Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 160 of 276
Found at i:52047388 original size:10 final size:10
Alignment explanation
Indices: 52047373--52047399 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52047363 TTACACAAAC
52047373 AGGCCCATTG
1 AGGCCCATTG
52047383 AGGCCCATTG
1 AGGCCCATTG
52047393 AGGCCCA
1 AGGCCCA
52047400 GTACACGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (10 bp):
AGGCCCATTG
Found at i:52056336 original size:47 final size:47
Alignment explanation
Indices: 52056282--52056376 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
52056272 GAGTTAAATG
52056282 TGTTATATCATGAACTTACTAAGCTTTAAAGCTTACTTGTGAAATTT
1 TGTTATATCATGAACTTACTAAGCTTTAAAGCTTACTTGTGAAATTT
52056329 TGTTATATCATGAACTTACTAAGCTTTAAAGCTTACTTGTGAAATTT
1 TGTTATATCATGAACTTACTAAGCTTTAAAGCTTACTTGTGAAATTT
52056376 T
1 T
52056377 CTCTATTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (47 bp):
TGTTATATCATGAACTTACTAAGCTTTAAAGCTTACTTGTGAAATTT
Found at i:52059884 original size:23 final size:23
Alignment explanation
Indices: 52059836--52059884 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
52059826 CCCTAAGTTA
* *
52059836 GCCCTATAAACTCATGTCTGTAG
1 GCCCCATAAACTCATGTCTATAG
*
52059859 GCCCCATAAACTCATGTCTATTG
1 GCCCCATAAACTCATGTCTATAG
52059882 GCC
1 GCC
52059885 TCAACATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (23 bp):
GCCCCATAAACTCATGTCTATAG
Found at i:52061409 original size:22 final size:22
Alignment explanation
Indices: 52061354--52061443 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
52061344 CAAAGTTTCT
* *
52061354 TATCATATATCATATCAGAGTCA
1 TATCATATAACATATCAAAG-CA
*
52061377 TAAT-ATGTAACATATCAAAGCA
1 T-ATCATATAACATATCAAAGCA
*
52061399 TATCATATAACTTATCAGAA-CA
1 TATCATATAACATATCA-AAGCA
* * * *
52061421 TAACACATAACATAGCAGAGCA
1 TATCATATAACATATCAAAGCA
52061443 T
1 T
52061444 GTCCTACCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
21 3 0.06
22 32 0.60
23 16 0.30
24 2 0.04
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.28
Consensus pattern (22 bp):
TATCATATAACATATCAAAGCA
Found at i:52068487 original size:27 final size:26
Alignment explanation
Indices: 52068456--52068517 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
52068446 AATTACTAGA
* * *
52068456 ATACCCTTAAGTATGAAAATTACCGTT
1 ATACCCCTAAGTA-CAAAATGACCGTT
* *
52068483 TTACCCCTAGGTACAAAATGACCGTT
1 ATACCCCTAAGTACAAAATGACCGTT
52068509 ATACCCCTA
1 ATACCCCTA
52068518 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (26 bp):
ATACCCCTAAGTACAAAATGACCGTT
Found at i:52073583 original size:27 final size:27
Alignment explanation
Indices: 52073553--52073809 Score: 360
Period size: 27 Copynumber: 9.6 Consensus size: 27
52073543 ATATTAAGTC
* * *
52073553 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
52073580 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
52073608 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
52073635 CGCACACTTAGTGGTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
52073663 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
52073690 CGCACACTTAGTGCTGC--A--CATCT
1 CGCACACTTAGTGCTACATAGTCAACT
52073713 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
52073740 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
52073768 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
52073795 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52073810 GCACAATTTA
Statistics
Matches: 209, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
23 19 0.09
25 2 0.01
27 111 0.53
28 77 0.37
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:52073614 original size:55 final size:55
Alignment explanation
Indices: 52073553--52073834 Score: 367
Period size: 55 Copynumber: 5.2 Consensus size: 55
52073543 ATATTAAGTC
* * * *
52073553 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
52073608 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGGTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * *
52073663 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGC---A-C-ATCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
52073713 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
52073768 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
52073824 CGCACACTTAG
1 CGCACACTTAG
52073835 CGCCAATCTC
Statistics
Matches: 197, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
50 44 0.22
51 1 0.01
54 1 0.01
55 135 0.69
56 16 0.08
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:52073741 original size:105 final size:106
Alignment explanation
Indices: 52073553--52073814 Score: 427
Period size: 105 Copynumber: 2.4 Consensus size: 106
52073543 ATATTAAGTC
* * * * *
52073553 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGC---A-CATACTCGCACACTTA
*
52073618 GTGCTACATAGTCAACTCGCACACTTAGTGGTACATAGTCAAACT
62 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
52073663 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAT-CTCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACATACTCGCACACTTAGTGC
52073727 TACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 TACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
52073768 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACA
1 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACA
52073815 ATTTAAACCC
Statistics
Matches: 146, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
105 103 0.71
106 3 0.02
107 1 0.01
110 39 0.27
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (106 bp):
CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACATACTCGCACACTTAGTGC
TACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:52074906 original size:21 final size:21
Alignment explanation
Indices: 52074880--52074919 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
52074870 TTTAGAACTC
52074880 AAGTCAATTACTAAAACATCT
1 AAGTCAATTACTAAAACATCT
52074901 AAGTCAATTACTAAAACAT
1 AAGTCAATTACTAAAACAT
52074920 GCATGCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (21 bp):
AAGTCAATTACTAAAACATCT
Found at i:52081902 original size:28 final size:27
Alignment explanation
Indices: 52081838--52081989 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
52081828 ATATTAAGTC
* *
52081838 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
52081865 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
52081893 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
52081920 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
52081948 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
52081975 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52081990 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52081922 original size:55 final size:55
Alignment explanation
Indices: 52081838--52082014 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
52081828 ATATTAAGTC
* * *
52081838 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
52081893 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
52081948 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
52082004 CGCACACTTAG
1 CGCACACTTAG
52082015 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:52096268 original size:38 final size:38
Alignment explanation
Indices: 52096210--52096290 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
52096200 TAAAACCAAG
*
52096210 ATAAACATAACTCATTCTTATGATGACCGAATTCAAAT
1 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
*
52096248 ATAAACATAACTTATACTTATGATGACCGAATTCAAAT
1 ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
52096286 ATAAA
1 ATAAA
52096291 AGTTTAGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (38 bp):
ATAAACATAACTCATACTTATGATGACCGAATTCAAAT
Found at i:52096490 original size:17 final size:17
Alignment explanation
Indices: 52096468--52096510 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
52096458 AATCTATAAA
52096468 ACAGAGTAACATAATAC
1 ACAGAGTAACATAATAC
52096485 ACAGAGTAACATAATAC
1 ACAGAGTAACATAATAC
52096502 ACAGAGTAA
1 ACAGAGTAA
52096511 GCTACCACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (17 bp):
ACAGAGTAACATAATAC
Found at i:52100513 original size:21 final size:21
Alignment explanation
Indices: 52100487--52100528 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52100477 TTTCAAAAGA
52100487 GTAGTTAAGAATATCATGTAT
1 GTAGTTAAGAATATCATGTAT
52100508 GTAGTTAAGAATATCATGTAT
1 GTAGTTAAGAATATCATGTAT
52100529 ATAATCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
GTAGTTAAGAATATCATGTAT
Found at i:52102403 original size:25 final size:25
Alignment explanation
Indices: 52102375--52102436 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
52102365 CAGCTCGTGT
* *
52102375 GAGCTTACCGTTATTCAACTCGGAG
1 GAGCTTACCATTATTCAACTCAGAG
* *
52102400 GAGCATACCATTATTCAACTTAGAG
1 GAGCTTACCATTATTCAACTCAGAG
52102425 GAGCTTACCATT
1 GAGCTTACCATT
52102437 TACAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCAGAG
Found at i:52102461 original size:24 final size:24
Alignment explanation
Indices: 52102425--52102476 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
52102415 CAACTTAGAG
52102425 GAGCTTACCATTTACAGCTCGTAA
1 GAGCTTACCATTTACAGCTCGTAA
* * *
52102449 GAGC-TACCGATTTAGAGCTTGTAT
1 GAGCTTACC-ATTTACAGCTCGTAA
52102473 GAGC
1 GAGC
52102477 ATACATGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
GAGCTTACCATTTACAGCTCGTAA
Found at i:52108572 original size:29 final size:29
