Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 118 of 150
Found at i:36432519 original size:47 final size:46
Alignment explanation
Indices: 36432442--36432549 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
36432432 TATCATGTTT
* *
36432442 TATTATTTGT-AATTTATCAATATTACTATTTTAAATTCATCGTTAA
1 TATTATTT-TAAATTTATCAATATTACTATTTCAAATTCATCATTAA
* * *
36432488 TATTATTTTAAATTTATC-ATGTATATCTATTTCAAATTTATTATTAA
1 TATTATTTTAAATTTATCAATAT-TA-CTATTTCAAATTCATCATTAA
36432535 TA-T-TTTTAAATTTAT
1 TATTATTTTAAATTTAT
36432550 TATATACTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
45 16 0.30
46 19 0.35
47 19 0.35
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (46 bp):
TATTATTTTAAATTTATCAATATTACTATTTCAAATTCATCATTAA
Found at i:36432561 original size:115 final size:116
Alignment explanation
Indices: 36432442--36432655 Score: 251
Period size: 115 Copynumber: 1.9 Consensus size: 116
36432432 TATCATGTTT
* * * * *
36432442 TATTATTTGT-AATTTATCA-ATATTACTATTTTA-AATTCATCGTTAATATTATTTTAAA-TTT
1 TATTATTTGTGAATTTATCACATATGACTATTCTAGAATT-ATCATCAA-A-AATTTTAAATTTT
36432503 ATCATGTA-TATCTATTTCAAATTTATTAT-TAATATTTTTAAATTTATTATATAC
63 AT-ATGTATTAT-TATTTCAAATTTATTATATAATATTTTTAAATTTATTATATAC
* * * *
36432557 TATTATTTTTGGATTTATCACGTATGATTATTCTAGAATTATCATCAAAAATTTTAAATTTTATA
1 TATTATTTGTGAATTTATCACATATGACTATTCTAGAATTATCATCAAAAATTTTAAATTTTATA
*
36432622 TGTATTATTATTTCAAATTTATTATATATTATTT
66 TGTATTATTATTTCAAATTTATTATATAATATTT
36432656 ATTGTAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
115 39 0.47
116 24 0.29
117 16 0.19
118 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (116 bp):
TATTATTTGTGAATTTATCACATATGACTATTCTAGAATTATCATCAAAAATTTTAAATTTTATA
TGTATTATTATTTCAAATTTATTATATAATATTTTTAAATTTATTATATAC
Found at i:36432565 original size:24 final size:24
Alignment explanation
Indices: 36432413--36432665 Score: 136
Period size: 24 Copynumber: 10.8 Consensus size: 24
36432403 AAGTGTTTTG
*
36432413 TATATTATTATTTTAGATTTATCA
1 TATATTATTATTTTAAATTTATCA
* *
36432437 TGTTTTATTATTTGT-AATTTATCA
1 TATATTATTATTT-TAAATTTATCA
* * *
36432461 -ATATTACTATTTTAAATTCATCG
1 TATATTATTATTTTAAATTTATCA
*
36432484 T-TAATATTATTTTAAATTTATCA
1 TATATTATTATTTTAAATTTATCA
* * *
36432507 TGTA-TATCTATTTCAAATTTATTA
1 TATATTAT-TATTTTAAATTTATCA
* *
36432531 T-TAATA-T-TTTTAAATTTATTA
1 TATATTATTATTTTAAATTTATCA
* **
36432552 TATACTATTATTTTTGGATTTATCA
1 TATATTATTA-TTTTAAATTTATCA
** * *
36432577 CGTATGATTATTCTAGAA-TTATCA
1 TATATTATTATTTTA-AATTTATCA
*
36432601 TCA-A--A-AATTTTAAATTTTAT-A
1 T-ATATTATTATTTTAAA-TTTATCA
* * *
36432622 TGTATTATTATTTCAAATTTATTA
1 TATATTATTATTTTAAATTTATCA
*
36432646 TATATTATTTATTGTAAATT
1 TATATTA-TTATTTTAAATT
36432666 ATCCAATTCA
Statistics
Matches: 173, Mismatches: 36, Indels: 39
0.70 0.15 0.16
Matches are distributed among these distances:
20 2 0.01
21 22 0.13
22 11 0.06
23 47 0.27
24 62 0.36
25 29 0.17
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (24 bp):
TATATTATTATTTTAAATTTATCA
Found at i:36432806 original size:3 final size:3
Alignment explanation
Indices: 36432798--36432860 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
36432788 TACATATTAG
36432798 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36432846 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
36432861 GTTGTTGTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:36432865 original size:3 final size:3
Alignment explanation
Indices: 36432859--36432887 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36432849 ATTATTATTA
