Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 98 of 425
Found at i:28401975 original size:2 final size:2
Alignment explanation
Indices: 28401958--28401999 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
28401948 TGCAACAATC
* *
28401958 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28402000 TGAACTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:28402681 original size:2 final size:2
Alignment explanation
Indices: 28402674--28402709 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
28402664 ATTGAACTTA
28402674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28402710 CTTAATTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28403218 original size:3 final size:3
Alignment explanation
Indices: 28403210--28403261 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
28403200 TTGCAATGCT
28403210 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28403258 TTA T
1 TTA T
28403262 ATGGCTACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:28403382 original size:29 final size:28
Alignment explanation
Indices: 28403349--28403446 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 28
28403339 CAATTGAATT
28403349 TAAATTTTAAAATTCGAAAACATAGAGAC
1 TAAA-TTTAAAATTCGAAAACATAGAGAC
* *
28403378 TAAATTCTTTAAAA-T-AAAAAGATAGAGAC
1 TAAA---TTTAAAATTCGAAAACATAGAGAC
28403407 TAAATTTAAAATCTACG--AACATAGAGAC
1 TAAATTTAAAAT-T-CGAAAACATAGAGAC
28403435 TAAATTTAAAAT
1 TAAATTTAAAAT
28403447 CTACGAACAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
26 7 0.12
28 23 0.40
29 20 0.34
30 1 0.02
31 7 0.12
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (28 bp):
TAAATTTAAAATTCGAAAACATAGAGAC
Found at i:28403439 original size:28 final size:28
Alignment explanation
Indices: 28403399--28403455 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
28403389 AAATAAAAAG
28403399 ATAGAGACTAAATTTAAAATCTACGAAC
1 ATAGAGACTAAATTTAAAATCTACGAAC
28403427 ATAGAGACTAAATTTAAAATCTACGAAC
1 ATAGAGACTAAATTTAAAATCTACGAAC
28403455 A
1 A
28403456 GCACTAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (28 bp):
ATAGAGACTAAATTTAAAATCTACGAAC
Found at i:28403930 original size:30 final size:29
Alignment explanation
Indices: 28403877--28403934 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
28403867 CTAACAATTA
*
28403877 AATCTAAATCTTAAAATTCAAAAGGTAGAG
1 AATCTAAATCTTAAAAATCAAAA-GTAGAG
*
28403907 AATCTAAACTTTTAAAAAT-AAAAGTAGA
1 AATCTAAA-TCTTAAAAATCAAAAGTAGA
28403935 ATTAGAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 12 0.48
31 8 0.32
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (29 bp):
AATCTAAATCTTAAAAATCAAAAGTAGAG
Found at i:28408302 original size:40 final size:40
Alignment explanation
Indices: 28408208--28408431 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
28408198 TATTCGAATG
*
28408208 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
28408249 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
28408289 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
28408329 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
28408368 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
28408408 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
28408432 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 39 0.25
40 89 0.56
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:28408387 original size:79 final size:80
Alignment explanation
Indices: 28408208--28408467 Score: 312
Period size: 79 Copynumber: 3.3 Consensus size: 80
28408198 TATTCGAATG
* * * *
28408208 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
28408273 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
28408289 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAA-ACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
28408353 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
28408368 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
28408433 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
28408447 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
28408468 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.10
79 80 0.52
80 28 0.18
81 32 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:28408421 original size:119 final size:119
Alignment explanation
Indices: 28408208--28408467 Score: 314
Period size: 119 Copynumber: 2.2 Consensus size: 119
28408198 TATTCGAATG
* * *
28408208 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
28408273 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* *
28408329 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGC
* * *
28408392 ATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 ATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
28408447 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAA-CCCGAAG
28408468 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
117 8 0.07
118 26 0.21
119 57 0.47
120 18 0.15
121 13 0.11
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:28416403 original size:40 final size:40
Alignment explanation
Indices: 28416309--28416533 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
28416299 TATTCGAATG
* * *
28416309 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
28416350 ATAACCGGACTAAGATCCGAAGGCATTCGTGCTAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
28416390 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
28416430 ATATCTGGGCTAAAACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
28416470 ATATCCGTGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
28416510 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
28416534 CTTGTGCAAG
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.81
41 29 0.19
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:28416489 original size:80 final size:80
Alignment explanation
Indices: 28416309--28416569 Score: 231
Period size: 80 Copynumber: 3.3 Consensus size: 80
28416299 TATTCGAATG
* * * * * *
28416309 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GCGACTATAACCGGACTAAAACCCAAAGGC
*
28416374 ATTCGTGCTAGTTGCT
65 ATTCGTGCTAGTCGCT
* * * * * *
28416390 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCTGGGCTAAAACCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACCGGACTAAAACCCAAAGGCA
*
28416455 TTTGTGCTAG-CGACT
66 TTCGTGCTAGTCG-CT
* * * * * * * * * *
28416470 ATATCCGTGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACCGGACTAAAACCCAAAGGCA
* * *
28416535 TT-GTGCAAGTAGTT
66 TTCGTGCTAGTCGCT
*
28416549 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
28416570 ATTACTTGAG
Statistics
Matches: 149, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
78 13 0.09
79 14 0.09
80 90 0.60
81 32 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATAACCGGACTAAAACCCAAAGGCA
TTCGTGCTAGTCGCT
Found at i:28416523 original size:120 final size:121
Alignment explanation
Indices: 28416309--28416533 Score: 296
Period size: 120 Copynumber: 1.9 Consensus size: 121
28416299 TATTCGAATG
** * * *
28416309 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCTGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
28416374 ATTCGTGCTAGTTGCTATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCTAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
*
28416430 ATATCTGGGCTAAAACCCAAAGGCATTTGTGCTA-GCGACTATATCCGTG-CTAAG-TCCCGAAG
1 ATATCTGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCG-GACTAAGAT-CCGAAG
*
28416492 GCATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
64 GCATTCATGCTAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
28416534 CTTGTGCAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
119 3 0.03
120 56 0.62
121 31 0.34
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (121 bp):
ATATCTGGGCTAAAACCCAAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCTAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:28418604 original size:60 final size:62
Alignment explanation
Indices: 28418479--28418621 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 62
28418469 TCAAGCTTTA
* *
28418479 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAG-CATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * *
28418541 CTGGGCCATAGCCCT-TTACAGCATCAGAG-TATACTGGGCC-TAGCCCATATTAGTGTCAAT
1 CTGGGCCATAGCCCTATTACAGCATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
*
28418601 CTGGGCCGTAGCCCTATTACA
1 CTGGGCCATAGCCCTATTACA
28418622 AGTCGAGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
60 32 0.45
61 22 0.31
62 16 0.23
63 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (62 bp):
CTGGGCCATAGCCCTATTACAGCATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:28418639 original size:60 final size:59
Alignment explanation
Indices: 28418502--28418653 Score: 157
Period size: 60 Copynumber: 2.5 Consensus size: 59
28418492 CTATTCAGAA
* *
28418502 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCTTTACAG
1 ATCAGAGTAT-ACTGGGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCTTTACAG
* * *
28418562 CATCAGAGTATACTGGGCCTAGCCCATATTAGTGTCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATACTGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCT-TTACAG
** *
28418622 AGTC-GAGATATGTTGGGCGTAGCCCATATTAA
1 A-TCAGAG-TATACTGGGCCTAGCCCATATTAA
28418654 CACAGTTGGG
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
59 4 0.05
60 52 0.67
61 21 0.27
62 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCTTTACAG
Found at i:28418668 original size:20 final size:19
Alignment explanation