Alignment explanation
Indices: 52108514--52108615 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
52108504 TACCTATATC
* **
52108514 TGGCCCATTAAGCCC-AATCGTAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATCT-ATA
* * *
52108542 TGGCCCACTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
* *
52108571 TGCCCCATTAGGCCCAAATCAGATCTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
*
52108600 TGGCCCATTCGGCCCA
1 TGGCCCATTAGGCCCA
52108616 GTCACATTCA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 13 0.22
29 46 0.77
30 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATCTATA
Found at i:52109452 original size:19 final size:21
Alignment explanation
Indices: 52109411--52109458 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
52109401 TAAGTGAAAC
52109411 AAAGAAAATTGTGTAGAGAAGA
1 AAAG-AAATTGTGTAGAGAAGA
*
52109433 ATAGAAATTG-GTAG-GAAGA
1 AAAGAAATTGTGTAGAGAAGA
52109452 AAAGAAA
1 AAAGAAA
52109459 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 6 0.25
22 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAGAAATTGTGTAGAGAAGA
Found at i:52110796 original size:27 final size:26
Alignment explanation
Indices: 52110748--52110879 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 26
52110738 GCGAGGCTGC
* * *
52110748 CAGATATTGTGACAAAGTCACCAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
*
52110774 ACAGATACTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
52110801 CAGATAATTGTGGCATAGCCACCTGGA-
1 CAGAT-ATTGTGGCAGAGCCACC-AGAT
52110828 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
52110855 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
52110880 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.10
27 77 0.86
28 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:52110842 original size:54 final size:53
Alignment explanation
Indices: 52110748--52110882 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 53
52110738 GCGAGGCTGC
* * * * *
52110748 CAGAT-ATTGTGACAAAGTCACCAGATACAGATACTGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAG-GACAGATAATGTGGCAGAGCCACCAGAT
*
52110801 CAGATAATTGTGGCATAGCCACCTGGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAGGACAGATA-ATGTGGCAGAGCCACCAGAT
52110855 CAGATAATTGTGGCATAGCCACCAGGAC
1 CAGATAATTGTGGCATAGCCACCAGGAC
52110883 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 12 0.16
54 61 0.84
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (53 bp):
CAGATAATTGTGGCATAGCCACCAGGACAGATAATGTGGCAGAGCCACCAGAT
Found at i:52112510 original size:26 final size:26
Alignment explanation
Indices: 52112477--52112581 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
52112467 AATTCCCATT
52112477 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
52112503 ATGGAACATTTACTTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* *
52112529 ATGAAACATTTACCTAACCCTTTATC
1 ATGGAACATTTACCTAACCCATTATC
52112555 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
52112581 A
1 A
52112582 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:52114112 original size:42 final size:41
Alignment explanation
Indices: 52114065--52114147 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 41
52114055 CGTTTAAGTC
*
52114065 CAGGCCACCAGTACAATTCTCGTAAGTCGTGATACAACTTG
1 CAGGCCACCAATACAATTCTCGTAAGTCGTGATACAACTTG
52114106 NCAGGCCACCAATACAATTCTCGTAAGTCGTGATACAACTTG
1 -CAGGCCACCAATACAATTCTCGTAAGTCGTGATACAACTTG
52114148 TTCCCTCCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (41 bp):
CAGGCCACCAATACAATTCTCGTAAGTCGTGATACAACTTG
Found at i:52118933 original size:27 final size:26
Alignment explanation
Indices: 52118778--52118932 Score: 168
Period size: 27 Copynumber: 5.8 Consensus size: 26
52118768 CAAGGTTGCT
* * *
52118778 AGATATTGTGACAAAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGAT-C
* *
52118805 AGATATTGTGGCAAAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGATC
52118831 AGATATATGTGGCAGAGCCACCAGATC
1 AGATAT-TGTGGCAGAGCCACCAGATC
*
52118858 AGATAATTGTGGCATAGCCACCAGGA-C
1 AGAT-ATTGTGGCAGAGCCACCA-GATC
**
52118885 AGATATATGTGGCAGAGCCACTTGATC
1 AGATAT-TGTGGCAGAGCCACCAGATC
*
52118912 AGATAATTGTGGCATAGCCAC
1 AGAT-ATTGTGGCAGAGCCAC
52118933 TAGGACGCTT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
26 11 0.10
27 95 0.85
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGATC
Found at i:52118938 original size:54 final size:54
Alignment explanation
Indices: 52118778--52118938 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
52118768 CAAGGTTGCT
* * * * *
52118778 AGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAAAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGAC
52118831 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
** *
52118885 AGATATATGTGGCAGAGCCACTTGATCAGATAATTGTGGCATAGCCACTAGGAC
1 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
52118939 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 11 0.11
54 87 0.89
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (54 bp):
AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
Found at i:52120559 original size:26 final size:26
Alignment explanation
Indices: 52120529--52120636 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52120519 TGAAATTCCC
52120529 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52120555 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52120581 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52120607 ATCATGGAACATTTAGCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52120633 ATCA
1 ATCA
52120637 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52121174 original size:9 final size:9
Alignment explanation
Indices: 52121160--52121191 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
52121150 AAGTTCAGGC
52121160 TTTTGGGAT
1 TTTTGGGAT
52121169 TTTTGGG--
1 TTTTGGGAT
52121176 TTTTGGGAT
1 TTTTGGGAT
52121185 TTTTGGG
1 TTTTGGG
52121192 GCGTTACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:52121181 original size:16 final size:16
Alignment explanation
Indices: 52121160--52121191 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52121150 AAGTTCAGGC
52121160 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
52121176 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
52121192 GCGTTACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (16 bp):
TTTTGGGATTTTTGGG
Found at i:52121792 original size:100 final size:100
Alignment explanation
Indices: 52121652--52121848 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 100
52121642 TGGGAAGGAT
* * * *
52121652 CAAATTGCATAAAAGGCAAAAGTTGAGTTCTAGTATTTATAAGTATCAAATAGCTATGGAATTCA
1 CAAATTGAATAAAAGCCAAAAGTTGAGTTCTAGTAGTTATAAGTATCAAATACCTATGGAATTCA
*
52121717 AAATTTGAGGTCCTTATATGGTAATTAGACCAAAC
66 AAATTTAAGGTCCTTATATGGTAATTAGACCAAAC
*
52121752 CAAATTGAATAAAATGCCAAAA-TTGAGTTCTAGTAGTTATATGTATCAAATACCTATGGAATTC
1 CAAATTGAATAAAA-GCCAAAAGTTGAGTTCTAGTAGTTATAAGTATCAAATACCTATGGAATTC
52121816 AAAATTTAAGGTCCTTATATGGTAATTAGACCA
65 AAAATTTAAGGTCCTTATATGGTAATTAGACCA
52121849 TTAAGAAAAG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 84 0.93
101 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (100 bp):
CAAATTGAATAAAAGCCAAAAGTTGAGTTCTAGTAGTTATAAGTATCAAATACCTATGGAATTCA
AAATTTAAGGTCCTTATATGGTAATTAGACCAAAC
Found at i:52122237 original size:16 final size:16
Alignment explanation
Indices: 52122213--52122243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52122203 GATAAACAAC
52122213 TTCTAATTTTTATGAT
1 TTCTAATTTTTATGAT
*
52122229 TTCTGATTTTTATGA
1 TTCTAATTTTTATGA
52122244 AATATATGTG
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:0.23, C:0.06, G:0.10, T:0.61
Consensus pattern (16 bp):
TTCTAATTTTTATGAT
Found at i:52122932 original size:25 final size:24
Alignment explanation
Indices: 52122904--52122956 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
52122894 CATAAACGTA
*
52122904 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTGACAT-G
* *
52122929 GCTCTTTGTGAGCTTCCTGACATG
1 GCTCTTTATGAGCATCCTGACATG
52122953 GCTC
1 GCTC
52122957 ACTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTGACATG
Found at i:52129748 original size:97 final size:97
Alignment explanation
Indices: 52129556--52129843 Score: 531
Period size: 97 Copynumber: 2.9 Consensus size: 97
52129546 TTATGGAAAG
* *
52129556 GACCAAATTGCATAAAATGCAAAAGTTGAGTTCTAGTAGCTATAAGTATCAAATAGCTATGGAAT
1 GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAG--T-AAATAGCTATGGAAT
52129621 TCAAAATTTGAGGTCCTTATATGGTAATTAGATCA
63 TCAAAATTTGAGGTCCTTATATGGTAATTAGATCA
52129656 GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAGTAAATAGCTATGGAATTCA
1 GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAGTAAATAGCTATGGAATTCA
52129721 AAATTTGAGGTCCTTATATGGTAATTAGATCA
66 AAATTTGAGGTCCTTATATGGTAATTAGATCA
52129753 GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAGTAAATAGCTATGGAATTCA
1 GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAGTAAATAGCTATGGAATTCA
52129818 AAATTTGAGGTCCTTATATGGTAATT
66 AAATTTGAGGTCCTTATATGGTAATT
52129844 TGACCATTAA
Statistics
Matches: 186, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
97 141 0.76
98 1 0.01
100 44 0.24
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (97 bp):
GACCAAATTGCATAAAATGTAAAAGTTGAGTTCTAGTAACTATAAGTAAATAGCTATGGAATTCA
AAATTTGAGGTCCTTATATGGTAATTAGATCA