36432859 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
36432888 ATTATCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:36444757 original size:18 final size:18
Alignment explanation
Indices: 36444723--36444774 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
36444713 TAAATGATTT
*
36444723 TTTTAATTAAGTTATAATA
1 TTTTAA-TAAGTAATAATA
36444742 TTTTAATAAGTAATAATA
1 TTTTAATAAGTAATAATA
* *
36444760 TTTTATTAATTAATA
1 TTTTAATAAGTAATA
36444775 TTATAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTTAATAAGTAATAATA
Found at i:36445782 original size:16 final size:17
Alignment explanation
Indices: 36445765--36445797 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36445755 AATGGAATTG
36445765 AAATGAGAATT-AAATGA
1 AAAT-AGAATTGAAATGA
36445782 AAATAGAATTGAAATG
1 AAATAGAATTGAAATG
36445798 GATCATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAATAGAATTGAAATGA
Found at i:36446826 original size:21 final size:20
Alignment explanation
Indices: 36446801--36446840 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36446791 TTCCTTTTCA
36446801 AAAAAAATGGAAAAGTGAGT
1 AAAAAAATGGAAAAGTGAGT
36446821 AAAAAAATGGAAAAGTGAGT
1 AAAAAAATGGAAAAGTGAGT
36446841 TGCTTCGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (20 bp):
AAAAAAATGGAAAAGTGAGT
Found at i:36450464 original size:33 final size:33
Alignment explanation
Indices: 36450408--36450472 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
36450398 ATCATTCTCA
36450408 TAAATAATTCTTAACTCAACCTATTTTTGTAAG
1 TAAATAATTCTTAACTCAACCTATTTTTGTAAG
* * *
36450441 TAAATAATTGTTATCTCAGCCTATTTTTGTAA
1 TAAATAATTCTTAACTCAACCTATTTTTGTAA
36450473 ATAATTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (33 bp):
TAAATAATTCTTAACTCAACCTATTTTTGTAAG
Found at i:36451798 original size:4 final size:4
Alignment explanation
Indices: 36451789--36451814 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
36451779 AGGACAAATT
36451789 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
36451815 TCTAAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:36456880 original size:22 final size:21
Alignment explanation
Indices: 36456855--36456896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36456845 TTTTTTGACT
36456855 TTTGGATTGTTATTTTATTTTA
1 TTTGGATT-TTATTTTATTTTA
* *
36456877 TTTGGCTTTTTTTTTATTTT
1 TTTGGATTTTATTTTATTTT
36456897 TTGTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.74
Consensus pattern (21 bp):
TTTGGATTTTATTTTATTTTA
Found at i:36466509 original size:20 final size:20
Alignment explanation
Indices: 36466475--36466516 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36466465 AACTATTTAA
** *
36466475 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
36466495 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
36466515 AT
1 AT
36466517 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:36466648 original size:25 final size:25
Alignment explanation
Indices: 36466614--36466666 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
36466604 GGAATGGGAT
36466614 TTCATCTAGAAAACACACCAACAAA
1 TTCATCTAGAAAACACACCAACAAA
36466639 TTCATCTAGAAAACACACCAACAAA
1 TTCATCTAGAAAACACACCAACAAA
36466664 TTC
1 TTC
36466667 TAATATTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.28, G:0.04, T:0.19
Consensus pattern (25 bp):
TTCATCTAGAAAACACACCAACAAA
Found at i:36470898 original size:27 final size:27
Alignment explanation
Indices: 36470715--36471047 Score: 380
Period size: 27 Copynumber: 12.4 Consensus size: 27
36470705 GGTATAATAA
