Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 144 of 433
Found at i:44436468 original size:54 final size:53
Alignment explanation
Indices: 44436278--44436485 Score: 184
Period size: 53 Copynumber: 3.9 Consensus size: 53
44436268 CTTTCCTTTT
* * *
44436278 TAAACTTACCATTGCCATGTCTTGACAAGGTCTTACATGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * *
44436331 TGAACTCACCATTGCCATGCGTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * ** * *
44436384 TCGTAGTTTCTCAATGACATG-TTTGACATGGTCTTACATAATTTCCTTGCCTTG
1 T-AAACTTAC-CAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
44436438 TAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
44436486 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 55 0.47
54 55 0.47
55 8 0.07
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:44449687 original size:37 final size:37
Alignment explanation
Indices: 44449644--44449715 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
44449634 ACACTATAAC
44449644 GAATATAATCCTGAAATGATCTGGGTAGATCACTAAT
1 GAATATAATCCTGAAATGATCTGGGTAGATCACTAAT
44449681 GAATATAATCCTGAAATGATCTGGGTAGATCACTA
1 GAATATAATCCTGAAATGATCTGGGTAGATCACTA
44449716 TCTTAATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (37 bp):
GAATATAATCCTGAAATGATCTGGGTAGATCACTAAT
Found at i:44468287 original size:40 final size:40
Alignment explanation
Indices: 44468213--44468428 Score: 348
Period size: 40 Copynumber: 5.5 Consensus size: 40
44468203 AACCCAAGTA
* *
44468213 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
44468252 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44468292 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44468332 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44468372 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44468411 CCTTCGGGACATAGCCCG
1 CCTTCGGGACTTAGCCCG
44468429 AATGTCATCT
Statistics
Matches: 167, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 32 0.19
40 134 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:44476791 original size:40 final size:40
Alignment explanation
Indices: 44476717--44476935 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
44476707 AACCCAAGTA
* *
44476717 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
44476756 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44476796 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44476836 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
44476876 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
44476915 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
44476936 GTCATCCGAA
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 36 0.21
40 134 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:44487661 original size:8 final size:8
Alignment explanation
Indices: 44487648--44487675 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
44487638 GGTTTATGAT
44487648 ATGATTTC
1 ATGATTTC
44487656 ATGATTTC
1 ATGATTTC
44487664 ATGATTTC
1 ATGATTTC
44487672 ATGA
1 ATGA
44487676 AAATTTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (8 bp):
ATGATTTC
Found at i:44493308 original size:37 final size:37
Alignment explanation
Indices: 44493255--44493345 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
44493245 TTATTACGAA
44493255 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44493292 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44493329 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44493346 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44493658 original size:49 final size:49
Alignment explanation
Indices: 44493435--44493653 Score: 372
Period size: 49 Copynumber: 4.5 Consensus size: 49
44493425 CATATATTTT
*
44493435 ACATCAGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
44493484 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
*
44493533 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
*
44493582 ACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
*
44493629 ACATTGGCCA-TACGGCCTTATCACA
1 ACATCGGCCATTA-GGCCTTATCACA
44493654 CATATATGTA
Statistics
Matches: 166, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
46 2 0.01
47 40 0.24
49 124 0.75
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
Found at i:44497246 original size:29 final size:29
Alignment explanation
Indices: 44497204--44497273 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
44497194 GAAAAACTCA
*
44497204 CACACACAGTGCCTCAATTACTGATCTCG
1 CACACATAGTGCCTCAATTACTGATCTCG
*
44497233 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCAATTACTGATCTCG
44497262 CACACATAGTGC
1 CACACATAGTGC
44497274 TCGGTTAACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACTGATCTCG
Found at i:44499417 original size:37 final size:37
Alignment explanation
Indices: 44499364--44499485 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
44499354 TTATTACGAA
*
44499364 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
44499401 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
44499438 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
44499475 GTCTCACCCGG
1 GTCTTACCCGG
44499486 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:44499642 original size:49 final size:49
Alignment explanation
Indices: 44499587--44499690 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
44499577 TTTTACATTA
*
44499587 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
44499636 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
44499685 GCCATT
1 GCCATT
44499691 CACATTCACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:44499692 original size:22 final size:22
Alignment explanation
Indices: 44499667--44499712 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
44499657 TACATACACT
44499667 TTCACATTCACCACATCGGCCA
1 TTCACATTCACCACATCGGCCA
44499689 TTCACATTCACCACATCGGCCA
1 TTCACATTCACCACATCGGCCA
44499711 TT
1 TT
44499713 AGGCCTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.39, G:0.09, T:0.26
Consensus pattern (22 bp):
TTCACATTCACCACATCGGCCA
Found at i:44499704 original size:49 final size:48
Alignment explanation
Indices: 44499587--44499704 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 48
44499577 TTTTACATTA
* * *
44499587 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTA-GCATTACCACATATACATACACTTTCACATTCACCACATCG
* *
44499636 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTA-GCATTACCACATATACATACACTTTCACATTCACCACATCG
44499685 GCCATTCA-CATTCACCACAT
1 GCCATT-AGCATT-ACCACAT
44499705 CGGCCATTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
48 3 0.05
49 60 0.94
50 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (48 bp):
GCCATTAGCATTACCACATATACATACACTTTCACATTCACCACATCG
Found at i:44499723 original size:120 final size:119
Alignment explanation
Indices: 44499587--44499809 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 119
44499577 TTTTACATTA
*
44499587 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
44499652 ACATATACATACACTTTCACATTCACCACATCGGCCATTCACATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACAT-GGCCATTCACATTCACCACATCG
44499707 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
*
44499772 ACATATACATACACTTTCACATTCATCACATGGCCATT
66 ACATATACATACACTTTCACATTCACCACATGGCCATT
44499810 AGGCCTTATC
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 7 0.07
120 94 0.93
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (119 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTTCACATTCACCACATGGCCATTCACATTCACCACATCG
Found at i:44499742 original size:49 final size:49
Alignment explanation
Indices: 44499689--44499869 Score: 296
Period size: 49 Copynumber: 3.8 Consensus size: 49
44499679 ACATCGGCCA
44499689 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
44499738 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
* *
44499787 TTCACATTCATCACAT-GGCCATTAGGCCTTATCACATAT--ATGCACT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
* * *
44499833 TTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACA
44499870 CATATATGTA
Statistics
Matches: 128, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
46 22 0.17
47 19 0.15
48 23 0.18
49 64 0.50
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
Found at i:44499775 original size:71 final size:71
Alignment explanation
Indices: 44499618--44499761 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
44499608 TATATACACT
44499618 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
44499683 CGGCCA
66 CGGCCA
44499689 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
44499754 CGGCCA
66 CGGCCA
44499760 TT
1 TT
44499762 AGGCCTTATC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.29, C:0.35, G:0.08, T:0.28