Found at i:52137091 original size:17 final size:17
Alignment explanation
Indices: 52137069--52137109 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
52137059 ATGGGCTAAA
52137069 TGGGCCCGACGGGCCTG
1 TGGGCCCGACGGGCCTG
52137086 TGGGCCCGACGGGCCTG
1 TGGGCCCGACGGGCCTG
52137103 TGGGCCC
1 TGGGCCC
52137110 AAAATAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.05, C:0.37, G:0.46, T:0.12
Consensus pattern (17 bp):
TGGGCCCGACGGGCCTG
Found at i:52137216 original size:29 final size:30
Alignment explanation
Indices: 52137174--52137264 Score: 111
Period size: 28 Copynumber: 3.2 Consensus size: 30
52137164 ACATGGCTTG
* *
52137174 GAAT-TGATTCGGG-CTAGATGGGTCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
52137202 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
52137231 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
52137259 GCATGT
1 GAATGT
52137265 ATGTAGACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 27 0.49
29 25 0.45
30 3 0.05
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:52137252 original size:28 final size:28
Alignment explanation
Indices: 52137179--52137259 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
52137169 GCTTGGAATT
* *
52137179 GATTCGGG-CTAGATGGGTCATATGAATGT
1 GATT-GGGCCTAG-TGGGCCATATGAATGA
*
52137208 GATTTGGGCCTAATGGGCCATATGAATGA
1 GA-TTGGGCCTAGTGGGCCATATGAATGA
52137237 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAGTGGGCCATATG
52137260 CATGTATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 20 0.43
29 21 0.46
30 5 0.11
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAATGA
Found at i:52139420 original size:56 final size:56
Alignment explanation
Indices: 52139229--52139419 Score: 303
Period size: 56 Copynumber: 3.4 Consensus size: 56
52139219 TCCCAGACAA
* *
52139229 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCTAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
* *
52139285 GGTCTTACTCGTACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
* *
52139341 GGTCTTACTCGTACACATATATC-GCAGTCACATATCGATGCCAATGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAG-AGTCACATATCGATGCCAACGTATAAAACGT
*
52139397 GGTCTTACTCACACACATATATC
1 GGTCTTACTCGCACACATATATC
52139420 GATGCCATGG
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 1 0.01
56 125 0.99
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:52145242 original size:21 final size:22
Alignment explanation
Indices: 52145218--52145263 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
52145208 TTATTCAATA
*
52145218 AAAATTATAA-AAACTAAAATG
1 AAAATAATAATAAACTAAAATG
*
52145239 AAAATAATAATAAAGTAAAATG
1 AAAATAATAATAAACTAAAATG
52145261 AAA
1 AAA
52145264 TAAAAAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAATAATAATAAACTAAAATG
Found at i:52150523 original size:73 final size:73
Alignment explanation
Indices: 52150404--52150551 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
52150394 GCAATAAAAG
*
52150404 TAAAATGGCTAAAGTAATAAAAATGGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
1 TAAAATGGCTAAAGTAATAAAAATCGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
52150469 AAACTTGA
66 AAACTTGA
52150477 TAAAATGGCTAAAGTAATAAAAATCGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
1 TAAAATGGCTAAAGTAATAAAAATCGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
52150542 AAACTTGA
66 AAACTTGA
52150550 TA
1 TA
52150552 CGTGATATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (73 bp):
TAAAATGGCTAAAGTAATAAAAATCGAGTGTTCCTAATATCCTAGTTCCCTGGCAACGGCGCCAA
AAACTTGA
Found at i:52156392 original size:56 final size:56
Alignment explanation
Indices: 52156320--52157236 Score: 1744
Period size: 56 Copynumber: 16.4 Consensus size: 56
52156310 TCCCATACAG
* * * * **
52156320 GGTCTTACTTGCACACATTTATTGGAGTCACATAAAGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* *
52156376 GGTTTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156432 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156488 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156544 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156600 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156656 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156712 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156768 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156824 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156880 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156936 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52156992 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52157048 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52157104 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
52157160 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
* *
52157216 GGTCTTACTCACACACGTATA
1 GGTCTTACTCGCACACATATA
52157237 CCAATGCCAT
Statistics
Matches: 849, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 849 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
Found at i:52162759 original size:23 final size:24
Alignment explanation
Indices: 52162709--52162761 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
52162699 CTTGTAACGC
*
52162709 GAAGCTAATAAAGAGCCATTTCGG
1 GAAGCTAATAAAGAGCCATATCGG
*
52162733 GAAGCTCATAAAGAGCC-TATCGG
1 GAAGCTAATAAAGAGCCATATCGG
52162756 GAAGCT
1 GAAGCT
52162762 TATCCTGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
GAAGCTAATAAAGAGCCATATCGG
Found at i:52165280 original size:40 final size:40
Alignment explanation
Indices: 52165218--52165435 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
52165208 AAGCCAAGTA
* * * *
52165218 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
52165257 CCTTCGGGACATAGCCCGGATATAGTAACCCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52165297 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
52165337 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
52165377 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
52165417 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52165436 TTATCATCCG
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52178366 original size:18 final size:18
Alignment explanation
Indices: 52178324--52178366 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
52178314 GCCCATTCCG
* *
52178324 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
52178342 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
52178360 AAGTATG
1 AAGTATG
52178367 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:52178895 original size:28 final size:28
Alignment explanation
Indices: 52178838--52179017 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
52178828 TAAATTGTGC
*
52178838 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
52178865 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
52178893 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
52178921 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
52178948 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
52178976 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
52179003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52179018 GACTTAATAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:52178902 original size:55 final size:55
Alignment explanation
Indices: 52178838--52179017 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
52178828 TAAATTGTGC
*
52178838 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
52178893 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
52178948 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
52179003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52179018 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:52178977 original size:83 final size:82
Alignment explanation
Indices: 52178838--52179017 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
52178828 TAAATTGTGC
52178838 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
52178903 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
52178921 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
52178986 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
52179003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52179018 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 22 0.24
83 70 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:52182152 original size:47 final size:47
Alignment explanation
Indices: 52182054--52182171 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
52182044 ATTGATAAGT
* * **
52182054 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGT
1 ACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAAA
* * * * *
52182101 ACCTATATCATGGCCTGTAGCCCAATCAAGGTAACTCCTCTCTGAAA
1 ACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAAA
* *
52182148 ACCTATATCACGGCCCGAAGCCAA
1 ACCTATATCATGGCCCGTAGCCAA
52182172 TACATTAACC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (47 bp):
ACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAAA
Found at i:52188636 original size:24 final size:24
Alignment explanation
Indices: 52188581--52188664 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
52188571 GGCTATATAA
* * *
52188581 CGGGAAGCTCATAAAAAGCCATAAT
1 CGGGAAGTTCACAAAAAACCAT-AT
* * *
52188606 CAGGAAGTTCACAAAGAACCTTAT
1 CGGGAAGTTCACAAAAAACCATAT
*
52188630 CTGGAAGTTCACAAAAAACCATAT