Indices: 28418643--28418686 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
28418633 GTTGGGCGTA
28418643 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
28418663 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
28418682 GCCCA
1 GCCCA
28418687 GAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:28419344 original size:16 final size:16
Alignment explanation
Indices: 28419323--28419354 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28419313 CTCGAAAAGC
*
28419323 TGGCTTTTCGGCTTTT
1 TGGCTTTTCAGCTTTT
28419339 TGGCTTTTCAGCTTTT
1 TGGCTTTTCAGCTTTT
28419355 GCCGATCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.19, G:0.22, T:0.56
Consensus pattern (16 bp):
TGGCTTTTCAGCTTTT
Found at i:28422714 original size:20 final size:20
Alignment explanation
Indices: 28422689--28422734 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
28422679 GTTGGGCGTT
28422689 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
28422709 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
28422728 GCCCATA
1 GCCCATA
28422735 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:28423243 original size:19 final size:19
Alignment explanation
Indices: 28423219--28423263 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
28423209 ATTGGGCTCG
28423219 TTGGCCCATTAAC-CTGATT
1 TTGGCCCATTAACTC-GATT
28423238 TTGGCCCATTAACTCGATT
1 TTGGCCCATTAACTCGATT
*
28423257 TCGGCCC
1 TTGGCCC
28423264 GTTGGCCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (19 bp):
TTGGCCCATTAACTCGATT
Found at i:28427547 original size:29 final size:28
Alignment explanation
Indices: 28427514--28427577 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 28
28427504 ATAGTGGATC
*
28427514 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
28427543 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
28427571 CGCACAC
1 CGCACAC
28427578 ACTTGTGTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 4 0.12
28 11 0.33
29 18 0.55
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28436695 original size:40 final size:40
Alignment explanation
Indices: 28436640--28436820 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
28436630 CATTTGAATG
28436640 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
28436680 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
28436720 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
28436760 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
28436800 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
28436821 AAACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 117 0.90
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:28444875 original size:13 final size:12
Alignment explanation
Indices: 28444851--28444892 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
28444841 TTGCAATTCA
28444851 ATTTTAATTTATT
1 ATTTT-ATTTATT
28444864 ATTATTATTTATT
1 ATT-TTATTTATT
*
28444877 ATTTTACTTATT
1 ATTTTATTTATT
28444889 -TTTT
1 ATTTT
28444893 CTCTTGGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 8 0.30
13 13 0.48
14 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTATTTATT
Found at i:28452391 original size:14 final size:14
Alignment explanation
Indices: 28452369--28452411 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
28452359 GATAAATACT
*
28452369 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
28452383 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
28452397 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
28452411 T
1 T
28452412 GCTTGAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:28452861 original size:13 final size:13
Alignment explanation
Indices: 28452845--28452877 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
28452835 TTTAATTAAA
*
28452845 TTAGTTAATTAGT
1 TTAGATAATTAGT
28452858 TTAGATAATTAGT
1 TTAGATAATTAGT
28452871 TTA-ATAA
1 TTAGATAA
28452878 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:28458976 original size:19 final size:19
Alignment explanation
Indices: 28458954--28459014 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
28458944 GGACATAGGT
*
28458954 GTGTCCCAAGCACATGAGC
1 GTGTCCCAAGCACAGGAGC
* *
28458973 GTGTCCCAAGCACAGGGGT
1 GTGTCCCAAGCACAGGAGC
28458992 GTGTCCCAAGCACACGG-GC
1 GTGTCCCAAGCACA-GGAGC
28459011 GTGT
1 GTGT
28459015 GCATTGCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 35 0.95
20 2 0.05
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (19 bp):
GTGTCCCAAGCACAGGAGC
Found at i:28460004 original size:9 final size:9
Alignment explanation
Indices: 28459982--28460013 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
28459972 CGAATAGAAG
28459982 AAAGAAAAA
1 AAAGAAAAA
28459991 GAAAGAAAAA
1 -AAAGAAAAA
28460001 AAAGAAAAA
1 AAAGAAAAA
28460010 AAAG
1 AAAG
28460014 CTCTCATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:28461328 original size:40 final size:39
Alignment explanation
Indices: 28461244--28461428 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
28461234 TCAAATGATG
* * *
28461244 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
* * *
28461284 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
28461324 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
28461363 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
28461404 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
28461429 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 79 0.63
41 12 0.10
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28461380 original size:79 final size:81
Alignment explanation
Indices: 28461244--28461426 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
28461234 TCAAATGATG
* * *
28461244 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
28461308 TGTGCGAGTTGCTA-A
66 TGTGCGAGTTACTATA
* * **
28461323 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
28461385 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
28461403 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
28461427 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:28461450 original size:79 final size:77
Alignment explanation
Indices: 28461278--28461461 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
28461268 GTGCTAAGTG
* * *
28461278 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
28461343 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
28461357 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
28461421 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
28461436 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
28461462 TACGTGATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:28464665 original size:16 final size:17
Alignment explanation
Indices: 28464643--28464686 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
28464633 TATTTAATAA
28464643 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
28464660 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
28464675 TCA--TCTCATATT
1 TCATTTCTCATATT
28464687 CATTTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:28464675 original size:43 final size:43
Alignment explanation
Indices: 28464628--28464713 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
28464618 TCATATTTCA
* *
28464628 TTTCTTATTTAATAATCATTTCTCATATTT-TCCATTTCAATAT
1 TTTCTCATCTAATAATCATTTCTCATATTTGT-CATTTCAATAT
* * * *
28464671 TTTCTCATCTCATATTCATTTCTTATCTTTGTCATTTCAATAT
1 TTTCTCATCTAATAATCATTTCTCATATTTGTCATTTCAATAT
28464714 CAATCACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.01, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTAATAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:28465918 original size:3 final size:3
Alignment explanation
Indices: 28465912--28465966 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
28465902 TTTTTTTCTT
* *
28465912 TTA TTA TAA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28465960 TTA TTA T
1 TTA TTA T
28465967 AACATATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:28472783 original size:91 final size:94
Alignment explanation
Indices: 28472622--28472827 Score: 221
Period size: 91 Copynumber: 2.2 Consensus size: 94
28472612 ACATTAGGGT
* * * *
28472622 TATGTCGATCCCATGTAAGACAATGTCTGGGACATGGCTTTGGCATTGATATGTAATTTCGTGTA
1 TATGT-GATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCGATATG-AATCTCATGTA
*
28472687 AGACCATAG-CT-GGAC-TGTC-T-GCATCGA
64 AGACCAT-GTCTGGGACATGGCATGGCATCGA
* *
28472714 TATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGACCTATG-ATC-CTATGT
1 TATGTGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCGA--TATGAATCTC-ATGT
28472777 AAGACCATGTCTGGGACATGGCATTGGCATCGA
63 AAGACCATGTCTGGGACATGGCA-TGGCATCGA
*
28472810 TATGTGAT-CAATGTAAGA
1 TATGTGATCCCATGTAAGA
28472828 TCATATCTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
90 2 0.02
91 54 0.56
92 9 0.09
93 7 0.07
95 10 0.10
96 15 0.15
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (94 bp):
TATGTGATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCGATATGAATCTCATGTAAG
ACCATGTCTGGGACATGGCATGGCATCGA
Found at i:28472818 original size:48 final size:48
Alignment explanation
Indices: 28472622--28472837 Score: 221
Period size: 48 Copynumber: 4.6 Consensus size: 48
28472612 ACATTAGGGT
* * *
28472622 TATGTCGATCCCATGTAAGACAATGTCTGGGACATGGCTTTGGCATTGA
1 TATGT-GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* ** * *
28472671 TATGTAATTTCGTGTAAGACCATAG-CT-GGAC-TGTC--T-GCATCGA
1 TATGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGA
*
28472714 TATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGA
1 TATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
** * *
28472762 CCTATGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
1 TATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* * *
28472810 TATGTGAT-CAATGTAAGATCATATCTGG
1 TATGTGATCCCATGTAAGACCATGTCTGG
28472838 TATAAGGCAT
Statistics
Matches: 136, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 26 0.19
44 5 0.04
45 3 0.02
46 3 0.02
47 22 0.16
48 70 0.51
49 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (48 bp):
TATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
Found at i:28475495 original size:86 final size:85
Alignment explanation
Indices: 28475369--28475538 Score: 216
Period size: 86 Copynumber: 2.0 Consensus size: 85
28475359 ATAGGATCTG
* * * * * * * *
28475369 ATATGTGATTTCGTGTAAGACCACATCTGGGACATTGGCATCGATTTCTGTTTTACGTGTAAGAC
1 ATATCTGATTTCATGTAAGACCACATCTGAGACAGTGGCATCGATGTATG-ATTACATGTAAGAC
*
28475434 CATGTCTGGGACATTGGCATC
65 CACGTCTGGGACATTGGCATC
*
28475455 ATATCTGATTTCATGTAAGACC-CTGTCTGAGACAGTGGCATCGATGTATGATTACATGTAAGAC
1 ATATCTGATTTCATGTAAGACCAC-ATCTGAGACAGTGGCATCGATGTATGATTACATGTAAGAC
*
28475519 CACGTCTGGGACGTTGGCAT
65 CACGTCTGGGACATTGGCAT
28475539 TGTATATATT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 31 0.43
86 41 0.57
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (85 bp):
ATATCTGATTTCATGTAAGACCACATCTGAGACAGTGGCATCGATGTATGATTACATGTAAGACC
ACGTCTGGGACATTGGCATC
Found at i:28475518 original size:43 final size:43
Alignment explanation
Indices: 28475368--28475538 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
28475358 CATAGGATCT
* * * **
28475368 GATATGTGATTTCGTGTAAGACCACATCTGGGACATTGGCATC
1 GATATCTGATTACATGTAAGACCATGTCTGGGACATTGGCATC
* * *
28475411 GATTTCTGTTTTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATCTG-ATTACATGTAAGACCATGTCTGGGACATTGGCATC
* * * *
28475455 -ATATCTGATTTCATGTAAGACCCTGTCTGAGACAGTGGCATC
1 GATATCTGATTACATGTAAGACCATGTCTGGGACATTGGCATC
* * * *
28475497 GATGTATGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATCTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
28475539 TGTATATATT
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 29 0.28
43 45 0.43
44 31 0.30
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
GATATCTGATTACATGTAAGACCATGTCTGGGACATTGGCATC
Found at i:28477876 original size:80 final size:80
Alignment explanation
Indices: 28477738--28477945 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 80
28477728 CAATTGAATG
* * ** * * *
28477738 ACATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTATATCCGGGTTAAGACCCGAAGGC
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGTAGTTATATCCGGGCTAACACCCGAAGGC
* *
28477802 AAT-TGTGCTAGT-GACT
65 -ATCTGTGCAACTCG-CT
* *
28477818 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAACACCCGAAGGCA
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
*
28477883 TCTGTGCAACTCGTT
66 TCTGTGCAACTCGCT
* * * *
28477898 ATATCCAGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
28477946 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 4 0.04
80 103 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAACACCCGAAGGCA
TCTGTGCAACTCGCT
Found at i:28477930 original size:40 final size:39
Alignment explanation
Indices: 28477740--28477945 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
28477730 ATTGAATGAC
* * ** *
28477740 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAA-TAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-AAGT-GTTAT
* * * *
28477780 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TTAT
*
28477820 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTTAT
* *
28477860 ATCCGGGCTAACACCCGAAGGCA-TCTGTGCAACTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTC-GTGCAAGT-GTTAT
* *
28477900 ATCCAGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTAT
28477940 ATCCGG
1 ATCCGG
28477946 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.05
40 123 0.90
41 7 0.05
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTAT
Found at i:28487945 original size:47 final size:47
Alignment explanation
Indices: 28487864--28487993 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
28487854 GTGCGACTGA
* *
28487864 TACCTTGATTTGGCTATGGGCCATGGTATGGGTACTCCAGGATAATT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
* * * * *
28487911 TACCTTGATTTTGCTACGGGACATGTTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
*
28487958 TACGTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
28487994 TATCAATTGA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
Found at i:28491375 original size:43 final size:43
Alignment explanation
Indices: 28491327--28491412 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
28491317 TCATATTTCA
*
28491327 TTTCTCATCTCATAATCATTTCTCAT-ATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCATTT-CCATCTCAATAT
* *
28491370 TTTCTCATCTCATATTCATTTCTTATCATTTCCATCTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCATTTCCATCTCAATAT
28491413 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.01, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATCATTTCCATCTCAATAT
Found at i:28492676 original size:27 final size:27
Alignment explanation
Indices: 28492644--28492699 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
28492634 GCTAATTTAG
28492644 TCCCTTTATTTTATTTCAATTTACAAT
1 TCCCTTTATTTTATTTCAATTTACAAT
*
28492671 TCCCTTTATTTTATTTCAATTTATAAT
1 TCCCTTTATTTTATTTCAATTTACAAT
28492698 TC
1 TC
28492700 AACTTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.57
Consensus pattern (27 bp):
TCCCTTTATTTTATTTCAATTTACAAT
Found at i:28494425 original size:40 final size:40
Alignment explanation
Indices: 28494371--28494571 Score: 273
Period size: 40 Copynumber: 5.0 Consensus size: 40
28494361 GAATTCAACA
* * *
28494371 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
28494411 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
28494451 GGATATAGTAACTCGGACGAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
28494491 GGATATAATAACTCGCACAATTGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
28494530 GGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
28494570 GG
1 GG
28494572 TTATCATCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 108 0.76
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:28497242 original size:40 final size:40
Alignment explanation
Indices: 28497193--28497341 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 40
28497183 CGGACTTTAA
* *
28497193 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGTACAAATGCCTTCAGGACATAAC
* * *
28497233 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGTACAAATGCCTTCAGGACATAAC
* * * * *
28497273 CCGGATTTAGTAACTCGCACCAATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGTACAAATGCCTTCAGGACATAAC
* * *
28497312 TCGGA-ATTAGTAACTCGCACGAATGCCTTC
1 CCGGATA-TAGTAACTCGTACAAATGCCTTC
28497342 GGATCTTAGT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.37
40 59 0.63
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGTACAAATGCCTTCAGGACATAAC
Found at i:28497322 original size:39 final size:40
Alignment explanation
Indices: 28497212--28497396 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
28497202 GCTACTCGTT
* *
28497212 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCAGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
28497252 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
28497292 CCAATGCCTTC-GGACTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
28497331 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
28497372 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGA
28497397 CATCATTCGA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 38 0.31
40 74 0.60
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:28497337 original size:79 final size:81
Alignment explanation
Indices: 28497214--28497396 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
28497204 TACTCGTTCA
* * *
28497214 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCAGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
28497277 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
28497294 AATGCCTTC-GGACTTAGCTCGGAAT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCAGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
28497357 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
* *
28497373 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCAGGACTTAGCCCGGA
28497397 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 27 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCAGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:28504994 original size:40 final size:40
Alignment explanation
Indices: 28504964--28505146 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
28504954 GCTACTCGTT
* *
28504964 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
28505004 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
28505044 CCAATGCCTTC-GGACTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
28505083 CGAATGCCTTC-GGATCTTAGTCC-GATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
28505123 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
28505147 ACATCATTCG
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
39 57 0.47
40 63 0.52
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:28505083 original size:79 final size:80
Alignment explanation
Indices: 28504966--28505147 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