Consensus pattern (71 bp):
TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
CGGCCA
Found at i:44499855 original size:95 final size:97
Alignment explanation
Indices: 44499689--44499869 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 97
44499679 ACATCGGCCA
44499689 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATA-ATACACTTTCACATTCACCACAT
44499754 CGGCCATTAGGCCTTATCACATATACATACACT
65 CGGCCATTAGGCCTTATCACATATACATACACT
* * * *
44499787 TTCACATTCATCACAT-GGCCATTAGGCCTTATCACATAT-ATGCACTTTCACATTCATCACATT
1 TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATAATACACTTTCACATTCACCACATC
*
44499850 GGCCATTCGGCCTTATCACA
66 GGCCATTAGGCCTTATCACA
44499870 CATATATGTA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 40 0.51
97 23 0.29
98 15 0.19
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.30
Consensus pattern (97 bp):
TTCACATTCACCACATCGGCCATTAGGCCTTATCACATATAATACACTTTCACATTCACCACATC
GGCCATTAGGCCTTATCACATATACATACACT
Found at i:44506760 original size:66 final size:68
Alignment explanation
Indices: 44506631--44506760 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 68
44506621 GGGATGTATC
* *
44506631 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTGGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATGCGGCTAGGTCGCATGAGTGATACCAAGTGA
44506696 AGGACA
63 AGGACA
* * *
44506702 CCATGTAGATAAGAGAGCTAC-GAGATAAAT-CGGCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAATGCGGCTAGGTCGCATGAGTGATACCAAGTG
44506761 TTCACCATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
66 25 0.46
67 9 0.17
71 20 0.37
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (68 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGCGGCTAGGTCGCATGAGTGATACCAAGTGAAGG
ACA
Found at i:44510966 original size:49 final size:50
Alignment explanation
Indices: 44510894--44511017 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
44510884 CTGGTATGCA
* * * ** *
44510894 TAGTAGCTTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCCGATACACG
* *
44510943 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCCGATACACG
*
44510993 TAGTAGACTACACTTAGTACTACAC
1 TAGTAGCCTACACTTAGTACTACAC
44511018 TAATCCAGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 29 0.45
50 36 0.55
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCCGATACACG
Found at i:44514475 original size:46 final size:48
Alignment explanation
Indices: 44514367--44514487 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 48
44514357 AAGCTTGCAC
* * *
44514367 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATATCGAGGCTAATG
* *
44514415 CATGTCCCAGACATGTCTTACACTGGCTCT-TATA-AT-GTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATATCGAGGCTAATG
*
44514461 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
44514488 ACACATATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 33 0.51
47 1 0.02
48 30 0.46
49 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATATCGAGGCTAATG
Found at i:44518291 original size:27 final size:27
Alignment explanation
Indices: 44518237--44518287 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
44518227 TCTCTTTCAC
*
44518237 TTTTCATACATATACTATTTCATCATA
1 TTTTCATACACATACTATTTCATCATA
* *
44518264 TTTTCTTACACATTCTATTT-ATCA
1 TTTTCATACACATACTATTTCATCA
44518288 ATATGATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTCATACACATACTATTTCATCATA
Found at i:44520927 original size:3 final size:3
Alignment explanation
Indices: 44520919--44520973 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
44520909 AAGAACTTAT
*
44520919 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
44520967 AAA ATA A
1 ATA ATA A
44520974 GCTATTACGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44523905 original size:27 final size:29
Alignment explanation
Indices: 44523848--44523907 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
44523838 TATGTGACAG
* *
44523848 AATACAATTTCAAGTACTAATTAAATAAA
1 AATACAATTTCAAATACTAACTAAATAAA
* *
44523877 AATA-AATTT-AAATACTAACTAATTGAA
1 AATACAATTTCAAATACTAACTAAATAAA
44523904 AATA
1 AATA
44523908 TTAGCCTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 18 0.67
28 5 0.19
29 4 0.15
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (29 bp):
AATACAATTTCAAATACTAACTAAATAAA
Found at i:44529545 original size:14 final size:15
Alignment explanation
Indices: 44529526--44529555 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44529516 TCGACATAAC
44529526 CTTTTATG-ATTAAT
1 CTTTTATGCATTAAT
44529540 CTTTTATGCATTAAT
1 CTTTTATGCATTAAT
44529555 C
1 C
44529556 CTTAAGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
CTTTTATGCATTAAT
Found at i:44544197 original size:93 final size:93
Alignment explanation
Indices: 44544069--44544239 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44544059 GCCCATAAGT
* * *
44544069 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44544134 CGAGCTCGGATGCCTAGTTACATCTTTC
66 CGAGCTCGGATGCCTAGTTACATCTTTC
* *
44544162 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44544227 CGAGTTCGGATGC
66 CGAGCTCGGATGC
44544240 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTTC
Found at i:44544236 original size:46 final size:46
Alignment explanation
Indices: 44544061--44544236 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44544051 TGTAACCTGC
* * *
44544061 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
44544107 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
44544153 ACATCTTTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
44544200 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44544237 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:44546658 original size:29 final size:28
Alignment explanation
Indices: 44546626--44546682 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
44546616 GTGAGATAAA
* *
44546626 CTGATTTGGCTTCTGGCCATGCATATCAG
1 CTGATGTGGCTTCAGGCCATG-ATATCAG
44546655 CTGATGTGGCTTCAGGCCATGATATCAG
1 CTGATGTGGCTTCAGGCCATGATATCAG
44546683 TATTTCAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGATGTGGCTTCAGGCCATGATATCAG
Found at i:44555640 original size:20 final size:19
Alignment explanation
Indices: 44555602--44555645 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
44555592 TCTTGCACTT
* *
44555602 ATAAAATCATACTATAACA
1 ATAAAATAATACTAAAACA
*
44555621 CATAAAATAATATTAAAACA
1 -ATAAAATAATACTAAAACA
44555641 ATAAA
1 ATAAA
44555646 GAGAATTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAAATAATACTAAAACA
Found at i:44557585 original size:40 final size:40
Alignment explanation
Indices: 44557419--44557586 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44557409 CATTTGAATG
* * *
44557419 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
44557459 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
44557499 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
44557539 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
44557579 GTATCCGG
1 ATATCCGG
44557587 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:44559443 original size:80 final size:80
Alignment explanation
Indices: 44559359--44559507 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44559349 TATGGTAACC
* * * *
44559359 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44559423 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44559439 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44559504 CCGG
66 CCGG
44559508 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44559449 original size:40 final size:38
Alignment explanation
Indices: 44559400--44559507 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44559390 ATCACGATTT
*
44559400 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44559440 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44559480 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44559508 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44574128 original size:28 final size:27
Alignment explanation
Indices: 44574065--44574134 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
44574055 ATAGTGAGTC
*
44574065 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
44574092 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
44574120 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44574135 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44582022 original size:28 final size:27
Alignment explanation
Indices: 44581959--44582028 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
44581949 ATAGTGAGTC
*
44581959 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
44581986 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