1 CGGGAAGTTCACAAAAAACCATAT
52188654 CGGGAAGTTCA
1 CGGGAAGTTCA
52188665 AACGAGCATT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
24 33 0.67
25 16 0.33
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (24 bp):
CGGGAAGTTCACAAAAAACCATAT
Found at i:52193906 original size:94 final size:91
Alignment explanation
Indices: 52193714--52193984 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 91
52193704 GTTTGTGTGA
* * * * * *
52193714 TAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAAAGCCAATGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATCAACTACATGATG---GACAGTGTAAGACCATGTCTA
** *
52193779 GGACATGGCATCATCATTGAGACGAGAGC
63 GGACATGGCATCGGCATCGAGACGAGAGC
* * *
52193808 TAGTGTAAGAAATGTCTGGGACATGCATCAACTACATGATGTGTCAGTATAAGACCATGTCTAGG
1 TAGTGTAAGACATGTCTGGGACATGCATCAACTACATGATG-GACAGTGTAAGACCATGTCTAGG
* * *
52193873 ACATGGCATCGGCA-CGAATACGTGGGAGT
65 ACATGGCATCGGCATCG-AGAC--GAGAGC
* *
52193902 TAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGACATGA-GAACTAGTGTAAGACCATGTC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAAC-T-ACATGATGGAC-AGTGTAAGACCATGTC
*
52193966 TAGGACATGGCATTGGCAT
61 TAGGACATGGCATCGGCAT
52193985 TATACCCTAT
Statistics
Matches: 147, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
91 1 0.01
92 34 0.23
94 51 0.35
95 12 0.08
96 9 0.06
97 34 0.23
98 6 0.04
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (91 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAACTACATGATGGACAGTGTAAGACCATGTCTAGGA
CATGGCATCGGCATCGAGACGAGAGC
Found at i:52193972 original size:47 final size:47
Alignment explanation
Indices: 52193714--52193978 Score: 208
Period size: 47 Copynumber: 5.6 Consensus size: 47
52193704 GTTTGTGTGA
*
52193714 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATT--ATGAAAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-A--ACATTACATGAGAGC
* * * * *
52193760 CAATGTAAGACCATGTCTGGGACATGGCATCATCATTGAGACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACATT-ACATGAGAGC
* *
52193808 TAGTGTAAGA-AATGTCTGGGACAT-GCATCAAC--TACATGATGTG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACATTACATGA-GAGC
* * * * * * *
52193851 TCAGTATAAGACCATGTCTAGGACATGGCATCGGCACGAATACGTGGGAGT
1 T-AGTGTAAGACCATGTCTGGGACATGGCATC--AAC-ATTACATGAGAGC
* *
52193902 TAGTGTAAGACCATGTTTGGGACATGGCATCAAC-TTGACATGAGAAC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAACATT-ACATGAGAGC
*
52193949 TAGTGTAAGACCATGTCTAGGACATGGCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCAT
52193979 TGGCATTATA
Statistics
Matches: 173, Mismatches: 30, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 5 0.03
44 11 0.06
45 16 0.09
46 21 0.12
47 62 0.36
48 23 0.13
50 29 0.17
51 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAACATTACATGAGAGC
Found at i:52195146 original size:21 final size:22
Alignment explanation
Indices: 52195107--52195147 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52195097 TCGAATTGGT
*
52195107 CACACGGGTGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
52195129 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
52195148 GTATCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:52196108 original size:26 final size:26
Alignment explanation
Indices: 52196079--52196188 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
52196069 TGGTACAAAT
52196079 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
52196105 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
52196131 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
52196157 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52196183 TGATAA
1 TGATAA
52196189 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:52197850 original size:27 final size:27
Alignment explanation
Indices: 52197808--52197947 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
52197798 GAGGAAGCGT
*
52197808 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
52197835 TCTAGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
52197862 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
52197889 TCTGGTGGCTCTGCCACGATTATGTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
52197917 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
52197943 TCTGG
1 TCTGG
52197948 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:52197897 original size:54 final size:55
Alignment explanation
Indices: 52197808--52197947 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
52197798 GAGGAAGCGT
* * * *
52197808 TCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
52197862 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATGTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
52197917 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
52197948 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:52215608 original size:43 final size:43
Alignment explanation
Indices: 52215542--52215674 Score: 205
Period size: 43 Copynumber: 3.1 Consensus size: 43
52215532 NNNNNNNNNN
*
52215542 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
*
52215585 GTGCTGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTA
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
* * *
52215628 GT-ATCGGTGATGTGTATCCGGGCCTTCGTGCCTAGCAGGCTTC
1 GTGCT-GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
52215671 GTGC
1 GTGC
52215675 CTAGCAGGCT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 80 0.99
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31
Consensus pattern (43 bp):
GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTA
Found at i:52215672 original size:16 final size:16
Alignment explanation
Indices: 52215651--52215691 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
52215641 GTATCCGGGC
52215651 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
52215667 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
52215683 CTTCGTGCC
1 CTTCGTGCC
52215692 GGTGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.10, C:0.34, G:0.29, T:0.27
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:52215709 original size:59 final size:59
Alignment explanation
Indices: 52215608--52215726 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
52215598 GTATTCGGGC
*
52215608 CTTCATGCCTAGCAGGCTTAGTATCGGTGATGTGTATCCGGGCCTTCGTGCCTAGCAGG
1 CTTCATGCCTAGCAGGCTTAGTACCGGTGATGTGTATCCGGGCCTTCGTGCCTAGCAGG
* * * *
52215667 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCATGCCTAGCAGGCTTAGTACCGGTGATGTGTATCCGGGCCTTCGTGCCTAGCAGG
52215726 C
1 C
52215727 GTAATGCCGG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.13, C:0.27, G:0.32, T:0.29
Consensus pattern (59 bp):
CTTCATGCCTAGCAGGCTTAGTACCGGTGATGTGTATCCGGGCCTTCGTGCCTAGCAGG
Found at i:52221670 original size:46 final size:46
Alignment explanation
Indices: 52221603--52221771 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
52221593 TGTAACCCGC
52221603 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGGCGTTCACAT
* *
52221649 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGG--G-C--GTTCACAT
* * * * *
52221699 CTC-T---CGAACTCGGACTCAACTCAACGAGT-TCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCACAT
52221742 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
52221772 GTTCGGATGC
Statistics
Matches: 102, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 56 0.55
47 25 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGGCGTTCACAT
Found at i:52221770 original size:93 final size:93
Alignment explanation
Indices: 52221611--52221782 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
52221601 GCCCATAAGT
* * *
52221611 GAACTCGGACTCAACTCAACGATCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
52221676 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
52221704 GAACTCGGACTCAACTCAACGAGT-TCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-TCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCA
*
52221768 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
52221783 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52221797 original size:46 final size:46
Alignment explanation
Indices: 52221608--52221797 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
52221598 CCCGCCCATA
**
52221608 AGTGAACTCGGACTCAACTCAACGA-TCTCGG--G-CGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGT-TCGGATGCCCAT-ACATCC-T
* * *
52221653 AAATGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
52221703 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCCT
*
52221747 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
52221793 AGTGA
1 AGTGA
52221798 CATGTCACTT
Statistics
Matches: 112, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
44 8 0.07
45 1 0.01
46 59 0.53
47 29 0.26
48 2 0.02
49 5 0.04
50 6 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:52227196 original size:46 final size:45
Alignment explanation
Indices: 52227129--52227303 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
52227119 TGTAACCCGC
52227129 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
52227175 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* *** * * * *
52227221 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
52227268 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
52227304 ATGCCCAAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.66