28504956 TACTCGTTCA
* *
28504966 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACCCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTC-GGATCTTAACCC-G
* *
28505029 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* * **
28505046 AATGCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGAT
*
28505109 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
28505124 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
28505148 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 21 0.24
79 57 0.65
80 10 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGAT
ATAGTAACTTAGCAC
Found at i:28511718 original size:28 final size:28
Alignment explanation
Indices: 28511649--28511749 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
28511639 GACAAGATTG
* * * *
28511649 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
28511679 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28511707 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
28511736 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
28511750 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:28519149 original size:29 final size:29
Alignment explanation
Indices: 28519088--28519247 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
28519078 CCTCCGAACT
** * *
28519088 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
28519116 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28519145 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28519174 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28519203 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28519232 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
28519248 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 14 0.11
29 109 0.89
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:28522043 original size:39 final size:40
Alignment explanation
Indices: 28521989--28522142 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
28521979 TATGTATGAA
*
28521989 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
28522028 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
28522067 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
28522107 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
28522143 TGTTTGAACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:28522128 original size:79 final size:79
Alignment explanation
Indices: 28521989--28522142 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
28521979 TATGTATGAA
* * *
28521989 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
28522054 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * *
28522067 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTA
*
28522132 TGTCCCGAAGG
65 AGTCCCGAAGG
28522143 TGTTTGAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:28522613 original size:13 final size:13
Alignment explanation
Indices: 28522584--28522613 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
28522574 CTATCAAAGC
28522584 CCTTTTTGGTACT
1 CCTTTTTGGTACT
28522597 -CTTTTTGGTACT
1 CCTTTTTGGTACT
28522609 CCTTT
1 CCTTT
28522614 AGTTGAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.23, G:0.13, T:0.57
Consensus pattern (13 bp):
CCTTTTTGGTACT
Found at i:28532168 original size:46 final size:47
Alignment explanation
Indices: 28532017--28532272 Score: 213
Period size: 46 Copynumber: 5.4 Consensus size: 47
28532007 TTTGTGCGCT
* * *
28532017 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACTTGCATCGGCCTCGA-GATGTAGAGCC
* * * * ** *
28532063 AGTGTAAGACCATGTCTGGGACATGGCAACGGCATTGAGA-CAAGAGCT
1 AGTGTAAGA-CATGTCTGGGAC-TTGCATCGGCCTCGAGATGTAGAGCC
*
28532111 AGTGTAAGACATGTCTGGGACTTACATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACTTGCATCGGCCTCGAGATGTAGAGCC
* * *
28532157 AGTGTAAGACATGTCTGCGACATGCATCGG-CTACGAGATGT---GTC
1 AGTGTAAGACATGTCTGGGACTTGCATCGGCCT-CGAGATGTAGAGCC
* * * *
28532201 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGTGAGAACC
1 AGTGTAAGA-CATGTCTGGGAC-TTGCATCGGCCTCGAGATGT-AGAGCC
*
28532251 AGTGTAAGACAATGTATGGGAC
1 AGTGTAAGAC-ATGTCTGGGAC
28532273 ATGGTGTCAG
Statistics
Matches: 167, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.07
45 13 0.08
46 73 0.44
47 26 0.16
48 22 0.13
49 2 0.01
50 20 0.12
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACTTGCATCGGCCTCGAGATGTAGAGCC
Found at i:28532253 original size:94 final size:92
Alignment explanation
Indices: 28532014--28532275 Score: 266
Period size: 94 Copynumber: 2.8 Consensus size: 92
28532004 TCATTTGTGC
* * * *
28532014 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGTGAGAGCCAGTGTAAGA-CATGT
28532078 CTGGGACATGGCAACGGCATTGAGACAAGA
65 CTGGGACAT-GCAACGGCA-TGAGACAAGA
* * *
28532108 GCTAGTGTAAGACATGTCTGGGACTTACATCGGCCTCGAGATGT-A-AGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTAGAGATGTGAGAGCCAGTGTAAGACATGT
* * * * *
28532171 CTGCGACATGCATCGGC-T-ACGAGATGT
65 CTGGGACATGCAACGGCATGA-GACAAGA
*
28532198 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGTGAGAACCAGTGTAAGACA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAGAGATGTGAGAGCCAGTGTAAGAC-
*
28532262 ATGTATGGGACATG
61 ATGTCTGGGACATG
28532276 GTGTCAGCCT
Statistics
Matches: 140, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
89 2 0.01
90 15 0.11
91 14 0.10
92 21 0.15
93 14 0.10
94 57 0.41
95 15 0.11
96 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGTGAGAGCCAGTGTAAGACATGTC
TGGGACATGCAACGGCATGAGACAAGA
Found at i:28543653 original size:13 final size:13
Alignment explanation
Indices: 28543635--28543671 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
28543625 TGTAAACGGT
28543635 AAAATTTCTTA-AC
1 AAAATTT-TTATAC
28543648 AAAATTTTTATAC
1 AAAATTTTTATAC
28543661 AAAATTTTTAT
1 AAAATTTTTAT
28543672 CATACTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTTTATAC
Found at i:28544366 original size:64 final size:64
Alignment explanation
Indices: 28544265--28544388 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
28544255 GCCATAGCCG
*
28544265 AAATTCTCAAGCTCTCCATTGCTAGGGTTTTTCAACTTTTCAAGCTTGAAAGTAAGTCAAACCA
1 AAATTCTCAAGCTCTCCATAGCTAGGGTTTTTCAACTTTTCAAGCTTGAAAGTAAGTCAAACCA
*
28544329 AAATTCTCAAGCTCTCTATAGCTAGGGTTTTTCAACTTTTCAAGCTTGAAAGTAAGTCAA
1 AAATTCTCAAGCTCTCCATAGCTAGGGTTTTTCAACTTTTCAAGCTTGAAAGTAAGTCAA
28544389 TCCTAGCCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (64 bp):
AAATTCTCAAGCTCTCCATAGCTAGGGTTTTTCAACTTTTCAAGCTTGAAAGTAAGTCAAACCA
Found at i:28549098 original size:29 final size:29
Alignment explanation
Indices: 28549048--28549209 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 29
28549038 GTGACGAGAT
28549048 TGGCACTAAGTTGTGCGTGCTGGAAATATA
1 TGGCACTAAG-TGTGCGTGCTGGAAATATA
28549078 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
28549107 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
28549136 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
28549165 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
28549194 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28549210 AAATCGAGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 99 0.89
30 10 0.09
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:28551941 original size:40 final size:39
Alignment explanation
Indices: 28551882--28552027 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 39
28551872 TCGAATGATG
*
28551882 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-AAGTGACTAAA
* * *
28551922 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACTAAA
* * *
28551962 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTA-AA
*
28552003 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
28552028 AATGAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.86
41 12 0.13
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:28552045 original size:80 final size:80
Alignment explanation
Indices: 28551882--28552050 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
28551872 TCGAATGATG
* * *
28551882 TCCGGGCTAAGTCCTGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
28551947 GTGCGAGTTACTAAA
66 GAACGAGTTACTAAA
* * * *
28551962 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
* *
28552025 TTGAATGAG-TAGCTATA
64 TTGAACGAGTTA-CTAAA
28552042 TCC-GGTTAA
1 TCCGGGTTAA
28552051 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 59 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:28564327 original size:89 final size:89
Alignment explanation
Indices: 28564172--28564335 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
28564162 AGCATGATTC
* * * * * *
28564172 ACAACAGTGGAATTCATAGCCCAAAATATGGGTAAATGATATCCTTTCATTGGCATTACATGGTT
1 ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
28564237 GATGAAAAGTAAACGTGGTAACTT
66 GATGAAAAGTAAACGTGGTAACTT
28564261 ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
1 ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
28564326 GATGAAAAGT
66 GATGAAAAGT
28564336 CAATCACTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (89 bp):
ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
GATGAAAAGTAAACGTGGTAACTT
Found at i:28564823 original size:6 final size:6
Alignment explanation
Indices: 28564814--28564852 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
28564804 CCAAAAAAGG
*
28564814 AAATGG AAATGA AAATGA AAATGA AAATGA AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAA
28564853 CTTGCAATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:28565024 original size:26 final size:26
Alignment explanation