44582014 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44582029 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44586507 original size:40 final size:40
Alignment explanation
Indices: 44586341--44586508 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44586331 CATTTGAATG
* * *
44586341 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
44586381 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
44586421 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
44586461 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
44586501 GTATCCGG
1 ATATCCGG
44586509 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:44592225 original size:47 final size:47
Alignment explanation
Indices: 44592155--44592402 Score: 406
Period size: 47 Copynumber: 5.3 Consensus size: 47
44592145 CCCTTCGGGA
* * * *
44592155 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
44592202 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
44592249 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
44592296 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
44592343 CTTATCACATATATACATATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
44592390 TTTACCACATATA
1 CTTATCACATATA
44592403 CATATCTTAT
Statistics
Matches: 188, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:44596875 original size:52 final size:50
Alignment explanation
Indices: 44596698--44596881 Score: 237
Period size: 50 Copynumber: 3.6 Consensus size: 50
44596688 ATCTGGTATG
* * *
44596698 CATAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTTATACA
* * *
44596748 -AGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATC-TAGTAGA
1 CA-TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTTA-TACA
* *
44596798 CATAGTAGCTTGCACTTAGTACTACACATGTGACCTACAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTTATACA
*
44596850 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
44596882 TTCTCACAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
49 2 0.02
50 72 0.63
51 1 0.01
52 38 0.33
53 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTTATACA
Found at i:44600160 original size:37 final size:37
Alignment explanation
Indices: 44600104--44600189 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
44600094 TTATTACGAA
* * *
44600104 GTCTTACCCGAACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
44600141 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
*
44600178 GTCTCACCCGGA
1 GTCTTACCCGGA
44600190 ACATATTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
Found at i:44600289 original size:48 final size:48
Alignment explanation
Indices: 44600234--44600385 Score: 232
Period size: 48 Copynumber: 3.2 Consensus size: 48
44600224 TATTACAACA
*
44600234 TTCACATTAGCTATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
44600282 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
44600330 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
44600378 TTCACATT
1 TTCACATT
44600386 CATCACATCG
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:44600539 original size:51 final size:50
Alignment explanation
Indices: 44600377--44600620 Score: 447
Period size: 51 Copynumber: 4.9 Consensus size: 50
44600367 CACACATATA
44600377 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-ATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAATACAC
44600426 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-ATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAATACAC
*
44600475 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-ATACAC
44600526 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-ATACAC
44600577 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
44600621 TATCTCATAC
Statistics
Matches: 191, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
49 91 0.48
51 100 0.52
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (50 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAATACAC
Found at i:44600562 original size:100 final size:100
Alignment explanation
Indices: 44600377--44600620 Score: 447
Period size: 100 Copynumber: 2.4 Consensus size: 100
44600367 CACACATATA
44600377 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-ATACACTTTCACATTCATCAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAATACACTTTCACATTCATCAC
44600441 ATCGGCCATTAGGCCTTATCACATATAT-ATACAC
66 ATCGGCCATTAGGCCTTATCACATATATAATACAC
*
44600475 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACATACACTTTCACATTCATCA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-ATACACTTTCACATTCATCA
44600540 CATCGGCCATTAGGCCTTATCACATATATACATACAC
65 CATCGGCCATTAGGCCTTATCACATATATA-ATACAC
44600577 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
44600621 TATCTCATAC
Statistics
Matches: 140, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
98 42 0.30
100 49 0.35
102 49 0.35
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (100 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATAATACAC
Found at i:44611977 original size:29 final size:30
Alignment explanation
Indices: 44611935--44612025 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 30
44611925 ACATGGCTTG
*
44611935 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
44611963 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
**
44611992 GAATAAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
44612020 GCATGT
1 GAATGT
44612026 ATGTAGACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.48
29 27 0.50
30 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:44612378 original size:27 final size:27
Alignment explanation
Indices: 44612347--44612413 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
44612337 CTAATTTGTG
44612347 AAATTACCGAAATACCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
* *
44612374 CAATTACCGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGACCTGTA
44612401 AAATTACCGAAAT
1 AAATTACCGAAAT
44612414 TCCCCTAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGACCTGTA
Found at i:44614068 original size:35 final size:35
Alignment explanation
Indices: 44614029--44614098 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
44614019 TGAATAAATG
44614029 AAAGTTTTGGACTGCTAGGGACCTTAGGAAGATTC
1 AAAGTTTTGGACTGCTAGGGACCTTAGGAAGATTC
44614064 AAAGTTTTGGACTGCTAGGGACCTTAGGAAGATTC
1 AAAGTTTTGGACTGCTAGGGACCTTAGGAAGATTC
44614099 GGCTAAGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (35 bp):
AAAGTTTTGGACTGCTAGGGACCTTAGGAAGATTC
Found at i:44616754 original size:2 final size:2
Alignment explanation
Indices: 44616747--44616778 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44616737 GCACTTATGA
44616747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44616779 GGTATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44617430 original size:40 final size:40
Alignment explanation
Indices: 44617366--44617530 Score: 251
Period size: 40 Copynumber: 4.2 Consensus size: 40
44617356 ATTCGGATTG
* *
44617366 ATAACAGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * * * *
44617405 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCGAGATACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
44617445 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
44617485 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
44617525 ATAACC
1 ATAACC
44617531 CCGAAGGTAC
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 12 0.11
40 101 0.89
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:44624763 original size:2 final size:2
Alignment explanation
Indices: 44624756--44624790 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
44624746 GCACTTATGA
*
44624756 AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44624791 TGTTCATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:44625425 original size:40 final size:40
Alignment explanation
Indices: 44625364--44625582 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
44625354 ATTCGGATTG
44625364 ATAA-CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44625402 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44625441 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44625481 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44625521 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
44625561 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
44625583 TACTTGGTTG
Statistics
Matches: 167, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.02
39 61 0.37
40 103 0.62
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44625511 original size:79 final size:80
Alignment explanation
Indices: 44625364--44625582 Score: 331
Period size: 79 Copynumber: 2.8 Consensus size: 80