47 34 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:52227250 original size:93 final size:93
Alignment explanation
Indices: 52227137--52227308 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
52227127 GCCCATAAGT
* * *
52227137 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
52227202 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
52227230 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
52227295 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52227309 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52227323 original size:46 final size:46
Alignment explanation
Indices: 52227180--52227323 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
52227170 CGTATCCATA
* * *
52227180 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
52227229 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
52227273 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
52227319 AGTGA
1 AGTGA
52227324 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 8 0.11
46 33 0.44
47 30 0.40
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:52229428 original size:43 final size:42
Alignment explanation
Indices: 52229354--52229529 Score: 257
Period size: 43 Copynumber: 4.1 Consensus size: 42
52229344 GTTAAATCCC
* *
52229354 GCAGGCTTCGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGC-GGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
52229395 GTAGGCTTAGTGTCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTG-CGGTGATGTGTATTCGGGCCTTCGTGCCTA
52229438 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTG-CGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
52229481 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGC-GGTGATGTGTATTCGGGCCTTCGTGCCTA
52229524 GCAGGC
1 GCAGGC
52229530 ATAATGCCGG
Statistics
Matches: 123, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
41 13 0.11
42 4 0.03
43 106 0.86
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.32
Consensus pattern (42 bp):
GCAGGCTTAGTGCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:52232543 original size:16 final size:16
Alignment explanation
Indices: 52232522--52232555 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
52232512 TAGAATTCTT
52232522 CCTCCATCAACATAAA
1 CCTCCATCAACATAAA
*
52232538 CCTCCATCAATATAAA
1 CCTCCATCAACATAAA
52232554 CC
1 CC
52232556 CATGTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (16 bp):
CCTCCATCAACATAAA
Found at i:52233189 original size:27 final size:27
Alignment explanation
Indices: 52233157--52233326 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
52233147 AGGGCAAAAT
* * * *
52233157 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52233184 GATAATTCTACCCTATAGGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52233211 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52233238 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52233265 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
52233292 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52233319 GGTAATTC
1 GGTAATTC
52233327 CACAACTTAT
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52233323 original size:54 final size:54
Alignment explanation
Indices: 52233157--52233326 Score: 250
Period size: 54 Copynumber: 3.1 Consensus size: 54
52233147 AGGGCAAAAT
* * * *
52233157 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTAATTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* * *
52233211 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
* * *
52233265 GGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
52233319 GGTAATTC
1 GGTAATTC
52233327 CACAACTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTC
Found at i:52241082 original size:30 final size:30
Alignment explanation
Indices: 52241046--52241105 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
52241036 AGTTAGTAGC
52241046 GTAAGATTGGTTTTAATGTCTCGAATTGGT
1 GTAAGATTGGTTTTAATGTCTCGAATTGGT
52241076 GTAAGATTGGTTTTAATGTCTCGAATTGGT
1 GTAAGATTGGTTTTAATGTCTCGAATTGGT
52241106 TAGTAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (30 bp):
GTAAGATTGGTTTTAATGTCTCGAATTGGT
Found at i:52247377 original size:21 final size:20
Alignment explanation
Indices: 52247352--52247394 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
52247342 AAATGTGAAA
*
52247352 TTCATTGAATTGAATATAAAT
1 TTCATTAAATTGAAT-TAAAT
*
52247373 TTCATTAAATTGAGTTAAAT
1 TTCATTAAATTGAATTAAAT
52247393 TT
1 TT
52247395 ACTCGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTCATTAAATTGAATTAAAT
Found at i:52247598 original size:39 final size:39
Alignment explanation
Indices: 52247532--52247612 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
52247522 ATGAAATTGG
*
52247532 TTGAATATTTGATAATGCCCGACAAATGTTAAGTTTCGT
1 TTGAATATTTGATAATACCCGACAAATGTTAAGTTTCGT
* **
52247571 TTGAATATTTGATACTACCCGGTAAATGTTAAGTTTCGT
1 TTGAATATTTGATAATACCCGACAAATGTTAAGTTTCGT
52247610 TTG
1 TTG
52247613 GTCAAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (39 bp):
TTGAATATTTGATAATACCCGACAAATGTTAAGTTTCGT
Found at i:52249541 original size:11 final size:11
Alignment explanation
Indices: 52249525--52249553 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
52249515 ACAGAAAAGA
52249525 TGTGTCAAATT
1 TGTGTCAAATT
52249536 TGTGTCAAATT
1 TGTGTCAAATT
52249547 TGTGTCA
1 TGTGTCA
52249554 CTCCATCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (11 bp):
TGTGTCAAATT
Found at i:52249636 original size:10 final size:10
Alignment explanation
Indices: 52249613--52249657 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
52249603 ATTCTAAAAT
52249613 ATAAATACAA-
1 ATAAATA-AAG
52249623 ATAAATAAAG
1 ATAAATAAAG
*
52249633 ATAACTAAAG
1 ATAAATAAAG
*
52249643 ATAAATGAAG
1 ATAAATAAAG
52249653 ATAAA
1 ATAAA
52249658 AGCTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:52251313 original size:25 final size:23
Alignment explanation
Indices: 52251251--52251313 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
52251241 ACATGCAAGA
* *
52251251 AAATAAAGAAAATAGAAAATATT
1 AAATAAAAAAAATAAAAAATATT
*
52251274 AATATAAATATAAATAAAAAATATAT
1 AA-ATAAA-AAAAATAAAAAATAT-T
52251300 AAATAAAACAAAAT
1 AAATAAAA-AAAAT
52251314 CAGGTTGCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 2 0.06
24 6 0.19
25 21 0.66
26 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (23 bp):
AAATAAAAAAAATAAAAAATATT
Found at i:52252733 original size:33 final size:32
Alignment explanation
Indices: 52252695--52252772 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
52252685 TTGTTTCGTA
* * *
52252695 TTGGAAATCAAAAGTTTGTC-ATAGTATTTGTTG
1 TTGGAAATCAAAA-TTTGCCGATA-TATCTGCTG
*
52252728 TTGGAAATCAACAATTTGCCGTTATATCTGCTG
1 TTGGAAATCAA-AATTTGCCGATATATCTGCTG
52252761 TTGGAAATCAAA
1 TTGGAAATCAAA
52252773 CACATTAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 1 0.03
33 34 0.87
34 4 0.10
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TTGGAAATCAAAATTTGCCGATATATCTGCTG
Found at i:52256690 original size:30 final size:30
Alignment explanation
Indices: 52256654--52256716 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
52256644 AGTTAAAGAA
52256654 TGGCATTTTGGTACCAAATGGTTTGTGTTT
1 TGGCATTTTGGTACCAAATGGTTTGTGTTT
52256684 TGGCATTTTGGTACCAAATGGTTTGTGTTT
1 TGGCATTTTGGTACCAAATGGTTTGTGTTT
52256714 TGG
1 TGG
52256717 TAAGTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.46
Consensus pattern (30 bp):
TGGCATTTTGGTACCAAATGGTTTGTGTTT
Found at i:52270234 original size:16 final size:16
Alignment explanation
Indices: 52270213--52270271 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
52270203 GTAGATCGGC
* *
52270213 AAAAGCCGAATTGCCG
1 AAAAGCCGAAATGCCA
*
52270229 AAAAGCTGAAATGCCA
1 AAAAGCCGAAATGCCA
* *
52270245 AAAAGTCGAAATACCA
1 AAAAGCCGAAATGCCA
*
52270261 AAAAGCTGAAA
1 AAAAGCCGAAA
52270272 GTTTGACTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:52270566 original size:28 final size:28
Alignment explanation
Indices: 52270484--52270573 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
52270474 TGAGCATGAC
* *
52270484 TATAAATGTAAATTGAGCCT-GATGGGCCA
1 TATAAATGT-GATTGGGCCTAG-TGGGCCA
*
52270513 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTG-ATTGGGCCTAGTGGGCCA
52270542 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
52270570 TATA
1 TATA
52270574 CGGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:52272651 original size:16 final size:16
Alignment explanation
Indices: 52272630--52272688 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
52272620 GTAGATCGAC
52272630 AAAAGCCGAAATACCA
1 AAAAGCCGAAATACCA
* *
52272646 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATACCA
* *
52272662 GAAAGCCAAAATACCA
1 AAAAGCCGAAATACCA
*
52272678 AAAAGTCGAAA
1 AAAAGCCGAAA
52272689 GTTTGATTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.54, C:0.22, G:0.17, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCA
Found at i:52272943 original size:29 final size:28
Alignment explanation
Indices: 52272901--52272990 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 28
52272891 TGAGCATGAC
52272901 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGAATTGGGCCT-ATGGGCCA
52272930 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCT-ATGGGCCA
*
52272959 TAAAAATGTG-ATTGGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTA-TGGGCCA
52272987 TATA
1 TATA
