTAAGTCAGTGTAAGATGG
* * *
75865488 CTGGGACATGCGTCGGCTATGAGATGTTAGTCAGTGTAAGTCCATGT
1 CTGGGACATGCATCGGCTATGAGATGTAAGTCAGTGTAAG---ATGG
* * *
75865535 CTAGGACATGGCTTCGGCT-TGAGATGTAAGCCAGTGTAAGA
1 CTGGGACAT-GCATCGGCTATGAGATGTAAGTCAGTGTAAGA
75865576 CCATGTCTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 2 0.03
44 33 0.45
47 30 0.41
48 8 0.11
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (44 bp):
CTGGGACATGCATCGGCTATGAGATGTAAGTCAGTGTAAGATGG
Found at i:75865558 original size:47 final size:48
Alignment explanation
Indices: 75865382--75865599 Score: 145
Period size: 47 Copynumber: 4.7 Consensus size: 48
75865372 TGAAAGAGCT
* * * * *
75865382 AGTGTAAGACCATGTCTGGGACACGACATCGGCATTAAGACGA-GT--GCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC--TATGA-GATGTAAGCC
* * **
75865430 AGTGTAATA-CATGTCTGGGACAT-GCATCGGCCTCA--AGATGTAAGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CT-ATGAGATGTAAGCC
* * * * *
75865476 AGTGTAAG---ATGGCTGGGACAT-GCGTCGGCTATGAGATGTTAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
* *
75865520 AGTGTAAGTCCATGTCTAGGACATGGCTTCGGCT-TGAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
* *
75865567 AGTGTAAGACCATGTCTGGGACACGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
75865600 ACCTTACCCC
Statistics
Matches: 141, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 38 0.27
45 1 0.01
46 16 0.11
47 65 0.46
48 16 0.11
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCTATGAGATGTAAGCC
Found at i:75871007 original size:19 final size:19
Alignment explanation
Indices: 75870983--75871020 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
75870973 ACCCGCAAAC
75870983 CGATGGTCAGTTGGAAAGA
1 CGATGGTCAGTTGGAAAGA
*
75871002 CGATGGTCAGTTTGAAAGA
1 CGATGGTCAGTTGGAAAGA
75871021 GTGATTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.24
Consensus pattern (19 bp):
CGATGGTCAGTTGGAAAGA
Found at i:75873920 original size:18 final size:17
Alignment explanation
Indices: 75873892--75873926 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75873882 TTTAATTAAT
75873892 TAAAATAATAAAATAAA
1 TAAAATAATAAAATAAA
*
75873909 TAAAACTAATAAGATAAA
1 TAAAA-TAATAAAATAAA
75873927 AGTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAATAATAAAATAAA
Found at i:75875886 original size:21 final size:21
Alignment explanation
Indices: 75875862--75875903 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
75875852 TGTTTTGGGA
75875862 TGTTTTGAGCT-TGTTTAATTG
1 TGTTTTGAG-TATGTTTAATTG
75875883 TGTTTTGAGTATGTTTAATTG
1 TGTTTTGAGTATGTTTAATTG
75875904 CTGGTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.17, C:0.02, G:0.24, T:0.57
Consensus pattern (21 bp):
TGTTTTGAGTATGTTTAATTG
Found at i:75877076 original size:16 final size:16
Alignment explanation
Indices: 75877055--75877087 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
75877045 TCTAAATCTA
75877055 TTATTGATTTACTCTT
1 TTATTGATTTACTCTT
75877071 TTATTGATTTACTCTT
1 TTATTGATTTACTCTT
75877087 T
1 T
75877088 ATACATATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATTGATTTACTCTT
Found at i:75880220 original size:25 final size:25
Alignment explanation
Indices: 75880191--75880238 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75880181 TTATAACATG
* * *
75880191 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
75880216 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
75880239 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:75880289 original size:9 final size:9
Alignment explanation
Indices: 75880277--75880333 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
75880267 TTTGATAAAC
75880277 ATGATATGT
1 ATGATATGT
*
75880286 ATGATATGCAC
1 ATGATATG--T
*
75880297 ATGACATGT
1 ATGATATGT
*
75880306 ATGATATGCAC
1 ATGATATG--T
75880317 ATGATATGT
1 ATGATATGT
75880326 ATGATATG
1 ATGATATG
75880334 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:75880300 original size:20 final size:20
Alignment explanation
Indices: 75880275--75880345 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
75880265 ATTTTGATAA
75880275 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75880295 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
75880315 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75880335 ACATGAGATGT
1 ACATGATATGT
75880346 TCATAAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:75880322 original size:11 final size:11
Alignment explanation
Indices: 75880286--75880340 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
75880276 CATGATATGT
75880286 ATGATATGCAC
1 ATGATATGCAC
* *
75880297 ATGACATG--T
1 ATGATATGCAC
75880306 ATGATATGCAC
1 ATGATATGCAC
*
75880317 ATGATATG--T
1 ATGATATGCAC
75880326 ATGATATGCAC
1 ATGATATGCAC
75880337 ATGA
1 ATGA
75880341 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:75880457 original size:45 final size:46
Alignment explanation