44625354 ATTCGGATTG
44625364 ATAA-CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
44625427 TTTGTGCGAG-TACT
66 ATTGTGCGAGTTACT
* * *
44625441 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
44625506 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* **
44625521 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
44625583 TACTTGGTTG
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
77 4 0.03
78 8 0.06
79 73 0.57
80 43 0.34
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:44643388 original size:18 final size:17
Alignment explanation
Indices: 44643358--44643393 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
44643348 ATATGTGAAT
*
44643358 TATGAATTTATTATGTA
1 TATGAATTGATTATGTA
44643375 TATGAAATTGATTATGTA
1 TATG-AATTGATTATGTA
44643393 T
1 T
44643394 CCCACATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (17 bp):
TATGAATTGATTATGTA
Found at i:44643675 original size:25 final size:25
Alignment explanation
Indices: 44643628--44643676 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
44643618 ACACACCTTA
*
44643628 GCTCTTATGAGCATCTCGATATATG
1 GCTCTTATGAGCATCCCGATATATG
* *
44643653 GCTCTTATGAGCTTCCCGTTATAT
1 GCTCTTATGAGCATCCCGATATAT
44643677 ACCTAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGATATATG
Found at i:44644484 original size:20 final size:20
Alignment explanation
Indices: 44644459--44644503 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44644449 ATTTAGTAAA
* *
44644459 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
44644479 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
44644499 ATGAA
1 ATGAA
44644504 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:44665817 original size:29 final size:29
Alignment explanation
Indices: 44665778--44665856 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44665768 CTTAATAATC
*
44665778 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44665808 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44665837 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44665857 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44666315 original size:2 final size:2
Alignment explanation
Indices: 44666310--44666336 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44666300 TCACACATGC
44666310 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44666337 GTCCGAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44671125 original size:40 final size:40
Alignment explanation
Indices: 44671061--44671290 Score: 243
Period size: 39 Copynumber: 5.8 Consensus size: 40
44671051 GCTACTCGTT
* * * ***
44671061 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
44671101 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
44671141 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
44671180 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
44671219 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
44671258 CAATTGCCTTCGGG-CTTAGCCCAGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
44671291 TTCGCACATT
Statistics
Matches: 173, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 128 0.74
40 45 0.26
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:44671178 original size:39 final size:39
Alignment explanation
Indices: 44671097--44671298 Score: 314
Period size: 39 Copynumber: 5.2 Consensus size: 39
44671087 TATGGTAACC
* *
44671097 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
44671137 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
44671176 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
44671215 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
44671254 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
44671293 CGCACA
1 CGCACA
44671299 TTCATACACA
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 135 0.89
40 17 0.11
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:44676814 original size:29 final size:29
Alignment explanation
Indices: 44676775--44676853 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44676765 CTTAATAATC
*
44676775 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44676805 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44676834 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44676854 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44677281 original size:26 final size:26
Alignment explanation
Indices: 44677252--44677303 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44677242 TTCTTAGCTA
44677252 TTCGGCTAATAACCATATGCTATCGC
1 TTCGGCTAATAACCATATGCTATCGC
44677278 TTCGGCTAATAACCATATGCTATCGC
1 TTCGGCTAATAACCATATGCTATCGC
44677304 CCTACTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (26 bp):
TTCGGCTAATAACCATATGCTATCGC
Found at i:44680552 original size:17 final size:18
Alignment explanation
Indices: 44680525--44680558 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44680515 CAATAAATAT
44680525 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
44680543 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
44680559 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:44683284 original size:46 final size:46
Alignment explanation
Indices: 44683231--44683406 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
44683221 TGTTTGGGCA
44683231 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
44683277 TCAGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * * * *
44683322 CATCCGAGCTCGTTGAATTGAGCCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
44683370 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44683407 GCGAGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
45 1 0.01
46 60 0.57
47 24 0.23
48 1 0.01
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:44683386 original size:93 final size:93
Alignment explanation
Indices: 44683227--44683398 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
44683217 AGGATGTTTG
* * * * *
44683227 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCAGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGCCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
44683292 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
44683320 GGCATCCGAGCTCGTTGAATTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGCCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
*
44683385 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
44683399 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAATTGAGCCCGAGTTCACTTATGGATGCGAACGCCAGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:44688321 original size:27 final size:28
Alignment explanation
Indices: 44688264--44688333 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44688254 AAATTTGTAC
**
44688264 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
44688292 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
44688319 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44688334 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:44696206 original size:27 final size:28
Alignment explanation
Indices: 44696149--44696218 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
44696139 AAATTTGTAC
**
44696149 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
44696177 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
44696204 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44696219 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:44703188 original size:17 final size:17
Alignment explanation
Indices: 44703168--44703202 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44703158 AGTTTTCTTG
44703168 GGCATATAGTATCTGCT
1 GGCATATAGTATCTGCT
44703185 GGCATATAGTATCTGCT
1 GGCATATAGTATCTGCT
44703202 G
1 G
44703203 AAGGTGTCAA
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:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (17 bp):
GGCATATAGTATCTGCT
Found at i:44713158 original size:43 final size:42
Alignment explanation
Indices: 44713105--44713277 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 42
44713095 ACATAGGATT
44713105 TCGATATGAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATAT-AGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * **
44713148 TCGATTTGAGATTTATGTGTAAAACCATGTCTGGGAC-ACGAGCA
1 TCGATAT-AGATTT-CGTGTAAGACCATGTCTGGGACGTTG-GCA
*
44713192 TC-ATATATGATTTCGTGTAAGA-CACTGTCTGGGGCAG-TGGCA
1 TCGATATA-GATTTCGTGTAAGACCA-TGTCTGGGAC-GTTGGCA
* * * * * * *
44713234 TTGATATTTGATTACATGTAAGACCACGTCTAGGACGTTCGCA
1 TCGATA-TAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
44713277 T
1 T
44713278 TGTATGAGCT
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 22 0.22
43 50 0.49
44 28 0.27