52272991 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 1 0.02
28 19 0.33
29 37 0.65
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (28 bp):
TATAAATGTGAATTGGGCCTATGGGCCA
Found at i:52276806 original size:19 final size:19
Alignment explanation
Indices: 52276770--52276808 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52276760 TTTTCATCAT
* *
52276770 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
52276789 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
52276808 A
1 A
52276809 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:52277311 original size:55 final size:56
Alignment explanation
Indices: 52277246--52277350 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
52277236 AGCATGGCTG
* * *
52277246 CCAGATACAGA-AAATGTGACAGAGTCGCCAGATACAGATATTTTGTGGCAATGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAATGCCA
* * *
52277302 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
52277351 TAACCACCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 21 0.50
56 21 0.50
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAATGCCA
Found at i:52277328 original size:27 final size:27
Alignment explanation
Indices: 52277273--52277350 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
52277263 GACAGAGTCG
*
52277273 CCAGATACAGATATTTTGTGGCAATGCCA
1 CCAGA-ACAGATA-TTTGTGGCAAGGCCA
* *
52277302 CCAGAACAGATATATGTGGCAGGGCCA
1 CCAGAACAGATATTTGTGGCAAGGCCA
52277329 CCAGAACAGATAATTTGTGGCA
1 CCAGAACAGAT-ATTTGTGGCA
52277351 TAACCACCAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.52
28 16 0.36
29 5 0.11
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAAGGCCA
Found at i:52277357 original size:28 final size:27
Alignment explanation
Indices: 52277273--52277360 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
52277263 GACAGAGTCG
*
52277273 CCAGATACAGATATTTTGTGGCAATGCCA
1 CCAGA-ACAGATAATTTGTGGCAA-GCCA
* *
52277302 CCAGAACAGAT-ATATGTGGCAGGGCCA
1 CCAGAACAGATAATTTGTGGCA-AGCCA
*
52277329 CCAGAACAGATAATTTGTGGCATAACCA
1 CCAGAACAGATAATTTGTGGCA-AGCCA
52277357 CCAG
1 CCAG
52277361 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATAATTTGTGGCAAGCCA
Found at i:52277513 original size:28 final size:28
Alignment explanation
Indices: 52277466--52277530 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
52277456 AAATTAACCC
*
52277466 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
52277494 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
52277522 TAGGGGTAT
1 TAGGGGTAT
52277531 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:52286437 original size:18 final size:18
Alignment explanation
Indices: 52286402--52286451 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
52286392 TTTAAAACTT
*
52286402 AAATTTTGA-AAACGTAA
1 AAATTTGGAGAAACGTAA
*
52286419 AAATTTGGAGAAACTTAA
1 AAATTTGGAGAAACGTAA
*
52286437 AAATTTGGTGAAACG
1 AAATTTGGAGAAACG
52286452 AGTTTTGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (18 bp):
AAATTTGGAGAAACGTAA
Found at i:52286689 original size:23 final size:24
Alignment explanation
Indices: 52286654--52286717 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
52286644 ATTCATGCGT
*
52286654 CAGAGAAT-CTTACTGTTCT-TGC
1 CAGAGAATATTTACTGTTCTATGC
*
52286676 CAGGGAATATTTACTGTT-TATGC
1 CAGAGAATATTTACTGTTCTATGC
*
52286699 CAGAGAATATTTTCTGTTC
1 CAGAGAATATTTACTGTTC
52286718 ACTCGTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.23
23 27 0.77
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
CAGAGAATATTTACTGTTCTATGC
Found at i:52294476 original size:23 final size:23
Alignment explanation
Indices: 52294390--52294507 Score: 87
Period size: 23 Copynumber: 5.0 Consensus size: 23
52294380 GGAATTACCA
*
52294390 CAGCTTGTATGAGCTTACCGATGTTT
1 CAGCTCGTATGAGCTTA-C--TGTTT
* * * *
52294416 TAGCTCCTAAGAGCTTACTATTTT
1 CAGCTCGTATGAGCTTACT-GTTT
* *
52294440 TAGCTCAT-TGGAGCTTACTGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
52294463 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTCGTATGAGCTTACTGTTT
*
52294486 CAGCTC-AATGGAGCTTACTGTT
1 CAGCTCGTAT-GAGCTTACTGTT
52294508 CATCTGCTCA
Statistics
Matches: 75, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
22 2 0.03
23 39 0.52
24 20 0.27
25 1 0.01
26 13 0.17
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:52294477 original size:47 final size:46
Alignment explanation
Indices: 52294411--52294507 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
52294401 AGCTTACCGA
* * * *
52294411 TGTTTTAGCTCCTAAGAGCTTACTATTTTTAGCTCATTGGAGCTTAC
1 TGTTTCAGCTCCTAAGAGCTTAC-AGTTTCAGCTCAATGGAGCTTAC
* * *
52294458 TGTTTCAGCTCGTATGAGCTTACCGTTTCAGCTCAATGGAGCTTAC
1 TGTTTCAGCTCCTAAGAGCTTACAGTTTCAGCTCAATGGAGCTTAC
52294504 TGTT
1 TGTT
52294508 CATCTGCTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 23 0.53
47 20 0.47
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (46 bp):
TGTTTCAGCTCCTAAGAGCTTACAGTTTCAGCTCAATGGAGCTTAC
Found at i:52299397 original size:44 final size:44
Alignment explanation
Indices: 52299334--52299420 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
52299324 AGACGAGATT
*
52299334 GTGATCGACCCCCAGTGAGTGCACGAGTCACTTCGGTCGCCAGC
1 GTGATCGACCCCCAGTGAGTACACGAGTCACTTCGGTCGCCAGC
*
52299378 GTGATCGACCCCCTGTGAGTACACGAGTCACTTCGGTCGCCAG
1 GTGATCGACCCCCAGTGAGTACACGAGTCACTTCGGTCGCCAG
52299421 TCTTGGAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.18, C:0.33, G:0.29, T:0.20
Consensus pattern (44 bp):
GTGATCGACCCCCAGTGAGTACACGAGTCACTTCGGTCGCCAGC
Found at i:52309960 original size:40 final size:40
Alignment explanation
Indices: 52309578--52309959 Score: 701
Period size: 40 Copynumber: 9.6 Consensus size: 40
52309568 GGATGATAAT
52309578 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
52309618 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
52309658 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
52309698 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
52309738 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
52309778 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
52309818 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
52309858 CGGCCTAAGTCCCGAAGACATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
52309898 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
52309938 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
52309960 GAGTAAGTAG
Statistics
Matches: 330, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 330 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:52317921 original size:40 final size:40
Alignment explanation
Indices: 52317865--52318121 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
52317855 CGGATGATAA
* * *
52317865 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
52317905 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52317945 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52317985 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52318025 CCGGGCTAAGTCCCGAAAGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52318065 CCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
52318104 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52318122 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 164 0.85
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52318164 original size:53 final size:53
Alignment explanation
Indices: 52318099--52318203 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
52318089 AGCAAGTAGC
*
52318099 TATATCCGGTTAAATCCCGAAGGTACTTGGCTTGGGAATGAGCGACCTTGCTA
1 TATATCCGGTTAAATCCCGAAGGTACTTGCCTTGGGAATGAGCGACCTTGCTA
52318152 TATATCCGGTTAAATCCCGAAGGTACTTGCCTTGGGAATGAGCGACCTTGCT
1 TATATCCGGTTAAATCCCGAAGGTACTTGCCTTGGGAATGAGCGACCTTGCT
52318204 GTAATAGTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (53 bp):
TATATCCGGTTAAATCCCGAAGGTACTTGCCTTGGGAATGAGCGACCTTGCTA
Found at i:52320863 original size:50 final size:52
Alignment explanation
Indices: 52320800--52320905 Score: 144
Period size: 53 Copynumber: 2.1 Consensus size: 52
52320790 CAAAATGTCT
* *
52320800 GAAGATCCAGGAGTGCTATCCT-AT-ATTTTAATCACATAAAAATCTGTAGG
1 GAAGACCCAGGAGTGCTATCCTCATCATTTTAATCACATAAAAATCTGCAGG
* * *
52320850 GAAGACCCAGGAGTGTTATCCTCCTCCATTTTTATCACATAAAAATCTGCAGG
1 GAAGACCCAGGAGTGCTATCCTCAT-CATTTTAATCACATAAAAATCTGCAGG
52320903 GAA
1 GAA
52320906 AATAATCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 20 0.42
51 1 0.02
53 27 0.56
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (52 bp):
GAAGACCCAGGAGTGCTATCCTCATCATTTTAATCACATAAAAATCTGCAGG
Found at i:52342292 original size:51 final size:51
Alignment explanation
Indices: 52342231--52342334 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
52342221 ATACTCCTCA
52342231 TTCCTACTGTGAATCTCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACC
1 TTCCTACTGTGAATCTCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACC
*
52342282 TTCCTGCTGTGAATCTCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACC
1 TTCCTACTGTGAATCTCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACC
52342333 TT
1 TT
52342335 AAAAGTGCCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (51 bp):
TTCCTACTGTGAATCTCATCAAAATAAGGTTTTAGGCGGGTATTGTTTACC
Found at i:52345553 original size:69 final size:70
Alignment explanation
Indices: 52345421--52345553 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
52345411 TAGTTTATTA
* * * *