* * *
36470715 TCATATTACCCTATGAGGGTATTTAGG
1 TCATTTTACCCTATGGGGGTATTTCGG
36470742 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
36470769 TCATTCTACCCTATGGGGGTATATCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * **
36470796 TTATTTTACCCTATGAGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
36470823 TCATTTTACCCTAT-GGGATATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
36470849 TCATTTTATCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
36470876 TCATTTTACCCTATAAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
36470903 TCATTCTATCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *** *
36470930 TCATTCTATTTTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
36470957 TCATTCTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
36470984 TCATTTTACCCTATGGGGATATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
36471011 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
36471038 TTATTTTACC
1 TCATTTTACC
36471048 TATTTTAGGG
Statistics
Matches: 258, Mismatches: 47, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.09
27 236 0.91
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:36475286 original size:45 final size:45
Alignment explanation
Indices: 36475217--36475302 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
36475207 AGATACTCGA
* ** *
36475217 TGGATTCAGCACATAGTGACCACCTTATTAATCAATGATGTCTGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
*
36475262 TGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
36475303 TCGGTTCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCTGG
Found at i:36475490 original size:101 final size:101
Alignment explanation
Indices: 36475311--36475495 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
36475301 GTTCGGTTCA
* * * *
36475311 CATAGTAGCCTACACGTAGTACTATACATGTGACAAATACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGAC-AATACCATCCGATACACGTAGTAGCCCGCA
*
36475376 TATAGTACAACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACAACACACGTGATCGAAACTATCTGGTACG
* * * *
36475413 CATAGTAGCCTGCACATAGTACTACACATGCGAC-CTATCATTCCGGTACACGTAGTAGCCCGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACAATACCA-TCCGATACACGTAGTAGCCCGCA
*
36475477 CATAGTACTACACACGTGA
65 CATAGTACAACACACGTGA
36475496 CCATCACTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
100 4 0.06
101 38 0.53
102 30 0.42
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACAATACCATCCGATACACGTAGTAGCCCGCAC
ATAGTACAACACACGTGATCGAAACTATCTGGTACG
Found at i:36478122 original size:20 final size:20
Alignment explanation
Indices: 36478088--36478129 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36478078 AACTATTTAA
** *
36478088 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
36478108 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
36478128 AT
1 AT
36478130 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:36479687 original size:32 final size:32
Alignment explanation
Indices: 36479647--36479866 Score: 255
Period size: 32 Copynumber: 6.9 Consensus size: 32
36479637 ATAAGTACAA
* * *
36479647 TAATATGATTGGCACAAAGCCATAAGTAGCAG
1 TAATATGATCGGCACAAAGCCATAAGTAACGG
* * *
36479679 TGATATGATCGGCACACAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATAAGTAACGG
*
36479711 TAATATGATCGGTACAAAGCCATCAA-TAACGG
1 TAATATGATCGGCACAAAGCCAT-AAGTAACGG
*
36479743 TAATATGATCGGCACAAAGCCATCAA-TAATGG
1 TAATATGATCGGCACAAAGCCAT-AAGTAACGG
* *
36479775 TAATATGATCGGTACAAAGCCATTAGTAACGG
1 TAATATGATCGGCACAAAGCCATAAGTAACGG
* * *