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGATATAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:44713193 original size:44 final size:43
Alignment explanation
Indices: 44713105--44713224 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
44713095 ACATAGGATT
* **
44713105 TCGATATGAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGAGATTTCGTGTAAAACCATGTCTGGGACGACGGCA
* *
44713148 TCGATTTGAGATTTATGTGTAAAACCATGTCTGGGAC-ACGAGCA
1 TCGATATGAGATTT-CGTGTAAAACCATGTCTGGGACGACG-GCA
*
44713192 TC-ATAT-ATGATTTCGTGTAAGA-CACTGTCTGGG
1 TCGATATGA-GATTTCGTGTAAAACCA-TGTCTGGG
44713225 GCAGTGGCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 16 0.25
43 22 0.34
44 25 0.38
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGAGATTTCGTGTAAAACCATGTCTGGGACGACGGCA
Found at i:44715799 original size:42 final size:40
Alignment explanation
Indices: 44715737--44715903 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 40
44715727 TTAAGCCCAG
* * * *
44715737 ATATAGTACTAGCACTAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* *
44715777 ATATACTTTACCAGCACAAAGCCTGTGGGATTTAACCCAGAT
1 ATATA--TTACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* * * *
44715819 ATATATTACCAGCATGAAGCCTACGGGATTTAATCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* *
44715859 ATATATTACCAGCACGAAGCTTGCGGCATTTAACCCAGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
44715899 ATATA
1 ATATA
44715904 ATATATCGAG
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 73 0.68
42 35 0.32
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
Found at i:44715890 original size:80 final size:81
Alignment explanation
Indices: 44715753--44715903 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 81
44715743 TACTAGCACT
* * *
44715753 AAGCCTGCGGGATTTAACCCGGATATATACTTTACCAGCACAAAGCCTGTGGGATTTAACCCAGA
1 AAGCCTACGGGATTTAACCCGGATATATAC-TTACCAGCACAAAGCCTGCGGCATTTAACCCAGA
44715818 TATATATTACCAGCATG
65 TATATATTACCAGCATG
* * *
44715835 AAGCCTACGGGATTTAATCCGGATATATA-TTACCAGCACGAAGCTTGCGGCATTTAACCCAGAT
1 AAGCCTACGGGATTTAACCCGGATATATACTTACCAGCACAAAGCCTGCGGCATTTAACCCAGAT
44715899 ATATA
66 ATATA
44715904 ATATATCGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 36 0.57
82 27 0.43
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (81 bp):
AAGCCTACGGGATTTAACCCGGATATATACTTACCAGCACAAAGCCTGCGGCATTTAACCCAGAT
ATATATTACCAGCATG
Found at i:44716724 original size:2 final size:2
Alignment explanation
Indices: 44716719--44716747 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44716709 GAATGCACAC
44716719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44716748 CGTAATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44719486 original size:20 final size:20
Alignment explanation
Indices: 44719461--44719505 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44719451 AGGGACTAAA
* *
44719461 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
44719481 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
44719501 ATGAA
1 ATGAA
44719506 TACACGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:44723568 original size:17 final size:17
Alignment explanation
Indices: 44723546--44723582 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44723536 CTTGAAAATT
44723546 TTAAAGATTTCGAGCAA
1 TTAAAGATTTCGAGCAA
*
44723563 TTAAAGATTTTGAGCAA
1 TTAAAGATTTCGAGCAA
44723580 TTA
1 TTA
44723583 TGTAATACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (17 bp):
TTAAAGATTTCGAGCAA
Found at i:44725485 original size:49 final size:49
Alignment explanation
Indices: 44725242--44725474 Score: 304
Period size: 49 Copynumber: 4.7 Consensus size: 49
44725232 CTATTGTGAG
* * * *
44725242 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
* * * *
44725291 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTA
* * * **
44725341 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
*
44725391 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
*
44725441 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATG
44725475 CATACTAGAT
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 72 0.45
50 49 0.31
51 38 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTA
Found at i:44727254 original size:29 final size:29
Alignment explanation
Indices: 44727187--44727282 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
44727177 AAGTCTACAT
* * *
44727187 ACATGCATATGACCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
44727215 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
44727244 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
44727273 ACATTCATAT
1 ACATTCATAT
44727283 ACATGCTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 20 0.33
29 40 0.67
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:44727517 original size:16 final size:16
Alignment explanation
Indices: 44727493--44727530 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44727483 ATAGCCAAAC
* *
44727493 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
44727509 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
44727525 TTTCAG
1 TTTCAG
44727531 GATTTGCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:44733875 original size:70 final size:71
Alignment explanation
Indices: 44733724--44733886 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
44733714 GAGATGTATC
44733724 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44733789 AGGACA
66 AGGACA
44733795 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
44733859 CGGACA
66 AGGACA
44733865 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44733887 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44740876 original size:71 final size:70
Alignment explanation
Indices: 44740788--44740950 Score: 308
Period size: 71 Copynumber: 2.3 Consensus size: 70
44740778 GAGATGTATC
44740788 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG-
44740853 AGGACA
65 AGGACA
*
44740859 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44740924 GGACA
66 GGACA
44740929 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44740951 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 28 0.31
71 63 0.69
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
GGACA
Found at i:44746856 original size:41 final size:41
Alignment explanation
Indices: 44746811--44746928 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44746801 TGAAAGATAA
44746811 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44746852 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44746882 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44746923 ATGTAG
1 ATGTAG
44746929 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44746870 original size:71 final size:71
Alignment explanation
Indices: 44746779--44747005 Score: 447
Period size: 71 Copynumber: 3.2 Consensus size: 71
44746769 CGAGATGTAT
44746779 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44746844 AGGACA
66 AGGACA
44746850 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44746915 AGGACA
66 AGGACA
44746921 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44746986 AGGACA
66 AGGACA
44746992 -CATGTAGACAAGAG
1 CCATGTAGACAAGAG
44747006 CTACGAGACA
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 14 0.09
71 142 0.91
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44750301 original size:80 final size:81
Alignment explanation
Indices: 44750164--44750348 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 81
44750154 TTCGAATGAT
*
44750164 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* *
44750228 TGTGCGAGTTACTA-AA
65 TGTACGAGCTACTATAA
* * * **
44750244 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
44750307 TTGTACGAGCTACTATAA
64 TTGTACGAGCTACTATAA
* *
44750325 -CCGGGCTATGTCCGAAGGTATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
44750349 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
79 14 0.16
80 66 0.73
81 10 0.11
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGCTACTATAA
Found at i:44750321 original size:40 final size:38
Alignment explanation
Indices: 44750164--44750380 Score: 197
Period size: 40 Copynumber: 5.5 Consensus size: 38
44750154 TTCGAATGAT
* *
44750164 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTAAA
*
44750204 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TACTAAA
*
44750244 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TACTAAA
* *
44750284 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGCTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-AA
* * ** *
44750325 -CCGGGCTATGTCCGAAGGTATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTA-CTAAA
* *
44750363 TCC-GGTTAACTCCGAAGG
1 TCCGGGCTAAGTCCGAAGG