52345421 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
52345486 CTTAG
66 CTTAG
52345491 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
52345554 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:52346510 original size:73 final size:73
Alignment explanation
Indices: 52346391--52346535 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
52346381 TGCCAAATGT
*
52346391 GATTGTTAAGTGAATAATATTAGTTAAGTACTTAAGCAAATCTATTGTTTTACTTAAGCTTAAGT
1 GATTGTTAAGTGAATAATATTAGTTAAGTACTTAAGCAAATCTATTGTTTTACTTAAGCTTAAGA
52346456 GCAAAGAA
66 GCAAAGAA
52346464 GATTGTTAAGTGAATAATATTAGTTAAGTACTTAAGCAAATCTATTGTTTTACTTAAGCTTAAGA
1 GATTGTTAAGTGAATAATATTAGTTAAGTACTTAAGCAAATCTATTGTTTTACTTAAGCTTAAGA
52346529 GCAAAGA
66 GCAAAGA
52346536 GGATCAAAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.37
Consensus pattern (73 bp):
GATTGTTAAGTGAATAATATTAGTTAAGTACTTAAGCAAATCTATTGTTTTACTTAAGCTTAAGA
GCAAAGAA
Found at i:52346955 original size:47 final size:47
Alignment explanation
Indices: 52346886--52346978 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
52346876 TATAAAAGAG
52346886 ACCGTGTAAGAAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTT
1 ACCGTGTAAGAAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTT
*
52346933 ACCGTGTAAGGAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGT
1 ACCGTGTAAGAAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGT
52346979 GTGAGACAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (47 bp):
ACCGTGTAAGAAAAGAAATTTCCTATAAAGAGATATTTAAAGTTGTT
Found at i:52347557 original size:46 final size:46
Alignment explanation
Indices: 52347452--52348416 Score: 1777
Period size: 46 Copynumber: 20.8 Consensus size: 46
52347442 ACAAGATAAA
* *
52347452 GATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--ATATGTATGG
52347500 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347546 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347592 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347638 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347684 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347730 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347776 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347822 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347868 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347914 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52347960 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348006 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348052 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348098 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348144 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348190 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
52348236 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
* *
52348282 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----ATATGTATGG
* *
52348332 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--ATATGTATGG
* * *
52348380 GATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
52348417 AGTATGTAGG
Statistics
Matches: 904, Mismatches: 9, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
46 782 0.87
48 79 0.09
50 43 0.05
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.32
Consensus pattern (46 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGATATGTATGG
Found at i:52348648 original size:74 final size:74
Alignment explanation
Indices: 52348559--52348710 Score: 250
Period size: 74 Copynumber: 2.1 Consensus size: 74
52348549 ACATGAAACT
* *
52348559 TGGAAATATATTCCGGGTGAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCTGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGAT
*
52348624 GACTACGTG
66 AACTACGTG
* *
52348633 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGAT
*
52348698 AACTTCGTG
66 AACTACGTG
52348707 TGGA
1 TGGA
52348711 GATTTCATCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (74 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCAGGTAAGACCCGAT
AACTACGTG
Found at i:52348715 original size:37 final size:37
Alignment explanation
Indices: 52348570--52348714 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
52348560 GGAAATATAT
*
52348570 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
52348607 TCCAGGTAAGACCTGATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
*
52348644 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52348681 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52348715 TCATCTGAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.02
37 91 0.95
38 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52349876 original size:40 final size:40
Alignment explanation
Indices: 52349830--52350428 Score: 921
Period size: 40 Copynumber: 15.0 Consensus size: 40
52349820 GAATACACAT
* *
52349830 CACCAGCATGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
52349870 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** *
52349910 CACCAGGTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52349950 CACCAGCACGAATGCTCTTTGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52349990 CACCAGCACGAATGCTCTTCGGGACTTATCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
52350030 CACTAGCACGAATGCTCTTCGAGACTTAGCCAGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
52350070 CACCAGCTCAAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52350110 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52350150 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
52350190 CACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52350230 CACCAGCACGAATGCTCTTCGGGACTTATCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
52350270 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
52350310 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
52350350 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
52350390 CACCAGCACGAATGCTCTTCGGGTCTTA-CCCGGAATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG-ATATA
52350429 TTTCCAAGTT
Statistics
Matches: 517, Mismatches: 41, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
39 5 0.01
40 512 0.99
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:52350622 original size:48 final size:48
Alignment explanation
Indices: 52350569--52350904 Score: 564
Period size: 48 Copynumber: 7.0 Consensus size: 48
52350559 CCCACACTCC
* * * *
52350569 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
* * * *
52350617 TACATATTTCACACTACCCTTTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTC--A
*
52350667 TATATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
52350715 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
52350763 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
52350811 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
*
52350859 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCT
52350905 TTATCTTGTG
Statistics
Matches: 276, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
48 233 0.84
50 43 0.16
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCCCATATACATATCTCA
Found at i:52368334 original size:47 final size:47
Alignment explanation
Indices: 52368265--52368358 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
52368255 ACCTATCGAA
52368265 CAGTAGTATAGATTTAGCAAGACCAGATTATCAAACCCAAAGGAACC
1 CAGTAGTATAGATTTAGCAAGACCAGATTATCAAACCCAAAGGAACC
* * *
52368312 CAGTAGTATAGCTTTAGCAAGACCGGATTATCGAACCCAAAGGAACC
1 CAGTAGTATAGATTTAGCAAGACCAGATTATCAAACCCAAAGGAACC
52368359 AAAAGTACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (47 bp):
CAGTAGTATAGATTTAGCAAGACCAGATTATCAAACCCAAAGGAACC
Found at i:52382429 original size:19 final size:19
Alignment explanation
Indices: 52382405--52382445 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
52382395 TTCGAGGAAG
52382405 GTTTGAATAAGGAAATTAA
1 GTTTGAATAAGGAAATTAA
52382424 GTTTGAATAAGGAAATTAA
1 GTTTGAATAAGGAAATTAA
52382443 GTT
1 GTT
52382446 GTTGATTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (19 bp):
GTTTGAATAAGGAAATTAA
Found at i:52390590 original size:27 final size:27
Alignment explanation
Indices: 52390560--52390614 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
52390550 AACCTTAAAA
52390560 ATAAAAAAAAACGCGCTAAACTAGCAT
1 ATAAAAAAAAACGCGCTAAACTAGCAT
* * * *
52390587 ATAAAGAGAAATGTGCTAAACTAGCAT
1 ATAAAAAAAAACGCGCTAAACTAGCAT
52390614 A
1 A
52390615 CTATTCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.18
Consensus pattern (27 bp):
ATAAAAAAAAACGCGCTAAACTAGCAT
Found at i:52392675 original size:30 final size:30
Alignment explanation
Indices: 52392641--52392806 Score: 92
Period size: 29 Copynumber: 5.2 Consensus size: 30
52392631 GACCTGAATG
52392641 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * *
52392671 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTGTTA-CT-AT----TT-A-CTGCATGC
52392706 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * *
52392736 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTGTTA-CT-AT----TT-A-CTGCATGC
52392771 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
52392801 CATGTT
1 CATGTT
52392807 ATTATTATCT
Statistics
Matches: 102, Mismatches: 12, Indels: 44
0.65 0.08 0.28
Matches are distributed among these distances:
28 10 0.10
29 20 0.20
30 20 0.20
31 4 0.04
34 4 0.04
35 14 0.14
36 20 0.20
37 10 0.10