Indices: 75880392--75880485 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 46
75880382 AGGAAGTGCA
75880392 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATT
*
75880438 AAAGGGCTT-TGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTGTT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
75880483 AAA
1 AAA
75880486 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 28 0.61
46 18 0.39
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
Found at i:75880486 original size:23 final size:24
Alignment explanation
Indices: 75880391--75880506 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
75880381 GAGGAAGTGC
75880391 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
75880415 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
75880438 -AAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
75880460 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
75880483 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
75880507 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
22 13 0.15
23 59 0.69
24 6 0.07
25 7 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:75888256 original size:25 final size:25
Alignment explanation
Indices: 75888227--75888274 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75888217 TTATAACATG
* * *
75888227 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
75888252 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
75888275 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:75888325 original size:9 final size:9
Alignment explanation
Indices: 75888313--75888369 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
75888303 TTTGATAAAC
75888313 ATGATATGT
1 ATGATATGT
*
75888322 ATGATATGCAC
1 ATGATATG--T
*
75888333 ATGACATGT
1 ATGATATGT
*
75888342 ATGATATGCAC
1 ATGATATG--T
75888353 ATGATATGT
1 ATGATATGT
75888362 ATGATATG
1 ATGATATG
75888370 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:75888336 original size:20 final size:20
Alignment explanation
Indices: 75888311--75888381 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
75888301 ATTTTGATAA
75888311 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75888331 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
75888351 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75888371 ACATGAGATGT
1 ACATGATATGT
75888382 TCATAAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:75888358 original size:11 final size:11
Alignment explanation
Indices: 75888322--75888376 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
75888312 CATGATATGT
75888322 ATGATATGCAC
1 ATGATATGCAC
* *
75888333 ATGACATG--T
1 ATGATATGCAC
75888342 ATGATATGCAC
1 ATGATATGCAC
*
75888353 ATGATATG--T
1 ATGATATGCAC
75888362 ATGATATGCAC
1 ATGATATGCAC
75888373 ATGA
1 ATGA
75888377 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:75888493 original size:45 final size:46
Alignment explanation
Indices: 75888428--75888521 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 46
75888418 AGGAAGTGCA
75888428 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATT
*
75888474 AAAGGGCTT-TGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTGTT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
75888519 AAA
1 AAA
75888522 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 28 0.61
46 18 0.39
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
Found at i:75888522 original size:23 final size:24
Alignment explanation
Indices: 75888427--75888542 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
75888417 GAGGAAGTGC
75888427 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
75888451 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
75888474 -AAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
75888496 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
75888519 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
75888543 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
22 13 0.15
23 59 0.69
24 6 0.07
25 7 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:75888781 original size:31 final size:31
Alignment explanation
Indices: 75888736--75888796 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
75888726 GGTTTACAGT
*
75888736 AAAGGCTTCAGCCCAGTAATATGAAATATGG
1 AAAGGCTTCAGCCCAATAATATGAAATATGG
** **
75888767 AAAGGCTTTGGCCCAATGTTATGAAATATG
1 AAAGGCTTCAGCCCAATAATATGAAATATG
75888797 AAATATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATAATATGAAATATGG
Found at i:75900938 original size:42 final size:42
Alignment explanation
Indices: 75900886--75900990 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
75900876 AAGGTTATTA
*
75900886 AGACTACGTGTAAGACCATATCTGAGATATGACATC-AGTATG
1 AGACTTCGTGTAAGACCATATCTGAGATATGACATCGA-TATG
* *
75900928 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTTCGTGTAAGACCATATCTGAGATATGACATCGATATG
* *