Indices: 28564995--28565047 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28564985 TATTTTCTTG
*
28564995 AAATTTTAC-AAGGTGAAAAATTGTCA
1 AAATTTTACTAAGG-GAAAAATCGTCA
*
28565021 AAATTTTACTAAGGGTAAAATCGTCA
1 AAATTTTACTAAGGGAAAAATCGTCA
28565047 A
1 A
28565048 TTTTTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (26 bp):
AAATTTTACTAAGGGAAAAATCGTCA
Found at i:28565774 original size:22 final size:21
Alignment explanation
Indices: 28565736--28565777 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
28565726 AACACAATCT
28565736 GCTAAGGATGTCATGACACAA
1 GCTAAGGATGTCATGACACAA
* *
28565757 GCTAGAGGGTGTCGTGACACA
1 GCTA-AGGATGTCATGACACA
28565778 GCCTTAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (21 bp):
GCTAAGGATGTCATGACACAA
Found at i:28566549 original size:18 final size:18
Alignment explanation
Indices: 28566515--28566567 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
28566505 CCTATTTCAA
* *
28566515 TAACAGTAACCAGTGCAG
1 TAACAGTAATCAATGCAG
*
28566533 TAACCA-TGATCAATGCAG
1 TAA-CAGTAATCAATGCAG
28566551 TAACAGTAATCAATGCA
1 TAACAGTAATCAATGCA
28566568 ATATGCAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (18 bp):
TAACAGTAATCAATGCAG
Found at i:28566855 original size:23 final size:23
Alignment explanation
Indices: 28566829--28566878 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
28566819 ACCCCATTCA
28566829 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
28566852 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
28566875 ATGC
1 ATGC
28566879 TCAAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:28566960 original size:27 final size:26
Alignment explanation
Indices: 28566913--28566980 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
28566903 GACCAAATCT
* **
28566913 GTCATTTTACCTTACCGGGGTATTAC
1 GTCATTTTACCCTACAAGGGTATTAC
*
28566939 AGTCATTTTACCCTACAAGGGTATTTC
1 -GTCATTTTACCCTACAAGGGTATTAC
*
28566966 GATCATTCTACCCTA
1 G-TCATTTTACCCTA
28566981 TGGGGGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCCTACAAGGGTATTAC
Found at i:28567026 original size:27 final size:28
Alignment explanation
Indices: 28566930--28567029 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
28566920 TACCTTACCG
* **
28566930 GGGTATTACAG-TCATTTTACCCTACAA
1 GGGTATTTCAGATCATTTTACCCTATGA
* *
28566957 GGGTATTTC-GATCATTCTACCCTATGG
1 GGGTATTTCAGATCATTTTACCCTATGA
* *
28566984 GGGTATTT-TGATCATTTTACCATATGA
1 GGGTATTTCAGATCATTTTACCCTATGA
28567011 GGGTATTTCAGA-CATTTTA
1 GGGTATTTCAGATCATTTTA
28567030 TCAAATAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 58 0.95
28 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (28 bp):
GGGTATTTCAGATCATTTTACCCTATGA
Found at i:28567363 original size:20 final size:20
Alignment explanation
Indices: 28567323--28567365 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
28567313 ACCCATTCCA
**
28567323 GCCCAACATGACCCATTTTG
1 GCCCAACATGACCCAAATTG
*
28567343 GCCCAACATGGCCCAAATTG
1 GCCCAACATGACCCAAATTG
28567363 GCC
1 GCC
28567366 TTAGCCCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.37, G:0.19, T:0.19
Consensus pattern (20 bp):
GCCCAACATGACCCAAATTG
Found at i:28572780 original size:40 final size:40
Alignment explanation
Indices: 28572615--28572781 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
28572605 AAATTGAATG
* * * **
28572615 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * * **
28572654 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAATGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
28572694 ATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
28572734 CTATCCGGGCTAAGACTCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
*
28572774 AAATCCGG
1 ATATCCGG
28572782 TTATATTCCG
Statistics
Matches: 100, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
39 14 0.14
40 86 0.86
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:28580575 original size:40 final size:40
Alignment explanation
Indices: 28580509--28580659 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
28580499 AAATTGAATG
* * *
28580509 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
28580548 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
28580588 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
28580628 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
28580660 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:28584922 original size:40 final size:40
Alignment explanation
Indices: 28584793--28584923 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
28584783 TATGCTGGAA
* * *
28584793 ATTATATCCGGGTTAAGACCCGAAGGCAGTTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
28584833 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
28584873 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
28584913 ATTAAATCCGG
1 ATTATATCCGG
28584924 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:28586269 original size:45 final size:46
Alignment explanation
Indices: 28586205--28586372 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 46
28586195 TGTAACCCAC
*
28586205 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
* * *
28586250 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAG--G-C-A-TTCGCAT
* * * *
28586300 CTCA-CA---AACTCGGACTC-ACTCAACGAGTTCAGACTTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
28586342 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
28586373 TTCGGATGCC
Statistics
Matches: 98, Mismatches: 12, Indels: 25
0.73 0.09 0.19
Matches are distributed among these distances:
41 4 0.04
42 5 0.05
43 1 0.01
45 42 0.43
46 24 0.24
47 10 0.10
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:28586381 original size:92 final size:92
Alignment explanation
Indices: 28586214--28586382 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
28586204 CCCATAAGCG
* *
28586214 AACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAATG
1 AACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
28586279 AGCTCAGATGCCTAGTTACATCTCACA
66 AGCTCAGATGCCTAGTTACATCTCACA
* * *
28586306 AACTCGGACTC-ACTCAACGAGTTCAGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTC-GACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
* *
28586370 GAGTTCGGATGCC
65 GAGCTCAGATGCC
28586383 CAAATATCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 12 0.17
92 57 0.83
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACG
AGCTCAGATGCCTAGTTACATCTCACA
Found at i:28588231 original size:18 final size:18
Alignment explanation
Indices: 28588176--28588231 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
28588166 CCCATTTCAC
*
28588176 TAATAGTAATCAGTGCAG
1 TAATAGTAATCAGTACAG
* * * *
28588194 TAACCA-TGATCAATATAG
1 TAA-TAGTAATCAGTACAG
28588212 TAATAGTAATCAGTACAG
1 TAATAGTAATCAGTACAG
28588230 TA
1 TA
28588232 TGCAAGCAGA
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (18 bp):
TAATAGTAATCAGTACAG
Found at i:28588620 original size:27 final size:27
Alignment explanation
Indices: 28588574--28588690 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
28588564 GAACAAATCT
* * *
28588574 GTCATTTTATCTTATCGGGGTATTAT-A
1 GTCATTTTACCCTATAGGGGTATT-TCA
*
28588601 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCA
* *
28588628 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
* *
28588655 GTCATTTTACCCTATAAGGGCATTTCTA
1 GTCATTTTACCCTATAGGGGTATTTC-A
28588683 -TCATTTTA
1 GTCATTTTA
28588691 TCAAATAAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 75 0.97
28 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCA
Found at i:28588703 original size:54 final size:54
Alignment explanation
Indices: 28588591--28588703 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
28588581 TATCTTATCG
* * * ** **
28588591 GGGTATTATAGTCATTTTACCCTATAGGGGTATTTCGGTCATTCTACCCTATGG
1 GGGTATTATAGTCATTTTACCCTATAAGGGCATTTCGATCATTCTACCAAATAA
* * *
28588645 GGGTATT-TCAGTCATTTTACCCTATAAGGGCATTTCTATCATTTTATCAAATAA
1 GGGTATTAT-AGTCATTTTACCCTATAAGGGCATTTCGATCATTCTACCAAATAA
28588699 GGGTA
1 GGGTA
28588704 AAGTCATCAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTATAGTCATTTTACCCTATAAGGGCATTTCGATCATTCTACCAAATAA
Found at i:28589003 original size:20 final size:20
Alignment explanation
Indices: 28588965--28589006 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
28588955 GCCCGTGGGG
**
28588965 CCAACATGACCCATTTCGGC
1 CCAACATGACCCAAATCGGC
*
28588985 CCAACATGGCCCAAATCGGC
1 CCAACATGACCCAAATCGGC
28589005 CC
1 CC
28589007 CAGCCCATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.43, G:0.17, T:0.14
Consensus pattern (20 bp):
CCAACATGACCCAAATCGGC
Found at i:28590112 original size:24 final size:24
Alignment explanation
Indices: 28590061--28590112 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
28590051 CTACAATTTT
* *
28590061 CTCCTAAAATCGCTCCTCATATCT
1 CTCCTAAAATCCCTCCTCATATCG
*
28590085 CTCCTCAAATCCCTCCTTCA-ATCG
1 CTCCTAAAATCCCTCC-TCATATCG
28590109 CTCC
1 CTCC
28590113 ATGACCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.21, C:0.44, G:0.04, T:0.31
Consensus pattern (24 bp):
CTCCTAAAATCCCTCCTCATATCG
Found at i:28597151 original size:39 final size:39
Alignment explanation
Indices: 28597066--28597247 Score: 217
Period size: 39 Copynumber: 4.6 Consensus size: 39
28597056 GCTACTCATT
* *
28597066 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
28597106 CAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
* *
28597145 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * * *
28597184 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