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.42
Consensus pattern (30 bp):
CATGTTTGACTGTTACTATTTACTGCATGC
Found at i:52392728 original size:65 final size:65
Alignment explanation
Indices: 52392624--52392819 Score: 392
Period size: 65 Copynumber: 3.0 Consensus size: 65
52392614 CCCCTAGGCT
52392624 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
52392689 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
52392754 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
52392819 T
1 T
52392820 GCATGGGACT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 131 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:52395809 original size:19 final size:21
Alignment explanation
Indices: 52395773--52395811 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
52395763 TTCTATTTTA
*
52395773 AATTATTTTATTATATTTATG
1 AATTATTTTAATATATTTATG
52395794 AATT-TTTTAATA-ATTTAT
1 AATTATTTTAATATATTTAT
52395812 TTGATCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTATTTTAATATATTTATG
Found at i:52397100 original size:27 final size:29
Alignment explanation
Indices: 52397070--52397123 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
52397060 AGTAATTTAG
52397070 AATG-TATTT-TAAAT-TTTAAGTATATAT
1 AATGTTATTTATAAATATTTAA-TATATAT
*
52397097 AATGTTCTTTATAAATATTTAATATAT
1 AATGTTATTTATAAATATTTAATATAT
52397124 TTGTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 4 0.17
28 4 0.17
29 10 0.43
30 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (29 bp):
AATGTTATTTATAAATATTTAATATATAT
Found at i:52398711 original size:54 final size:55
Alignment explanation
Indices: 52398561--52398711 Score: 151
Period size: 55 Copynumber: 2.8 Consensus size: 55
52398551 TATCCTTGCC
* * * * * * * *
52398561 TTACCATTGCCATGCCTTGGCATGGTTTTACATGGGATCTTTGCTTTATCATAGT
1 TTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAAAACT
* * * * * * *
52398616 TTATCAATACCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACT
1 TTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAAAACT
*
52398671 TT-CCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
52398712 AAACCCTAAT
Statistics
Matches: 74, Mismatches: 22, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
54 32 0.43
55 42 0.57
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (55 bp):
TTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAAAACT
Found at i:52399541 original size:57 final size:57
Alignment explanation
Indices: 52399453--52399566 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
52399443 AGAATCACTT
*
52399453 ACTATGAAGCTTGGAAGCTTGGCAAAACCCTAGCTATGAAGAACCCTTGAAATTTCG
1 ACTATGAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACCCTTGAAATTTCG
*
52399510 ACTATGAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACCCTTGAGATTTCG
1 ACTATGAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACCCTTGAAATTTCG
52399567 GCCTAATGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (57 bp):
ACTATGAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACCCTTGAAATTTCG
Found at i:52415516 original size:15 final size:15
Alignment explanation
Indices: 52415482--52415515 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52415472 AAATTTTAAG
52415482 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
52415497 AAAAATGGATATT-T
1 AAAAATGAATATTGT
52415511 AAAAA
1 AAAAA
52415516 AATTCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:52415661 original size:13 final size:13
Alignment explanation
Indices: 52415645--52415687 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
52415635 TTTCTTTAAA
52415645 ATTTTCATTTTAT
1 ATTTTCATTTTAT
* * *
52415658 ATTTTTATTTAAA
1 ATTTTCATTTTAT
52415671 ATTTTCATTTTAT
1 ATTTTCATTTTAT
52415684 ATTT
1 ATTT
52415688 AACTTTACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTCATTTTAT
Found at i:52415668 original size:26 final size:26
Alignment explanation
Indices: 52415631--52415687 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
52415621 TGGGACGTTC
*
52415631 TATTTTTCTTTAAAATTTTCATTTTA
1 TATTTTTATTTAAAATTTTCATTTTA
52415657 TATTTTTATTTAAAATTTTCATTTTA
1 TATTTTTATTTAAAATTTTCATTTTA
52415683 TATTT
1 TATTT
52415688 AACTTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTTTTATTTAAAATTTTCATTTTA
Found at i:52415694 original size:26 final size:27
Alignment explanation
Indices: 52415638--52415694 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
52415628 TTCTATTTTT
*
52415638 CTTTAAAATTTTCATTTTATATTTTTA
1 CTTTAAAATTTTCATTTTATATTTTAA
52415665 -TTTAAAATTTTCATTTTATA-TTTAA
1 CTTTAAAATTTTCATTTTATATTTTAA
52415690 CTTTA
1 CTTTA
52415695 CTTTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (27 bp):
CTTTAAAATTTTCATTTTATATTTTAA
Found at i:52418105 original size:40 final size:40
Alignment explanation
Indices: 52417711--52418093 Score: 532
Period size: 40 Copynumber: 9.6 Consensus size: 40
52417701 GAGTGAAATG
* *
52417711 TCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* **
52417751 TCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
52417791 TCCGGACTAAGTTCTGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
52417831 TCCGGGCTAAGTTCCGAAGAGCATCCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52417871 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52417911 TCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52417951 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
52417991 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
52418031 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
52418071 TCCGAGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
52418094 ATCATGCTGG
Statistics
Matches: 312, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 312 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:52418742 original size:10 final size:10
Alignment explanation
Indices: 52418727--52418751 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52418717 AATGCTTGGT
52418727 ATATGAAGTC
1 ATATGAAGTC
52418737 ATATGAAGTC
1 ATATGAAGTC
52418747 ATATG
1 ATATG
52418752 CTTGGCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (10 bp):
ATATGAAGTC
Found at i:52420861 original size:47 final size:47
Alignment explanation
Indices: 52420802--52421129 Score: 548
Period size: 47 Copynumber: 6.9 Consensus size: 47
52420792 TAGTATGGCG
52420802 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52420849 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52420896 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
52420943 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
52420992 TAATAGCCGATGTGCTGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
52421039 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
52421086 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52421130 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 220 0.83
49 45 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:52421058 original size:143 final size:143
Alignment explanation
Indices: 52420802--52421129 Score: 547
Period size: 143 Copynumber: 2.3 Consensus size: 143
52420792 TAGTATGGCG
*
52420802 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
52420865 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
52420930 ATGTGATAAGGCC
131 ATGTGACAAGGCC
*
52420943 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
52421008 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
52421073 ATGTGACAGGGCC
131 ATGTGACAAGGCC
* * * * *
52421086 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
52421130 TCCCGAAGGG
Statistics
Matches: 176, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
141 39 0.22
142 1 0.01
143 136 0.77
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCC
Found at i:52427473 original size:43 final size:42
Alignment explanation
Indices: 52427377--52427474 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
52427367 AACTTATGAT
*
52427377 TTACATGTAAGACCATGTCTGGGATGTTAGCATCGTATTTGA
1 TTACATGTAAGACCATATCTGGGATGTTAGCATCGTATTTGA
*** * *
52427419 TTTTGTGTAAGACCCTATCTGGGATAG-TGGCATCGATATTTGA
1 TTACATGTAAGACCATATCTGGGAT-GTTAGCATCG-TATTTGA
52427462 TTACATGTAAGAC
1 TTACATGTAAGAC
52427475 AACGTCTGGG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGATGTTAGCATCGTATTTGA
Found at i:52427483 original size:43 final size:41
Alignment explanation
Indices: 52427377--52427494 Score: 103
Period size: 43 Copynumber: 2.8 Consensus size: 41
52427367 AACTTATGAT
*
52427377 TTACATGTAAGACCATGTCTGGGATGTTAGCATCGTATTTGA
1 TTACATGTAAGA-CACGTCTGGGATGTTAGCATCGTATTTGA
*** * * *
52427419 TTTTGTGTAAGACCCTATCTGGGATAG-TGGCATCGATATTTGA
1 TTACATGTAAGACAC-GTCTGGGAT-GTTAGCATCG-TATTTGA
* *
52427462 TTACATGTAAGACAACGTCTGGGACGTTGGCAT
1 TTACATGTAAGAC-ACGTCTGGGATGTTAGCAT
52427495 TGTACGAGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.02
42 25 0.43
43 31 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (41 bp):
TTACATGTAAGACACGTCTGGGATGTTAGCATCGTATTTGA
Found at i:52428126 original size:25 final size:25
Alignment explanation
Indices: 52428066--52428119 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
52428056 ATTTTCGGTA
52428066 TATGATATGTGATGCAAATTATGCT
1 TATGATATGTGATGCAAATTATGCT
52428091 TATGATATGTGATGCAAATTATGCT
1 TATGATATGTGATGCAAATTATGCT
52428116 TATG
1 TATG
52428120 TGATGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (25 bp):
TATGATATGTGATGCAAATTATGCT
Done.