75900970 AGATTTTGTGTAAGACCATAT
1 AGACTTCGTGTAAGACCATAT
75900991 GTAACACCCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGAGATATGACATCGATATG
Found at i:75901262 original size:18 final size:19
Alignment explanation
Indices: 75901239--75901284 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
75901229 AAGAGTCACT
75901239 CGCCCGTGTGG-TCAGACA
1 CGCCCGTGTGGCTCAGACA
75901257 CGCCCGTGTGGCTCAGACA
1 CGCCCGTGTGGCTCAGACA
75901276 CGCCCGTGT
1 CGCCCGTGT
75901285 CCTCAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.13, C:0.37, G:0.33, T:0.17
Consensus pattern (19 bp):
CGCCCGTGTGGCTCAGACA
Found at i:75905929 original size:15 final size:15
Alignment explanation
Indices: 75905909--75905939 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75905899 AGGCAGTGAA
75905909 GCGTATAGAGTGGTT
1 GCGTATAGAGTGGTT
75905924 GCGTATAGAGTGGTT
1 GCGTATAGAGTGGTT
75905939 G
1 G
75905940 GTTTTCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.42, T:0.32
Consensus pattern (15 bp):
GCGTATAGAGTGGTT
Found at i:75905996 original size:43 final size:43
Alignment explanation
Indices: 75905947--75906120 Score: 321
Period size: 43 Copynumber: 4.0 Consensus size: 43
75905937 TTGGTTTTCA
*
75905947 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
75905990 GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
*
75906033 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
*
75906076 GCAATAAGTATTCACGGTTGTGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
75906119 GC
1 GC
75906121 TTGAAATGCA
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (43 bp):
GCAATAAGTATTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
Found at i:75906135 original size:29 final size:29
Alignment explanation
Indices: 75906102--75906175 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
75906092 GTTGTGAGAT
* *
75906102 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
75906131 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
75906160 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
75906176 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:75906253 original size:40 final size:40
Alignment explanation
Indices: 75906198--75906395 Score: 308
Period size: 40 Copynumber: 5.0 Consensus size: 40
75906188 AAGCACTATG
*
75906198 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
75906238 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
75906278 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
75906318 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
75906358 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
75906396 ATTGAGCTTG
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 143 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:75906419 original size:40 final size:40
Alignment explanation
Indices: 75906198--75906423 Score: 292
Period size: 40 Copynumber: 5.7 Consensus size: 40
75906188 AAGCACTATG
* * *
75906198 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
75906238 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
75906278 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
75906318 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGC-AT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
75906357 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * *
75906398 TGAGCTTGTGGTTATATCCGGGCTAA
1 TGTGCGAGTTGATATATCCGGGCTAA
75906424 ATTCCGAAGA
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 161 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:75906431 original size:80 final size:80
Alignment explanation
Indices: 75906199--75906443 Score: 323
Period size: 80 Copynumber: 3.0 Consensus size: 80
75906189 AGCACTATGT
*
75906199 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCCGGGCTA
1 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCCGGGCTA
*
75906263 AGACCCGAAGGCATTT
65 AGACCCGAAGGCATTC
* *
75906279 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATACATCCGGGCTAA
1 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAA
75906344 GACCCGAAGGCATTC
66 GACCCGAAGGCATTC
* * * * * ** * *
75906359 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTAA
1 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAA
*
75906424 -ATTCCGAAGAGCATTC
66 GA-CCCGAAG-GCATTC
75906440 GTGC
1 GTGC
75906444 TAGTGAGGTA
Statistics
Matches: 147, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 3 0.02
80 134 0.91
81 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAA
GACCCGAAGGCATTC
Found at i:75906456 original size:40 final size:40
Alignment explanation
Indices: 75906211--75906516 Score: 151
Period size: 40 Copynumber: 7.7 Consensus size: 40
75906201 GCGAATTGAT
* ** * * * *
75906211 ATATCCGGGATAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
** * * * *
75906251 ATATCCGGGCTAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