28597225 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
28597248 GACATCATTC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
38 9 0.07
39 53 0.43
40 48 0.39
41 13 0.11
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:28597249 original size:40 final size:40
Alignment explanation
Indices: 28597066--28597249 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
28597056 GCTACTCATT
* *
28597066 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
28597106 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
28597145 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
28597184 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
28597225 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28597250 CATCATTCGG
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 9 0.07
39 51 0.41
40 53 0.42
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:28599101 original size:25 final size:24
Alignment explanation
Indices: 28599073--28599124 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
28599063 ATTGAAATGA
28599073 AAATAAAAGAAAAAGAAAAAGAAAT
1 AAATAAAAGAAAAA-AAAAAGAAAT
* *
28599098 AAATAAAAGAAATAAAAAATAAAT
1 AAATAAAAGAAAAAAAAAAGAAAT
28599122 AAA
1 AAA
28599125 AAATTAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (24 bp):
AAATAAAAGAAAAAAAAAAGAAAT
Found at i:28599107 original size:13 final size:13
Alignment explanation
Indices: 28599073--28599113 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
28599063 ATTGAAATGA
28599073 AAATAAAAGAAA-
1 AAATAAAAGAAAT
28599085 AAGA-AAAAGAAAT
1 AA-ATAAAAGAAAT
28599098 AAATAAAAGAAAT
1 AAATAAAAGAAAT
28599111 AAA
1 AAA
28599114 AAATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAT
Found at i:28599117 original size:20 final size:19
Alignment explanation
Indices: 28599083--28599125 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
28599073 AAATAAAAGA
*
28599083 AAAAGAAAAAGAAATAAAT
1 AAAAGAAAAAAAAATAAAT
28599102 AAAAGAAATAAAAAATAAAT
1 AAAAGAAA-AAAAAATAAAT
28599122 AAAA
1 AAAA
28599126 AATTAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAGAAAAAAAAATAAAT
Found at i:28599135 original size:13 final size:11
Alignment explanation
Indices: 28599072--28599139 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
28599062 AATTGAAATG
28599072 AAAATAAA-AGA
1 AAAATAAATA-A
*
28599083 AAAAGAAA-AA
1 AAAATAAATAA
*
28599093 GAAATAAAT--
1 AAAATAAATAA
*
28599102 AAAAGAAATAA
1 AAAATAAATAA
28599113 AAAATAAATAA
1 AAAATAAATAA
28599124 AAAATTAGAATAA
1 AAAA-TA-AATAA
28599137 AAA
1 AAA
28599140 GATAGGAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 7 0.15
10 7 0.15
11 22 0.48
12 2 0.04
13 8 0.17
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.13
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:28600990 original size:21 final size:20
Alignment explanation
Indices: 28600966--28601010 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
28600956 GTTACTATCC
* *
28600966 CACGTCCGTGTGTTATGGTA
1 CACGCCCGTGTATTATGGTA
*
28600986 GCACGCCCGTGTATTATTGTA
1 -CACGCCCGTGTATTATGGTA
28601007 CACG
1 CACG
28601011 GCTGAACGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (20 bp):
CACGCCCGTGTATTATGGTA
Found at i:28604450 original size:13 final size:13
Alignment explanation
Indices: 28604428--28604460 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
28604418 CATGGTTTGT
28604428 TTAT-TAAACTAA
1 TTATCTAAACTAA
28604440 TTATCTAAACTAA
1 TTATCTAAACTAA
*
28604453 TTAACTAA
1 TTATCTAA
28604461 TTTAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:28606538 original size:30 final size:30
Alignment explanation
Indices: 28606497--28606804 Score: 168
Period size: 30 Copynumber: 10.3 Consensus size: 30
28606487 TCATCGACCG
* *
28606497 ATGAAATGGGATAGGTTCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * *
28606527 ATGAAAAGGGATAGCTTTGGCTGTCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * *
28606557 CTGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * * *
28606587 AGGAAGAGGGAT-GGTGACGACCATC-AATA
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * * *
28606616 ATGAAAAGGGAT-GGTGAT-GACCATCGAACT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* *
28606646 ATGAAAAGGGATAGCTT-TAGCTAT-AGAACT
1 ATGAAAAGGGATAGCTTCGA-CTATCA-AATT
* *
28606676 ATGAATAA-GGATAGCTTTGGCTATCAAATT
1 ATGAA-AAGGGATAGCTTCGACTATCAAATT
* * *
28606706 ATGAAAAGGGATAG-TGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * * * *
28606735 ATGAAAAGGGAT-GGTGACAACCATCAAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * *
28606765 ATGAAAAGTGATAGCTTCGGCTATCTAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
28606795 ATGGAAAAGG
1 AT-GAAAAGG
28606805 ACGGTGACAA
Statistics
Matches: 218, Mismatches: 45, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.00
29 55 0.25
30 149 0.68
31 13 0.06
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:28606768 original size:89 final size:90
Alignment explanation
Indices: 28606616--28606804 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 90
28606606 ACCATCAATA
* * ** * * *
28606616 ATGAAAAGGGATGGTGATGACCATCGAACTATGAAAAGGGATAGCTTTAGCTATAGAACTATGAA
1 ATGAAAAGGGATAGTGACGACCATCGAACTATGAAAAGGGATAGCTACAACCATAGAAATATGAA
*
28606681 TAAG-GATAGCTTTGGCTATCAAATT
66 -AAGTGATAGCTTCGGCTATCAAATT
*
28606706 ATGAAAAGGGATAGTGACGACCATC-AACTATGAAAAGGGAT-GGTGACAACCATCA-AAATATG
1 ATGAAAAGGGATAGTGACGACCATCGAACTATGAAAAGGGATAGCT-ACAACCAT-AGAAATATG
*
28606768 AAAAGTGATAGCTTCGGCTATCTAATT
64 AAAAGTGATAGCTTCGGCTATCAAATT
28606795 ATGGAAAAGG
1 AT-GAAAAGG
28606805 ACGGTGACAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
88 5 0.06
89 49 0.58
90 31 0.36
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (90 bp):
ATGAAAAGGGATAGTGACGACCATCGAACTATGAAAAGGGATAGCTACAACCATAGAAATATGAA
AAGTGATAGCTTCGGCTATCAAATT
Found at i:28606805 original size:119 final size:118
Alignment explanation
Indices: 28606519--28606805 Score: 380
Period size: 119 Copynumber: 2.4 Consensus size: 118
28606509 AGGTTCGACT
* * *
28606519 ATCAAATTATGAAAAGGGATAGCTTTGGCTGTCAAATTCTGAAAAGGGATAGCTTTGGCTATCAA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCAAATTATGAAAA-GGATAGCTTTGGCTATCAA
* * **
28606584 ATTAGGAAGAGGGATGGTGACGACCATCAATAATGAAAAGGGATGGTGATGACC
65 ATTAGGAAAAGGGATAGTGACGACCATCAATAATGAAAAGGGATGGTGACAACC
* * * *
28606638 ATCGAACTATGAAAAGGGATAGCTTTAGCTAT-AGAACTATGAATAAGGATAGCTTTGGCTATCA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCA-AATTATGAA-AAGGATAGCTTTGGCTATCA
*
28606702 AATTATGAAAAGGGATAGTGACGACCATCAACT-ATGAAAAGGGATGGTGACAACC
64 AATTAGGAAAAGGGATAGTGACGACCATCAA-TAATGAAAAGGGATGGTGACAACC
* * *
28606757 ATCAAAATATGAAAAGTGATAGCTTCGGCTATCTAATTATGGAAAAGGA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCAAATTAT-GAAAAGGA
28606806 CGGTGACAAC
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 138 0.95
120 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (118 bp):
ATCAAAATATGAAAAGGGATAGCTTTGGCTATCAAATTATGAAAAGGATAGCTTTGGCTATCAAA
TTAGGAAAAGGGATAGTGACGACCATCAATAATGAAAAGGGATGGTGACAACC
Found at i:28610343 original size:56 final size:56
Alignment explanation
Indices: 28610268--28610380 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
28610258 TTTTTATAAA
*
28610268 TATTTATGAAGCATCATTAAAGTGGTATTAAAGTTTTGTTGAAAAATTTTAATGTT
1 TATTTATGAAGCATCATTAAAGTGGTATTAAAGTTTTGTTGAAAAATTTTAACGTT
*
28610324 TATTTATGAAGCATCATTAAGGTGGTATTAAAGTTTTGTTGAAAAATTTTAACGTT
1 TATTTATGAAGCATCATTAAAGTGGTATTAAAGTTTTGTTGAAAAATTTTAACGTT
28610380 T
1 T
28610381 CGATAGTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (56 bp):
TATTTATGAAGCATCATTAAAGTGGTATTAAAGTTTTGTTGAAAAATTTTAACGTT
Found at i:28611412 original size:29 final size:29
Alignment explanation
Indices: 28611377--28611446 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
28611367 TCATCGACCA
*
28611377 ATGAAAAGGGACAGCTTCGGCTATCGATT
1 ATGAAAAGGGACAGCTTCGACTATCGATT
* *
28611406 ATGAAAAAGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGACAGCTTCGACTATCGATT
28611435 ATGAAAAGGGAC
1 ATGAAAAGGGAC
28611447 GATGACGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGACAGCTTCGACTATCGATT
Found at i:28611455 original size:29 final size:29
Alignment explanation
Indices: 28611423--28611546 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
28611413 AGGATAGCTT
*
28611423 CGACTATCGATTATGAAAAGGGACGATGA
1 CGACCATCGATTATGAAAAGGGACGATGA
* * * * *
28611452 CGACCATCAACTATGAAAAAGGATGGTGA
1 CGACCATCGATTATGAAAAGGGACGATGA
* * * * **
28611481 CAACCATCAATTAATGAAAAGGGATGGTTT
1 CGACCATCGATT-ATGAAAAGGGACGATGA
* *
28611511 CGACCATCGAATATGAAAAGGGACGATTA
1 CGACCATCGATTATGAAAAGGGACGATGA
28611540 CGACCAT
1 CGACCAT
28611547 TGTTTAGTAC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
29 54 0.70
30 23 0.30
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (29 bp):
CGACCATCGATTATGAAAAGGGACGATGA
Found at i:28614889 original size:28 final size:28
Alignment explanation
Indices: 28614824--28614922 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
28614814 CTAGTGAGTC
* *
28614824 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
28614851 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
28614879 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
28614909 CGCACACTTAGTGC
1 CGCACACTTAGTGC
28614923 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28621937 original size:30 final size:30
Alignment explanation
Indices: 28621824--28621951 Score: 150
Period size: 30 Copynumber: 4.3 Consensus size: 30