44750381 TACGTGATTC
Statistics
Matches: 155, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
38 15 0.10
39 23 0.15
40 106 0.68
41 11 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:44758272 original size:40 final size:40
Alignment explanation
Indices: 44758215--44758400 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
44758205 TCGAATGATG
* * * *
44758215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
44758255 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44758295 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
44758335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
44758376 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
44758401 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44758407 original size:80 final size:79
Alignment explanation
Indices: 44758268--44758423 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
44758258 GGACTAAGAT
* **
44758268 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
44758332 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
44758348 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
44758411 TATATCCGGTTAA
64 TAAATCCGGTTAA
44758424 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:44760529 original size:29 final size:30
Alignment explanation
Indices: 44760487--44760554 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
44760477 TATCGTATCT
44760487 TGGGTTTCTTTATCTAG-ATTTCTTTATTC
1 TGGGTTTCTTTATCTAGAATTTCTTTATTC
*
44760516 TGGGTTT-TTCTATCTTGAATTTCTTTATTC
1 TGGGTTTCTT-TATCTAGAATTTCTTTATTC
*
44760546 -GGTTTTCTT
1 TGGGTTTCTT
44760555 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 2 0.06
29 18 0.53
30 14 0.41
ACGTcount: A:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTTTATCTAGAATTTCTTTATTC
Found at i:44762214 original size:29 final size:29
Alignment explanation
Indices: 44762182--44762254 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44762172 CTTCGAGCTC
*
44762182 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44762211 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44762240 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44762255 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44766333 original size:49 final size:49
Alignment explanation
Indices: 44766261--44766435 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
44766251 TGAGGTCACG
* *
44766261 TGTGTAGTACTTAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
44766310 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* * *
44766361 TGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTATTCGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
44766410 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
44766436 TACGTACTAG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 65 0.61
50 2 0.02
51 39 0.37
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:44766429 original size:100 final size:100
Alignment explanation
Indices: 44766256--44766442 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
44766246 TATTGTGAGG
* * *
44766256 TCACGTGTGTAGTACTTAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTCGTCGCATGTGTAGTACT
*
44766321 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATACGTACCCGAAAACTGTGA
* *
44766356 TCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTATTCGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTCGTCGCATGTGTAGTACT
44766421 AAGTGCAGGCTACTATACGTAC
66 AAGTGCAGGCTACTATACGTAC
44766443 TAGATAGCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTCGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATACGTACCCGAAAACTGTGA
Found at i:44768071 original size:27 final size:26
Alignment explanation
Indices: 44768031--44768135 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 26
44768021 CCAAATTTGA
*
44768031 TAAATGACTATTTTGCCCTTATGTGG
1 TAAATGACTGTTTTGCCCTTATGTGG
* *
44768057 TTAAATGATTGTTTTGCCCTAATGTGG
1 -TAAATGACTGTTTTGCCCTTATGTGG
*** * **
44768084 TAAATGACTGAAATGCCCCTACATGG
1 TAAATGACTGTTTTGCCCTTATGTGG
* *
44768110 TAAATTGATTGTTTTGCCATTATGTG
1 TAAA-TGACTGTTTTGCCCTTATGTG
44768136 ATACATGTTT
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
26 22 0.38
27 36 0.62
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (26 bp):
TAAATGACTGTTTTGCCCTTATGTGG
Found at i:44768100 original size:26 final size:27
Alignment explanation
Indices: 44768044--44768101 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
44768034 ATGACTATTT
* * ***
44768044 TGCCCTTATGTGGTTAAATGATTGTTT
1 TGCCCTAATGTGGTTAAATGACTGAAA
44768071 TGCCCTAATGTGG-TAAATGACTGAAA
1 TGCCCTAATGTGGTTAAATGACTGAAA
44768097 TGCCC
1 TGCCC
44768102 CTACATGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCCTAATGTGGTTAAATGACTGAAA
Found at i:44768484 original size:18 final size:18
Alignment explanation
Indices: 44768461--44768495 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44768451 ACTTGTATAT
*
44768461 TGTTTACTGTTACTGCAC
1 TGTTTAATGTTACTGCAC
44768479 TGTTTAATGTTACTGCA
1 TGTTTAATGTTACTGCA
44768496 ATAGGCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (18 bp):
TGTTTAATGTTACTGCAC
Found at i:44769872 original size:2 final size:2
Alignment explanation
Indices: 44769852--44769899 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
44769842 CACTTAACAA
* * * *
44769852 AT AT GT AT AT AT GT TT AT AT AT AT AT -T TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44769893 AT AT AT A
1 AT AT AT A
44769900 GCCACATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (2 bp):
AT
Found at i:44774115 original size:17 final size:17
Alignment explanation
Indices: 44774093--44774139 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
44774083 ATAAAAGGGT
44774093 TTGTTTTAATTAACTAA
1 TTGTTTTAATTAACTAA
* * *
44774110 TTGTTTAAACTAATTAA
1 TTGTTTTAATTAACTAA
*
44774127 TTGATTTAATTAA
1 TTGTTTTAATTAA
44774140 AGCAAAGAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGTTTTAATTAACTAA
Found at i:44778241 original size:42 final size:44
Alignment explanation
Indices: 44778195--44778307 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
44778185 CAATGCCGAT
* **
44778195 GTCCCAAACATGATC-TAC-GTAACCACATATATCGATGCCAAC
1 GTCCCAAACATGATCTTACAGAAAAAACATATATCGATGCCAAC
* *
44778237 GTCCCAGACATGGTCTTACAAGAAAAAACATATATCGATGCCAAC
1 GTCCCAAACATGATCTTAC-AGAAAAAACATATATCGATGCCAAC
* * * *
44778282 ATCCCAGACGTGGTCTTACACGAAAA
1 GTCCCAAACATGATCTTACA-GAAAA
44778308 CAAATGTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 13 0.22
43 3 0.05
44 1 0.02
45 43 0.72
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.20
Consensus pattern (44 bp):
GTCCCAAACATGATCTTACAGAAAAAACATATATCGATGCCAAC
Found at i:44778275 original size:45 final size:45
Alignment explanation
Indices: 44778219--44778307 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
44778209 CTACGTAACC
*
44778219 ACATATATCGATGCCAACGTCCCAGACATGGTCTTACAAGAAAAA
1 ACATATATCGATGCCAACATCCCAGACATGGTCTTACAAGAAAAA
* *
44778264 ACATATATCGATGCCAACATCCCAGACGTGGTCTTACACGAAAA
1 ACATATATCGATGCCAACATCCCAGACATGGTCTTACAAGAAAA
44778308 CAAATGTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (45 bp):
ACATATATCGATGCCAACATCCCAGACATGGTCTTACAAGAAAAA
Found at i:44788670 original size:28 final size:28
Alignment explanation
Indices: 44788610--44788708 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
44788600 TCACAAATTG
** *
44788610 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTT-AAATTATATA
*
44788639 GCACTAAGTGTGCAAGTTTAATTATATA
1 GCACTAAGTGTGCAAGTTAAATTATATA
* ** *
44788667 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTAAATTATAT-A
44788695 GCACTAAGTGTGCA
1 GCACTAAGTGTGCA
44788709 GGCTTATTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTAAATTATATA
Found at i:44797681 original size:17 final size:18
Alignment explanation
Indices: 44797648--44797681 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44797638 CATAATACGG
*
44797648 ACCCATGTAGGCCCACAC
1 ACCCATGTAGCCCCACAC
44797666 ACCCATGT-GCCCCACA
1 ACCCATGTAGCCCCACA
44797682 TAGTCCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.47, G:0.15, T:0.12
Consensus pattern (18 bp):
ACCCATGTAGCCCCACAC
Found at i:44799192 original size:16 final size:16
Alignment explanation
Indices: 44799171--44799201 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44799161 TCATTTAAAA
44799171 GCCTATTGACTAGAGG
1 GCCTATTGACTAGAGG
44799187 GCCTATTGACTAGAG
1 GCCTATTGACTAGAG
44799202 ACAAGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (16 bp):
GCCTATTGACTAGAGG
Found at i:44802880 original size:29 final size:29
Alignment explanation
Indices: 44802847--44803007 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