36479807 TAATATGATTGGTACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATAAGTAACGG
* * * *
36479839 TAATATAATCGGTATAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATAAGTA
36479867 GCATCGCAGC
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
31 1 0.01
32 164 0.99
33 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATAAGTAACGG
Found at i:36479730 original size:64 final size:64
Alignment explanation
Indices: 36479647--36479866 Score: 289
Period size: 64 Copynumber: 3.4 Consensus size: 64
36479637 ATAAGTACAA
* * * * *
36479647 TAATATGATTGGCACAAAGCCATAAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG
1 TAATATGATCGGTACAAAGCCATAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
36479711 TAATATGATCGGTACAAAGCCATCAA-TAACGGTAATATGATCGGCACAAAGCCATCAATAATGG
1 TAATATGATCGGTACAAAGCCAT-AAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
36479775 TAATATGATCGGTACAAAGCCATTAGTAACGGTAATATGATTGGTACAAAGCCATCAGTAACGG
1 TAATATGATCGGTACAAAGCCATAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
36479839 TAATATAATCGGTATAAAGCCATCAGTA
1 TAATATGATCGGTACAAAGCCATAAGTA
36479867 GCATCGCAGC
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
63 1 0.01
64 135 0.98
65 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (64 bp):
TAATATGATCGGTACAAAGCCATAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:36479811 original size:96 final size:97
Alignment explanation
Indices: 36479647--36479863 Score: 303
Period size: 96 Copynumber: 2.3 Consensus size: 97
36479637 ATAAGTACAA
* * * *
36479647 TAATATGATTGGCACAAAGCCAT-AAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
36479711 TAATATGATCGGTACAAAGCCATCAATAACGG
66 TAATATGATCGGTACAAAGCCATCAATAACGG
** * *
36479743 TAATATGATCGGCACAAAGCCATCAA-TAATGGTAATATGATCGGTACAAAGCCATTAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
* *
36479807 TAATATGATTGGTACAAAGCCATCAGTAACGG
66 TAATATGATCGGTACAAAGCCATCAATAACGG
* * *
36479839 TAATATAATCGGTATAAAGCCATCA
1 TAATATGATCGGCACAAAGCCATCA
36479864 GTAGCATCGC
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
96 105 0.98
97 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (97 bp):
TAATATGATCGGCACAAAGCCATCAAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGG
TAATATGATCGGTACAAAGCCATCAATAACGG
Found at i:36479886 original size:26 final size:26
Alignment explanation
Indices: 36479857--36479913 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
36479847 TCGGTATAAA
* *
36479857 GCCATCAGTAGCATCGCAGCAAAACT
1 GCCAGCAGAAGCATCGCAGCAAAACT
* * *
36479883 GCCAGCAGAAGTATTGCAGCAAAGCT
1 GCCAGCAGAAGCATCGCAGCAAAACT
36479909 GCCAG
1 GCCAG
36479914 TAATAGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.14
Consensus pattern (26 bp):
GCCAGCAGAAGCATCGCAGCAAAACT
Found at i:36480065 original size:24 final size:24
Alignment explanation
Indices: 36480038--36480095 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
36480028 CCATGCTCAG
*
36480038 AATCAGTCA-ATCAAATCACAGACA
1 AATCAGTCATACCAAA-CACAGACA
* *
36480062 AATCTGTCATACCAAACACAGATA
1 AATCAGTCATACCAAACACAGACA
36480086 AATCAGTCAT
1 AATCAGTCAT
36480096 TTAACCACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACCAAACACAGACA
Found at i:36480190 original size:27 final size:27
Alignment explanation
Indices: 36480145--36480433 Score: 238
Period size: 27 Copynumber: 10.3 Consensus size: 27
36480135 TAAATAGTTA
* *
36480145 TTTACCC-ACCAGGGCATTACGATCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* *
36480171 TTTACCCTACAAGGGTATTACGGTTAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* *