28621814 CGACCAATGA
* * ***
28621824 AAAAGGG-TTGCTTCCACTATCAACCAATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
28621853 AAAAAGGATAGCTTCGACTATCGAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
*
28621883 AAAAGGGATAGCTTCGATTATCAAATTATG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
* *
28621913 AAAAGGGATAGCTTCGGCTATCAAATTACG
1 AAAAGGGATAGCTTCGACTATCAAATTATG
*
28621943 ATAAGGGAT
1 AAAAGGGAT
28621952 GGTGATGACC
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 6 0.07
30 78 0.93
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (30 bp):
AAAAGGGATAGCTTCGACTATCAAATTATG
Found at i:28622086 original size:100 final size:99
Alignment explanation
Indices: 28621901--28622092 Score: 242
Period size: 100 Copynumber: 1.9 Consensus size: 99
28621891 TAGCTTCGAT
* ** *
28621901 TATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTACGATAAGGGATGGTGATGACCGTCA
1 TATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTACGAAAAGGGATGGTGACAACCATCA
**
28621966 ACAATAAAAAGGGATGGTGACGACCATTGATTGAC
66 ACAATAAAAAAAGA-GGTGACGACCATTGATTGAC
* * * **
28622001 TATCGAATTTTGAAAAGGGATAGCTTTGGCTATCAAATTATTAAAAGGGATGGTGACAACCATCA
1 TATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTACGAAAAGGGATGGTGACAACCATCA
*
28622066 ACTATGAAAAATAAGA-GTGACGACCAT
66 ACAAT-AAAAA-AAGAGGTGACGACCAT
28622093 CAAAATATGA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
100 71 0.91
101 5 0.06
102 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (99 bp):
TATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTACGAAAAGGGATGGTGACAACCATCA
ACAATAAAAAAAGAGGTGACGACCATTGATTGAC
Found at i:28622496 original size:9 final size:9
Alignment explanation
Indices: 28622482--28622507 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
28622472 ATTATCTGTA
28622482 GATTTTGAT
1 GATTTTGAT
28622491 GATTTTGAT
1 GATTTTGAT
28622500 GATTTTGA
1 GATTTTGA
28622508 GTCATGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GATTTTGAT
Found at i:28626067 original size:71 final size:71
Alignment explanation
Indices: 28625979--28626142 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
28625969 GAGATGTATC
28625979 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
28626044 AAGACA
66 AAGACA
*
28626050 CCATGTAGACAAGAGAGCTACGTGAAAGATGAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
28626115 AGGACA
66 AAGACA
*
28626121 CCATGTAGACAAGAGAACTACG
1 CCATGTAGACAAGAGAGCTACG
28626143 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AAGACA
Found at i:28633691 original size:39 final size:40
Alignment explanation
Indices: 28633610--28633775 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
28633600 AAATTGAATG
* * ** ***
28633610 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* *
28633649 ATATCCGGGTTAAGACCCGAAGGCAATTG-GCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* **
28633688 ATATCCGGGCTAAGACCCGAAGGC-ATTAGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGGTT
* *
28633728 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-AGTGGTT
28633768 ATATCCGG
1 ATATCCGG
28633776 TTATATTCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
38 3 0.03
39 41 0.40
40 55 0.54
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
Found at i:28633742 original size:79 final size:79
Alignment explanation
Indices: 28633610--28633775 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
28633600 AAATTGAATG
*
28633610 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
28633675 TTG-GCA-AGTGGCT
66 TTGTGCACA-TGGCT
* ** *
28633688 ATATCCGGGCTAAGACCCGAAGGC-ATTAGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATTA-TGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
28633751 CATTTGTGCACATGGTT
63 CAATTGTGCACATGGCT
28633768 ATATCCGG
1 ATATCCGG
28633776 TTATATTCCG
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
78 19 0.25
79 41 0.54
80 15 0.20
81 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACATGGCT
Found at i:28633754 original size:40 final size:41
Alignment explanation
Indices: 28633610--28633752 Score: 154
Period size: 39 Copynumber: 3.6 Consensus size: 41
28633600 AAATTGAATG
* *
28633610 ATATCCGGGCTAAG-CCCGAAGACAATTA-TGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTAGTGC-GAGTAATT
* * ***
28633649 ATATCCGGGTTAAGACCCGAAGGCAATT-G-GCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTAGTGCGAGTAATT
*
28633688 ATATCCGGGCTAAGACCCGAAGGC-ATTAGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTAGTGCGAGTAATT
*
28633728 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
28633753 TTTGTGCACA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
38 3 0.04
39 41 0.48
40 41 0.48
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.20
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTAGTGCGAGTAATT
Found at i:28636634 original size:41 final size:41
Alignment explanation
Indices: 28636589--28636706 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
28636579 TGAAAGATAA
28636589 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
28636630 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
28636660 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
28636701 ATGTAG
1 ATGTAG
28636707 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:28636645 original size:71 final size:71
Alignment explanation
Indices: 28636557--28636720 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
28636547 GAGATGTATC
28636557 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
28636622 AGGACA
66 AGGACA
28636628 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
28636693 AGGACA
66 AGGACA
28636699 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
28636721 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:28638779 original size:48 final size:48
Alignment explanation
Indices: 28638723--28638946 Score: 219
Period size: 48 Copynumber: 4.8 Consensus size: 48
28638713 ATGTACGATC
* * *
28638723 CCATGTAAGACTATGTCTGGGACATGACTTTGGCATCGATATGTAATT
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATT
* * * *
28638771 TCTTGTAAGACCATAG-CTGGG-C-T---ATCGGCATCAATATGTGATT
1 CCATGTAAGACCAT-GTCTGGGACATGACATTGGCATCGATATGTGATT
* * * ** *
28638814 CCATGTAAGACCATGTCTGGGACATAACATTAGCATCGATCTACGATC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATT
* * *
28638862 CCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATT
* *
28638910 CCATGTAAGACCATATCTGGGATATGGA-ATTGGCATC
1 CCATGTAAGACCATGTCTGGGACAT-GACATTGGCATC
28638947 CTACCATGTG
Statistics
Matches: 141, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 33 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.72
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
CCATGTAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGATT
Found at i:28640983 original size:26 final size:26
Alignment explanation
Indices: 28640943--28641016 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
28640933 AATTTCGCCT
*
28640943 TAGAAATTTCCTCTCATGACTAGATC
1 TAGAAATTTCCTCTCGTGACTAGATC
*
28640969 TAGAAATTTCGTCTCGTGACTAGATC
1 TAGAAATTTCCTCTCGTGACTAGATC
28640995 TAGAAATTTCCTCTCGTGACTA
1 TAGAAATTTCCTCTCGTGACTA
28641017 ACTCTTCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (26 bp):
TAGAAATTTCCTCTCGTGACTAGATC
Found at i:28642828 original size:40 final size:39
Alignment explanation
Indices: 28642773--28642940 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 39
28642763 CAATTGAATG
* * *
28642773 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-TT
28642813 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGTT
* * * *
28642853 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-GTT
**
28642893 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGT-GTT
28642933 ATATCCGG
1 ATATCCGG
28642941 TTGTATTCCG
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
39 6 0.05
40 101 0.91
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGTT
Found at i:28642906 original size:80 final size:80
Alignment explanation
Indices: 28642773--28642940 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 80
28642763 CAATTGAATG
* *
28642773 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
28642838 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTGGTT
* * * *
28642853 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GACTATATCCGGGCTAAGACCCGAAGGC
**
28642917 ATTCGTGCGTGTGGTT
65 ATTCGTGCAAGTGGTT
28642933 ATATCCGG
1 ATATCCGG
28642941 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 77 0.99
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTGGTT
Found at i:28646816 original size:47 final size:47
Alignment explanation
Indices: 28646741--28646851 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
28646731 CCCCTCGGGA
* * *
28646741 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
28646788 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
28646835 CTTATCACATATATACA
1 CTTATCACTTATATACA
28646852 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:28646907 original size:46 final size:46
Alignment explanation
Indices: 28646855--28647036 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
28646845 ATATACATCT
* * *
28646855 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28646901 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28646947 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28646993 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
28647037 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:28649788 original size:40 final size:40