44802837 GTGACGAGAT
44802847 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
44802876 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44802905 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
44802934 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
44802963 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
44802992 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44803008 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44810859 original size:29 final size:29
Alignment explanation
Indices: 44810826--44810986 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
44810816 GTGACGAGAT
44810826 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
44810855 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44810884 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
44810913 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
44810942 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
44810971 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44810987 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44821644 original size:21 final size:19
Alignment explanation
Indices: 44821620--44821660 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44821610 AAATTTTCTC
44821620 TAAAACTAGCATTTCACCTTT
1 TAAAACTA--ATTTCACCTTT
*
44821641 TAAAGCTAATTTCACCTTT
1 TAAAACTAATTTCACCTTT
44821660 T
1 T
44821661 TCATGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
21 7 0.37
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAACTAATTTCACCTTT
Found at i:44822096 original size:16 final size:16
Alignment explanation
Indices: 44822077--44822107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44822067 CTTCTTCACT
44822077 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44822093 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44822108 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:44822113 original size:20 final size:20
Alignment explanation
Indices: 44822074--44822113 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44822064 AAACTTCTTC
* *
44822074 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44822094 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44822114 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:44822480 original size:54 final size:51
Alignment explanation
Indices: 44822299--44822551 Score: 190
Period size: 54 Copynumber: 4.8 Consensus size: 51
44822289 ATACGGGCAC
* * * * *
44822299 CTTACCATTTCCATGACTTGCCATGGTCTTACGTGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTT-ATAA
* * * * *
44822348 CTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCCTTGCTTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTAT-AA
* * * *
44822401 CTCACTAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATACTA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA--A
* * * * *
44822455 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCC-T-TATAA
* *
44822509 CTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
44822552 AAATCCTAAT
Statistics
Matches: 162, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
49 37 0.23
51 1 0.01
52 5 0.03
53 41 0.25
54 72 0.44
55 3 0.02
56 3 0.02
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (51 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAA
Found at i:44822497 original size:107 final size:108
Alignment explanation
Indices: 44822347--44822540 Score: 284
Period size: 107 Copynumber: 1.8 Consensus size: 108
44822337 TCCTTTTGAA
* * * *
44822347 ACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCCTTG-CTT-TATGAACTCACTAAT
1 ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTGTA-AAACTCACCAAT
44822410 GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATACT
65 GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATACT
* * * * *
44822454 ACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTGTAAAACTCACCAATG
44822519 CCATGCCTTGGCATGGTCTTAC
66 CCATGCCTTGGCATGGTCTTAC
44822541 TTGGTATCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
107 39 0.51
108 35 0.46
109 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (108 bp):
ACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTGTAAAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATACT
Found at i:44828505 original size:40 final size:40
Alignment explanation
Indices: 44828433--44828639 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
44828423 CAATTGAATG
* * ** *
44828433 ATATCC-GGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
44828472 ATATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
44828512 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
44828552 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
44828592 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
44828632 ATATCCGG
1 ATATCCGG
44828640 TTGTATTCTG
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 10 0.07
40 126 0.90
41 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:44828572 original size:80 final size:80
Alignment explanation
Indices: 44828474--44828639 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 80
44828464 TAGTAATTAT
* *
44828474 ATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGT-GACCACATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCGACC-CATCCGGGCTAAGACCCGAAGGCA
*
44828537 TTCGTGCAAGTTGTTAA
64 TTCGTGCAAGTGGTTAA
* ** *
44828554 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATT
* *
44828619 CGTGCATGTGGTTAT
66 CGTGCAAGTGGTTAA
44828634 ATCCGG
1 ATCCGG
44828640 TTGTATTCTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.95
81 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGACCCATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:44836526 original size:40 final size:40
Alignment explanation
Indices: 44836469--44836713 Score: 287
Period size: 40 Copynumber: 6.2 Consensus size: 40
44836459 ATTGAATGAT
* * * * ** *
44836469 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
* * * * *
44836509 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-TTAA
*
44836549 ATCCGGGCTAAGACCCGAAGGCATTCG-GCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
* *
44836588 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
*
44836628 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
* * * *
44836668 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
44836708 ATCCGG
1 ATCCGG
44836714 TTGTATTCCG
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.19
40 149 0.81
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTAA
Found at i:44836680 original size:119 final size:120
Alignment explanation
Indices: 44836469--44836713 Score: 316
Period size: 119 Copynumber: 2.0 Consensus size: 120
44836459 ATTGAATGAT
* * * * *
44836469 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
* *
44836534 TGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCG-GCAAGTCGTTAA
66 TGTGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * **
44836588 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
* * * *
44836652 TCGTGCAAGTCG-TTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
66 T-GTGCAAGT-GACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
44836708 ATCCGG
1 ATCCGG
44836714 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
118 3 0.03
119 89 0.82
120 16 0.15
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (120 bp):
ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:44836689 original size:80 final size:80
Alignment explanation
Indices: 44836469--44836713 Score: 316
Period size: 80 Copynumber: 3.1 Consensus size: 80
44836459 ATTGAATGAT
* * ** * ** * *
44836469 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGC-AT
* * *
44836534 T-GTGCTAG-TGACTAC
65 TCGTGCAAGTTG-TTAA
44836549 ATCCGGGCTAAGACCCGAAGGCATTCG-GCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
44836613 CGTGCAAGTTGTTAA
66 CGTGCAAGTTGTTAA
44836628 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
* * *
44836693 CGTGCACGTGGTTAT
66 CGTGCAAGTTGTTAA
44836708 ATCCGG
1 ATCCGG
44836714 TTGTATTCCG
Statistics
Matches: 147, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 64 0.44
80 80 0.54
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAAATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGTTAA
Found at i:44836726 original size:79 final size:79
Alignment explanation
Indices: 44836509--44836713 Score: 313
Period size: 79 Copynumber: 2.6 Consensus size: 79
44836499 TAGTAATTAT
* * ** *
44836509 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAT
44836573 TCGGCAAGTCGTTAA
65 TCGGCAAGTCGTTAA
*
44836588 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
44836653 CGTGCAAGTCGTTAA