** * *
75906291 ATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAG-TGAG
* ** * **
75906331 ACATCCGGGCTAAGACCCGAAG-GCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGAG
* * ** * *
75906371 ATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTG-G
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGTGAG
*
75906409 TTATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAG
1 --ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* * * **
75906451 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* *
75906491 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTTCCGAAGAGCA
75906517 ATCATGCTGG
Statistics
Matches: 228, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
39 7 0.03
40 205 0.90
41 15 0.07
42 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
Found at i:75906457 original size:120 final size:120
Alignment explanation
Indices: 75906198--75906483 Score: 301
Period size: 120 Copynumber: 2.4 Consensus size: 120
75906188 AAGCACTATG
* * * *
75906198 TGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCT
1 TGTGC-AAGTTGAGATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCT
* * *
75906262 AAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
65 AAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGCAAT
* * * * *
75906318 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTA
1 TGTGCAAGTTGAGATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTA
*** * *
75906383 AGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTAA-ATTCCGAAGAGC-AT
66 AGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGA-CCCGAAG-GCAAT
* * * **
75906438 TCGTGCTAG-TGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGC
1 T-GTGCAAGTTGAGATATCCGGGCTAAGACCCGAAG-GCATTCGTGC
75906484 TGGTGTTATA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
119 3 0.02
120 118 0.85
121 18 0.13
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
TGTGCAAGTTGAGATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTA
AGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:75906499 original size:120 final size:120
Alignment explanation
Indices: 75906213--75906518 Score: 300
Period size: 120 Copynumber: 2.5 Consensus size: 120
75906203 GAATTGATAT
* * * *
75906213 ATCCGGGA-TAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAT
1 ATCC-GGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAA
* * *
75906277 TTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAC
65 TTGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAGAC
* * *
75906333 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAAT
*** * * * **
75906398 TGAGCTTGTGGTTATATCCGGGCTAA-ATTCCGAAGAGC-ATTCGTGCTAG-TGAGGT
66 TGAGCGAATGGATATATCCGGGCTAAGA-CCCGAAG-GCAATT-GTGCAAGTTGAGAC
** * * *
75906453 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTG-G-TGTTATATCCGGGCTAGGTCCCGAAGAGC
1 ATCCGGACTAAGACCCGAAG-GCATTCGTGC-GAGTTGCTATATCCGGGCTAAGACCCGAAG-GC
75906516 AAT
63 AAT
75906519 CATGCTGGTG
Statistics
Matches: 153, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
119 3 0.02
120 125 0.82
121 24 0.16
122 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (120 bp):
ATCCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAAT
TGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAGAC
Found at i:75906525 original size:40 final size:40
Alignment explanation
Indices: 75906250--75906528 Score: 160
Period size: 40 Copynumber: 7.0 Consensus size: 40
75906240 TGCGAATTGA
** * * *
75906250 TATATCCGGGCTAAGACCCGAAG-GCATTTGTGC-GAATTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG--GTGT
** * * *
75906290 TATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGA
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGC-TGGTGT
* ** *
75906330 TACATCCGGGCTAAGACCCGAAG-GCATTCGTGC-GAGTTGC
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG-G-TGT
* * ** * *
75906370 TATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTGGT
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGT-GT
* * *
75906410 TATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
** *
75906450 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
* * * *
75906490 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTG
75906529 ACATGTATTC
Statistics
Matches: 198, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.02
40 178 0.90
41 14 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
Found at i:75908627 original size:39 final size:39
Alignment explanation
Indices: 75908584--75908661 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
75908574 TTAAACGTTG
*
75908584 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
75908623 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
75908662 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:75910331 original size:47 final size:47
Alignment explanation
Indices: 75910277--75910633 Score: 579