36480198 TTTACCCTACAGGGGCATGACGGTCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* * **
36480225 TTTACCTTACAGGGGTACCCTACAGAGGCATTACGATAAT
1 TTTACCCTACAAGGG--CATTAC---GG---T-C----AT
* * *
36480265 TTTACCCTATAAGGGCATTACGATTAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* *
36480292 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* *
36480319 TTTACCCTACATGGGTATTACGGTCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* *
36480346 TTTACCTTACAAGGGCATTACGGTTAT
1 TTTACCCTACAAGGGCATTACGGTCAT
*
36480373 TTTACCCTATAAGGGCATTACGGTCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
* * * *
36480400 TTTACCCTTCGAGGGTATTTCGGTCAT
1 TTTACCCTACAAGGGCATTACGGTCAT
36480427 TTTACCC
1 TTTACCC
36480434 ATCGAGGGTA
Statistics
Matches: 212, Mismatches: 37, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.03
27 178 0.84
29 3 0.01
32 3 0.01
35 2 0.01
36 1 0.00
38 4 0.02
40 14 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
TTTACCCTACAAGGGCATTACGGTCAT
Found at i:36480281 original size:67 final size:67
Alignment explanation
Indices: 36480173--36480306 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 67
36480163 ACGATCATTT
* * * * * *
36480173 TACCCTACAAGGGTATTACGGTTATTTTACCCTACAGGGGCATGACGGTCATTTTACCTTACAGG
1 TACCCTACAAGGGCATTACGATAATTTTACCCTACAAGGGCATGACGATCATTTTACCCTACAGG
36480238 GG
66 GG
* * *
36480240 TACCCTAC-AGAGGCATTACGATAATTTTACCCTATAAGGGCATTACGATTATTTTACCCTACAG
1 TACCCTACAAG-GGCATTACGATAATTTTACCCTACAAGGGCATGACGATCATTTTACCCTACAG
36480304 GGG
65 GGG
36480307 CATTACGATC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 2 0.04
67 55 0.96
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (67 bp):
TACCCTACAAGGGCATTACGATAATTTTACCCTACAAGGGCATGACGATCATTTTACCCTACAGG
GG
Found at i:36480319 original size:94 final size:94
Alignment explanation
Indices: 36480157--36480335 Score: 286
Period size: 94 Copynumber: 1.9 Consensus size: 94
36480147 TACCCACCAG
* * * *
36480157 GGCATTACGATCATTTTACCCTACAAGGGTATTACGGTTATTTTACCCTACAGGGGCATGACGGT
1 GGCATTACGATAATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAGGGGCATGACGAT
*
36480222 CATTTTACCTTACAGGGGTACCCTACAGA
66 CATTTTACCCTACAGGGGTACCCTACAGA
* *
36480251 GGCATTACGATAATTTTACCCTATAAGGGCATTACGATTATTTTACCCTACAGGGGCATTACGAT
1 GGCATTACGATAATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAGGGGCATGACGAT
*
36480316 CATTTTACCCTACATGGGTA
66 CATTTTACCCTACAGGGGTA
36480336 TTACGGTCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (94 bp):
GGCATTACGATAATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAGGGGCATGACGAT
CATTTTACCCTACAGGGGTACCCTACAGA
Found at i:36480375 original size:81 final size:80
Alignment explanation
Indices: 36480240--36480433 Score: 262
Period size: 81 Copynumber: 2.4 Consensus size: 80
36480230 CTTACAGGGG
* * * * *
36480240 TACCCTACAGAGGCATTACGATAATTTTACCCTATAAGGGCATTACGATTATTTTACCCTACAGG
1 TACCCTACAG-GGTATTACGGTCATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAAG
36480305 GGCATTACGATCATTT
65 GGCATTACGATCATTT
* * *
36480321 TACCCTACATGGGTATTACGGTCATTTTACCTTACAAGGGCATTACGGTTATTTTACCCTATAAG
1 TACCCTACA-GGGTATTACGGTCATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAAG
*
36480386 GGCATTACGGTCATTT
65 GGCATTACGATCATTT
* *
36480402 TACCCTTCGAGGGTATTTCGGTCATTTTACCC
1 TACCCTAC-AGGGTATTACGGTCATTTTACCC
36480434 ATCGAGGGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
81 97 0.98
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (80 bp):