Alignment explanation
Indices: 28649730--28649839 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 40
28649720 GGATATAGCG
* * * *
28649730 ACTCACTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTG
1 ACTCACACAATTGCCTTCGGGACATAGCCCGGATT-TAGTA
*
28649770 ATTCACACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCACACAATTGCCTTCGGGACA-TAGCCCGGATTTAGTA
* ** *
28649810 ACTCGCACAAAAGCCTTCGGGACTTAGCCC
1 ACTCACACAATTGCCTTCGGGACATAGCCC
28649840 AGATACCATT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.02
40 54 0.95
41 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCACACAATTGCCTTCGGGACATAGCCCGGATTTAGTA
Found at i:28650552 original size:40 final size:40
Alignment explanation
Indices: 28650503--28650770 Score: 430
Period size: 40 Copynumber: 6.7 Consensus size: 40
28650493 CCAGCATGAT
* *
28650503 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
28650543 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
28650583 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
28650623 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
28650663 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
28650703 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
28650743 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
28650771 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 3 0.01
40 214 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:28653389 original size:47 final size:47
Alignment explanation
Indices: 28653314--28653424 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
28653304 CCCCTCGGGA
* * *
28653314 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
28653361 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
28653408 CTTATCACATATATACA
1 CTTATCACTTATATACA
28653425 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:28653480 original size:46 final size:46
Alignment explanation
Indices: 28653428--28653609 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
28653418 ATATACATCT
* * *
28653428 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28653474 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28653520 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
28653566 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
28653610 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:28662559 original size:50 final size:49
Alignment explanation
Indices: 28662440--28662626 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
28662430 TGAGGTCGCA
* * * * *
28662440 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGAAAACTGT-GATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCATG
**
28662491 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCATG
* ***
28662541 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCATG
* *
28662590 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
28662627 TAGCTTCGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 39 0.33
50 43 0.37
51 30 0.26
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCATG
Found at i:28664231 original size:27 final size:27
Alignment explanation
Indices: 28664201--28664340 Score: 135
Period size: 27 Copynumber: 5.2 Consensus size: 27
28664191 GGCAAAATTG
* *
28664201 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTTTACCCTACAAGGGTATTTCGA
* *
28664228 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTTTACCCTACAAGGGTATTTCGA
* *
28664254 GT-ATTTCTACCCTACAAGGGTATTTTGG
1 -TAATTT-TACCCTACAAGGGTATTTCGA
*
28664282 TAATTCTACCCTACAAGGGTATTTCGA
1 TAATTTTACCCTACAAGGGTATTTCGA
** *
28664309 T-ATTTTA-CAAATCAAGAGTATTTCGA
1 TAATTTTACCCTA-CAAGGGTATTTCGA
28664335 TAATTT
1 TAATTT
28664341 CACAAATTAG
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.02
26 23 0.25
27 64 0.70
28 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGA
Found at i:28664265 original size:54 final size:53
Alignment explanation
Indices: 28664203--28664316 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 53
28664193 CAAAATTGTA
*
28664203 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAGT
* * * *
28664256 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTC-GAT
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAG-T
28664310 ATTTTAC
1 ATTTTAC
28664317 AAATCAAGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 8 0.15
54 46 0.85
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAAGGGTATTTCAGT
Found at i:28664331 original size:26 final size:27
Alignment explanation
Indices: 28664295--28664347 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
28664285 TTCTACCCTA
* *
28664295 CAAGGGTATTTCGAT-ATTTTACAAAT
1 CAAGAGTATTTCGATAATTTCACAAAT
28664321 CAAGAGTATTTCGATAATTTCACAAAT
1 CAAGAGTATTTCGATAATTTCACAAAT
28664348 TAGGGGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (27 bp):
CAAGAGTATTTCGATAATTTCACAAAT
Found at i:28664356 original size:27 final size:27
Alignment explanation
Indices: 28664295--28664517 Score: 121
Period size: 27 Copynumber: 8.3 Consensus size: 27
28664285 TTCTACCCTA
28664295 CAAGGGTATTTCGAT-ATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
28664321 CAAGAGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * * **
28664348 TAGGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * * *
28664375 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
28664402 CAGGGGTATTT-TAGTAATTTTACAAA-
1 CAAGGGTATTTCGA-TAATTTTACAAAT
* * * **
28664428 CCAGAGGTATTTTGGTAATTTTACTGAT
1 CAAG-GGTATTTCGATAATTTTACAAAT
* * * ** *
28664456 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTACAAAT
* **
28664483 CAAGGGTATCTC-AGTAATTTTGTAAAT
1 CAAGGGTATTTCGA-TAATTTTACAAAT
*
28664510 CGAGGGTA
1 CAAGGGTA
28664518 AAACGATAAT
Statistics
Matches: 157, Mismatches: 34, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
26 16 0.10
27 138 0.88
28 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:28664437 original size:81 final size:81
Alignment explanation
Indices: 28664352--28664503 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
28664342 ACAAATTAGG
* * *
28664352 GGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAG
1 GGTATTTTGGTAATTTTACTAAGCCA-GGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAG
28664416 TAATTTTACAAACCAGA
65 TAATTTTACAAACCAGA
* * * *
28664433 GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATCTCAGT
1 GGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAGT
28664498 AATTTT
66 AATTTT
28664504 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 60 0.95
82 3 0.05
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAGT
AATTTTACAAACCAGA
Found at i:28664512 original size:54 final size:54
Alignment explanation
Indices: 28664297--28664517 Score: 191
Period size: 54 Copynumber: 4.1 Consensus size: 54
28664287 CTACCCTACA
* * * * * * * * *
28664297 AGGGTATTTCGAT-ATTTTACAAATCAAGAGTATTTCGATAATTTCACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCG
* * *
28664349 AGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTATAAA-CC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCG
* *
28664403 AGGGGTATTTTAGTAATTTTACAAACC-AGAGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTA-TAAATCG
** * ** *
28664458 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATCTCAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCG
28664512 AGGGTA
1 AGGGTA
28664518 AAACGATAAT
Statistics
Matches: 137, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 12 0.09
54 119 0.87
55 5 0.04
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCG
Found at i:28664528 original size:81 final size:81
Alignment explanation
Indices: 28664378--28664528 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
28664368 TACAAGCCAG
* * * **** *
28664378 GGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAGTAATTTTACAAACCAGAGGTAAAACGA
28664443 TAATTTTACTGATCGA
66 TAATTTTACTGATCGA
* ** *
28664459 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATCTCAGTAATTTTGTAAATC-GAGGGTAAAACG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAGTAATTTTACAAACCAGA-GGTAAAACG
28664523 ATAATT
65 ATAATT
28664529 CTGTAAATCG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATCTCAGTAATTTTACAAACCAGAGGTAAAACGA
TAATTTTACTGATCGA
Found at i:28664852 original size:27 final size:27
Alignment explanation
Indices: 28664496--28664841 Score: 467
Period size: 27 Copynumber: 12.8 Consensus size: 27
28664486 GGGTATCTCA
* * *
28664496 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
28664523 ATAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
28664550 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
28664577 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
** * * *
28664604 GTAATTCGGTAAATCAAGGATACAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
28664631 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
28664658 GTAATTCTGTAAATCGATGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
28664685 TTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
28664712 GTAATTCTGTAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
28664739 GTAATTCTATGAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
28664766 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
28664793 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
28664820 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTATAAATCGAGGGTA
28664842 CTTTGGTAAT
Statistics
Matches: 279, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 279 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Done.