Period size: 47 Copynumber: 7.6 Consensus size: 47
75910267 TTAAACCCAT
*
75910277 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75910324 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
75910371 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75910418 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
75910465 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
75910512 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** * * *
75910561 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
75910608 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
75910634 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 246 0.85
49 44 0.15
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:75910737 original size:126 final size:126
Alignment explanation
Indices: 75910593--75910828 Score: 472
Period size: 126 Copynumber: 1.9 Consensus size: 126
75910583 TAAGGCTTAA
75910593 TGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTA
1 TGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTA
75910658 CTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAATATTATATGTGACAGGGCCGAG
66 CTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAATATTATATGTGACAGGGCCGAG
75910719 TGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTA
1 TGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTA
75910784 CTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAATATTAT
66 CTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAATATTAT
75910829 CACTGATTAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (126 bp):
TGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTA
CTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAATATTATATGTGACAGGGCCGAG
Found at i:75910934 original size:37 final size:37
Alignment explanation
Indices: 75910880--75910955 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
75910870 GAGTTCTAAG
* * *
75910880 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
75910917 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
75910954 GA
1 GA
75910956 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:75912955 original size:43 final size:43
Alignment explanation
Indices: 75912810--75912952 Score: 277
Period size: 43 Copynumber: 3.3 Consensus size: 43
75912800 TTGGTTTTCA
75912810 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
75912853 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
*
75912896 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
75912939 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75912953 GGCTTGAAAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:75912972 original size:29 final size:29
Alignment explanation
Indices: 75912937--75913039 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
75912927 GTTGTGAGAT
* * *
75912937 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
75912966 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTTAAAGTACA
*
75912995 TGGTACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTTAAAGTACA
75913024 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
75913040 TGGTTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 5 0.07
29 63 0.93
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:75913458 original size:40 final size:40
Alignment explanation
Indices: 75913331--75913517 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
75913321 GCATTTGAAT
*
75913331 GATATCCGGGCTAAG-TCCTGAAG-GCAATT-GAGCTAGTGA
1 GATATCCGGGCTAAGTTCC-GAAGAGC-ATTCGTGCTAGTGA
* ** * * *
75913370 TTATATCCGGGCTAAGACCCGAAG-GCATTGGTGCGAGTTA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * *
75913410 CTAAATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGA
1 -GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * * *
75913451 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * *
75913491 TATATCCGGGCTAGGTCCCGAAGAGCA
1 GATATCCGGGCTAAGTTCCGAAGAGCA
75913518 ATCATGCTGG
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 101 0.85
41 15 0.13
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
GATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
Found at i:75913526 original size:40 final size:40
Alignment explanation
Indices: 75913453--75913529 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
75913443 GCTAGTGAGG
* * *
75913453 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
* *
75913493 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTG
75913530 ACATGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:75917018 original size:95 final size:94
Alignment explanation
Indices: 75916872--75917262 Score: 611
Period size: 95 Copynumber: 4.1 Consensus size: 94
75916862 AATTCTAAAT
75916872 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAATG
75916937 GCCGATGTGATGAATGTGAAAGTGTATATA
65 GCCGATGTGATGAATGTGAAAGTGTATATA
* *
75916967 TGTGATACGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAATG
75917032 GCCGATGTGATGAATGTGAAAGTGTATATA
65 GCCGATGTGATGAATGTGAAAGTGTATATA
*
75917062 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
75917127 GGCCGATGTGATGAATGTGAAAGTGTATATATA
64 GGCCGATGTGATGAATGTGAAAGTG--TATATA
*** * *
75917160 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * * *
75917225 CCAACGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
75917254 TGTGATAAG
1 TGTGATAAG
75917263 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
94 13 0.05
95 132 0.48
96 75 0.27
97 10 0.04
98 46 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:75917128 original size:49 final size:47
Alignment explanation
Indices: 75916872--75917262 Score: 611
Period size: 47 Copynumber: 8.2 Consensus size: 47
75916862 AATTCTAAAT
75916872 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
75916919 TGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
75916967 TGTGATACGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
75917014 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
75917062 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
75917111 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
75917160 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*** * * * * * * *
75917207 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
75917254 TGTGATAAG
1 TGTGATAAG
75917263 TCCCGAAGGG
Statistics
Matches: 322, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 135 0.42
48 92 0.29
49 95 0.30
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:75917136 original size:40 final size:42
Alignment explanation
Indices: 75917090--75917180 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 42
75917080 CCGATGTGAT
75917090 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC-----G
75917137 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 --GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
75917181 ATGTGATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
44 1 0.02
49 41 0.98
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (42 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:75917438 original size:38 final size:37
Alignment explanation
Indices: 75917381--75917459 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
75917371 CTGAGCTCTA
* *
75917381 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
75917419 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
75917456 AAGA
1 AAGA
75917460 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:75920729 original size:26 final size:22
Alignment explanation
Indices: 75920698--75920751 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 22
75920688 GTATTCGGCC
*
75920698 AGAGAGGAAATCGATTGAGAAAGAG
1 AGAGAGG-AATCGA--GAGAAAGAA
75920723 AGA-AGAGAATCGAGAGAAAGAA
1 AGAGAG-GAATCGAGAGAAAGAA
75920745 AGAGAGG
1 AGAGAGG
75920752 GAGAGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 12 0.46
23 2 0.08
24 8 0.31
25 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.37, T:0.07
Consensus pattern (22 bp):
AGAGAGGAATCGAGAGAAAGAA
Found at i:75925245 original size:22 final size:20
Alignment explanation
Indices: 75925192--75925266 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
75925182 GTTACATATA
75925192 TCATGAACTCAGACCACATC
1 TCATGAACTCAGACCACATC
** * *
75925212 TCATGAGTTCAGATCACGTATT
1 TCATGAACTCAGACCAC--ATC
75925234 TCATGAACTCAGACCACATC
1 TCATGAACTCAGACCACATC
75925254 TCAT-AATCTCAGA
1 TCATGAA-CTCAGA
75925267 TGACGTAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.05
20 26 0.59
22 16 0.36
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (20 bp):
TCATGAACTCAGACCACATC
Found at i:75925266 original size:42 final size:42
Alignment explanation
Indices: 75925192--75925273 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
75925182 GTTACATATA
*
75925192 TCATGAACTCAGACCACATCTCATGAGTTCAGATCACGTATT
1 TCATGAACTCAGACCACATCTCATGAATTCAGATCACGTATT
*
75925234 TCATGAACTCAGACCACATCTCAT-AATCTCAGATGACGTA
1 TCATGAACTCAGACCACATCTCATGAAT-TCAGATCACGTA
75925274 GTTCCTAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (42 bp):
TCATGAACTCAGACCACATCTCATGAATTCAGATCACGTATT
Found at i:75933175 original size:11 final size:11
Alignment explanation
Indices: 75933159--75933184 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75933149 CAAAAGAGTT
75933159 AATGCAAAATA
1 AATGCAAAATA
75933170 AATGCAAAATA
1 AATGCAAAATA
75933181 AATG
1 AATG
75933185 TATGTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (11 bp):
AATGCAAAATA
Found at i:75934009 original size:13 final size:13
Alignment explanation
Indices: 75933991--75934016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75933981 TAAAATTAAA
75933991 AATATAATAATTT
1 AATATAATAATTT
75934004 AATATAATAATTT
1 AATATAATAATTT
75934017 TATTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATAATAATTT
Found at i:75936520 original size:28 final size:28
Alignment explanation
Indices: 75936476--75936529 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
75936466 GTGAGCATGA
* *
75936476 ATATAATGTGATTTGGG-CTAATGGGCT
1 ATATAATGTAATCTGGGCCTAATGGGCT
75936503 ATATAAATGTAATCTGGGCCTAATGGG
1 ATAT-AATGTAATCTGGGCCTAATGGG
75936530 TCATACGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 11 0.48
29 8 0.35
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (28 bp):
ATATAATGTAATCTGGGCCTAATGGGCT
Found at i:75936562 original size:28 final size:29
Alignment explanation
Indices: 75936508--75936562 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
75936498 GGGCTATATA
**
75936508 AATGTAATCTGGGCCTAATGGGTCATACG
1 AATGTAATCTGGGCCTAATGGACCATACG
* *
75936537 AATGTTAT-TGGGCCTAGTGGACCATA
1 AATGTAATCTGGGCCTAATGGACCATA
75936563 TACAAGTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (29 bp):
AATGTAATCTGGGCCTAATGGACCATACG
Found at i:75939699 original size:79 final size:82
Alignment explanation
Indices: 75939588--75939772 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
75939578 GCTCCTCGTT
* *
75939588 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
75939651 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
75939668 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
75939731 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
75939748 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
75939773 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:75939772 original size:40 final size:40
Alignment explanation
Indices: 75939588--75939772 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
75939578 GCTCCTCGTT
* *
75939588 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
75939628 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
75939668 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
75939707 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
75939748 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
75939773 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:75951892 original size:13 final size:13
Alignment explanation
Indices: 75951874--75951898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75951864 GGGAGTGTGG
75951874 ACCACACGGGCAA
1 ACCACACGGGCAA
75951887 ACCACACGGGCA
1 ACCACACGGGCA
75951899 TGTGAGCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
ACCACACGGGCAA
Found at i:75952337 original size:13 final size:14
Alignment explanation
Indices: 75952319--75952353 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
75952309 ATGAAGGTAG
75952319 GATTCTGTATATTT
1 GATTCTGTATATTT
*
75952333 G-TTCTGCATATTT
1 GATTCTGTATATTT
75952346 GATTCTGT
1 GATTCTGT
75952354 TATCTGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (14 bp):
GATTCTGTATATTT
Found at i:75955958 original size:33 final size:29
Alignment explanation
Indices: 75955883--75955943 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
75955873 ATAAGCATTC
75955883 AATTTGAATAGCAACCAAAAACAATAAAT
1 AATTTGAATAGCAACCAAAAACAATAAAT
*
75955912 AATTTGAATAGCAACCAACAACAATAAAT
1 AATTTGAATAGCAACCAAAAACAATAAAT
75955941 AAT
1 AAT
75955944 CATTTGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.21
Consensus pattern (29 bp):
AATTTGAATAGCAACCAAAAACAATAAAT
Found at i:75956282 original size:53 final size:53
Alignment explanation
Indices: 75956202--75956312 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
75956192 ACAAAGCTTC
*
75956202 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTATT
1 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
* *
75956255 TCTAAAGTTTTTATTTATAGACATAAGAAGTATAAATGAAGTAGAGATCTACT
1 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
75956308 TCTAA
1 TCTAA
75956313 TGACTATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (53 bp):
TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
Found at i:75963398 original size:43 final size:43
Alignment explanation
Indices: 75963205--75963399 Score: 203
Period size: 43 Copynumber: 4.5 Consensus size: 43
75963195 CAGGTAAATC
* * * * *
75963205 TTCGGTATATCCGATGATGCACTGTGTGTGCTAGTATAATTGC
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAGTTGT
* * * * * * *
75963248 TTCAGTTTATCTGATGGTGCAATGTGTGTGCCAGTATAGTTGCT
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAGTTG-T
* * *
75963292 TT-AGTTTATCCGATGATACACTATGTGTACCAGTATAGTTGT
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAGTTGT
* * *
75963334 TTCGATATATCCCATGATGCACTATTTGTACCAGTATAGTTGT
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAGTTGT
*
75963377 TTCGGTATATTCGATGATGCACT
1 TTCGGTATATCCGATGATGCACT
75963400 TCGTATGCCA
Statistics
Matches: 127, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 3 0.02
43 122 0.96
44 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (43 bp):
TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAGTTGT
Done.