66 CG-GCAAGTCGTTAA
* *
44836668 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
44836714 TTGTATTCCG
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
78 3 0.03
79 57 0.50
80 55 0.48
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
CGGCAAGTCGTTAA
Found at i:44845662 original size:57 final size:57
Alignment explanation
Indices: 44845514--44845655 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 57
44845504 TATCATATAA
* ** *
44845514 TAGGATTACCAATCCAGGCTAAATCCTATCTCCAACATATGCTCACAAGAGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTCAAT
* * * *
44845571 TAGGATTTA-CAGTCCAGGTTGAATCCTTTCTGTAACATATGCTCAGAAGAGCTCAAT
1 TAGGA-TTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTCAAT
44845628 TAGGATTACCAGTCCAGGCTAAATCCTA
1 TAGGATTACCAGTCCAGGCTAAATCCTA
44845656 ATTGTAATGT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
56 3 0.04
57 66 0.92
58 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (57 bp):
TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTCAAT
Found at i:44847736 original size:47 final size:47
Alignment explanation
Indices: 44847608--44847745 Score: 204
Period size: 48 Copynumber: 2.9 Consensus size: 47
44847598 TACCACGGTT
* *
44847608 ATACATTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATTAATGTGGTGCTAAGTGGATATACCACGGTTACACATATAG
* * *
44847655 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATAG
1 ATACAT-TAATGTGGTGCTAAGTGGATATACCACGGTTACACATATAG
* *
44847703 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATTAATGTGGTGCTAAGTGGATATACCACGGTTACACAT
44847746 GTAACGTGGT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 39 0.49
48 41 0.51
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (47 bp):
ATACATTAATGTGGTGCTAAGTGGATATACCACGGTTACACATATAG
Found at i:44847764 original size:38 final size:38
Alignment explanation
Indices: 44847713--44847785 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
44847703 ATTCATTAAT
44847713 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
* * *
44847751 GTGGTGCTAAGTGGATCTGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
44847786 TAATTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
Found at i:44850316 original size:28 final size:28
Alignment explanation
Indices: 44850272--44850373 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
44850262 GGCCCCTTTA
*
44850272 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATGGCCCATCG
* *
44850300 GGCCCAATCACACTCATATGGCCCATCA
1 GGCCCAATCACATTCATATGGCCCATCG
* *
44850328 GGCCCAATCACTTTCATATGGCCCGTCG
1 GGCCCAATCACATTCATATGGCCCATCG
44850356 GGCCCAATCACATTCATA
1 GGCCCAATCACATTCATA
44850374 GTCATGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.23
Consensus pattern (28 bp):
GGCCCAATCACATTCATATGGCCCATCG
Found at i:44862344 original size:27 final size:27
Alignment explanation
Indices: 44862321--44862526 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
44862311 TTAGTTTACC
* *
44862321 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
44862348 AAATCACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * ** *
44862375 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
44862402 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
44862429 AAATTACCAAAATACCCCTGGTCTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
44862456 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
44862483 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
44862510 AAATTATCAAAATACCC
1 AAATTACCAAAATACCC
44862527 AATACCTCTG
Statistics
Matches: 148, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:44862386 original size:54 final size:54
Alignment explanation
Indices: 44862311--44862526 Score: 290
Period size: 54 Copynumber: 4.0 Consensus size: 54
44862301 TTAGAATACT
* ** *
44862311 TTAGTTTACCAAATTACCAAAATACCTTTGGTTTGTAAAATCACTAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * ** *
44862365 TTAGTTTATAAAATCACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* * *
44862419 TTGGTTTACAAAATTACCAAAATACCCCTGGTCTGTAAAATTACTAAAATACCT
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
* *
44862473 TTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCC
44862527 AATACCTCTG
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 139 0.99
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:44862531 original size:34 final size:34
Alignment explanation
Indices: 44862493--44862560 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
44862483 AAATTACCAA
* *
44862493 AATACCCCTGGTTTGTAAAATTATCAAAATACCC
1 AATACCCCTGATTTGTAAAATTACCAAAATACCC
* *
44862527 AATACCTCTGATTTGTGAAATTACCAAAATACCC
1 AATACCCCTGATTTGTAAAATTACCAAAATACCC
44862561 CTGATTTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (34 bp):
AATACCCCTGATTTGTAAAATTACCAAAATACCC
Found at i:44862564 original size:27 final size:27
Alignment explanation
Indices: 44862527--44862647 Score: 104
Period size: 27 Copynumber: 4.5 Consensus size: 27
44862517 CAAAATACCC
* *
44862527 AATACCTCTGATTTGTGAAATTACCAA
1 AATACCCCTGATTTGTAAAATTACCAA
* *
44862554 AATACCCCTGATTTGTGAAATTA-CTA
1 AATACCCCTGATTTGTAAAATTACCAA
** **
44862580 AATA-CCCTCGACCTGTAAAATTATTAA
1 AATACCCCT-GATTTGTAAAATTACCAA
*
44862607 AATA-CCCTCGACTTGTAAAATTACCAA
1 AATACCCCT-GATTTGTAAAATTACCAA
* *
44862634 AGTACCCTTGATTT
1 AATACCCCTGATTT
44862648 ACAGAATTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
25 4 0.05
26 17 0.22
27 54 0.69
28 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AATACCCCTGATTTGTAAAATTACCAA
Found at i:44862655 original size:27 final size:26
Alignment explanation
Indices: 44862623--44862697 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
44862613 CTCGACTTGT
44862623 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* ** **
44862650 AGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCA-AATACCCTTGATTTAC
44862677 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
44862698 TTGGGTAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:44862707 original size:27 final size:27
Alignment explanation
Indices: 44862679--44863008 Score: 410
Period size: 27 Copynumber: 12.3 Consensus size: 27
44862669 CAATTTACAA
* * *
44862679 AATTACCGAAATACCCTTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
44862706 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862733 AATTACTGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862760 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862787 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862814 AATTACCGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862841 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
44862868 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
44862895 AATTATCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
44862922 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
44862949 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
44862976 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
44863002 AATTACC
1 AATTACC
44863009 ATTTTGCCCC
Statistics
Matches: 268, Mismatches: 35, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 17 0.06
27 251 0.94
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:44863487 original size:22 final size:22
Alignment explanation
Indices: 44863435--44863499 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44863425 TTAAAGCCTT
* *
44863435 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
44863457 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
44863479 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
44863500 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:44863688 original size:27 final size:27
Alignment explanation
Indices: 44863658--44863759 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
44863648 ATTCTGTTAA
* *
44863658 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
44863685 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
44863712 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
44863739 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
44863760 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:44863933 original size:6 final size:6
Alignment explanation
Indices: 44863918--44864020 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
44863908 ATTCTGTTAC
* * *
44863918 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
44863967 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CTAATT CT-AGTT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT
44864016 CTGAT
1 CTGAT
44864021 AATGTTTCTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.05
6 67 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Done.