TACCCTACAGGGTATTACGGTCATTTTACCCTACAAGGGCATTACGATTATTTTACCCTACAAGG
GCATTACGATCATTT
Found at i:36480451 original size:27 final size:27
Alignment explanation
Indices: 36480315--36480451 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
36480305 GGCATTACGA
*
36480315 TCATTTTACCC-TAC-ATGGGTATTACGG
1 TCATTTTACCCAT-CGA-GGGTATTTCGG
* * * *
36480342 TCATTTTA-CCTTACAAGGGCATTACGG
1 TCATTTTACCCAT-CGAGGGTATTTCGG
* * * *
36480369 TTATTTTACCCTAT-AAGGGCATTACGG
1 TCATTTTACCC-ATCGAGGGTATTTCGG
*
36480396 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCGG
*
36480423 TCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCGG
36480450 TC
1 TC
36480452 CAGATATCGA
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.03
27 88 0.93
28 3 0.03
29 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCGG
Found at i:36481118 original size:24 final size:24
Alignment explanation
Indices: 36481082--36481144 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
36481072 CCCATATTCT
*
36481082 CTCCTCAAATCTCTCCAAATATCC
1 CTCCTTAAATCTCTCCAAATATCC
*
36481106 CTCCTTAATTCTCTCCAAATATCC
1 CTCCTTAAATCTCTCCAAATATCC
*
36481130 CTCCTTAACTCTCTC
1 CTCCTTAAATCTCTC
36481145 TATGACCAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (24 bp):
CTCCTTAAATCTCTCCAAATATCC
Found at i:36483604 original size:43 final size:43
Alignment explanation
Indices: 36483538--36483620 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
36483528 ATAGGCCGAA
36483538 ATTGTGAAAAATTCTCAGAGTTTTGAACCTTTGGAATAAGCAC
1 ATTGTGAAAAATTCTCAGAGTTTTGAACCTTTGGAATAAGCAC
*
36483581 ATTGTGAAAAATTCTCAGGGTTTTGAACCTTTGGAATAAG
1 ATTGTGAAAAATTCTCAGAGTTTTGAACCTTTGGAATAAG
36483621 GACAACTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (43 bp):
ATTGTGAAAAATTCTCAGAGTTTTGAACCTTTGGAATAAGCAC
Found at i:36488166 original size:16 final size:16
Alignment explanation
Indices: 36488135--36488171 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36488125 AAGTGAAGAA
36488135 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
36488151 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
36488167 TATTA
1 TATTA
36488172 AAACAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:36496548 original size:65 final size:61
Alignment explanation
Indices: 36496467--36496623 Score: 147
Period size: 65 Copynumber: 2.4 Consensus size: 61
36496457 TATTAAGTAT
*
36496467 AAATATTTATATTTAATAATATAATAAATTAAT-ATAA-TTTATTATTTAATAAAATTATTTTAC
1 AAAT-TTTAT-TTTAATAATATAATAAATTAATAATAACTTTA-GATTT--T-AAATTATTTT-C
36496530 ATTA
59 -TTA
**
36496534 AAATTTTATTTTAATAATGATTTTAAAATTAATAATAACTTTAGATTTTAAATTATTTTCTTA
1 AAATTTTATTTTAATAAT-ATAAT-AAATTAATAATAACTTTAGATTTTAAATTATTTTCTTA
* * * *
36496597 ATATTTTATATTAATATTTTAATAAAT
1 AAATTTTATTTTAATAATATAATAAAT
36496624 ATATATTACA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
61 4 0.05
62 2 0.03
63 18 0.23
64 1 0.01
65 19 0.25
66 9 0.12
67 12 0.16
68 8 0.10
69 4 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (61 bp):
AAATTTTATTTTAATAATATAATAAATTAATAATAACTTTAGATTTTAAATTATTTTCTTA
Found at i:36496637 original size:22 final size:20
Alignment explanation
Indices: 36496603--36496645 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 20
36496593 CTTAATATTT
36496603 TATATTAATATTTTAATAAATA
1 TATATTAATA-TTT-ATAAATA
36496625 TATATTACA-ATTTATAAATA
1 TATATTA-ATATTTATAAATA
36496645 T
1 T
36496646 TTAGTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 8 0.40
23 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATTAATATTTATAAATA
Found at i:36496756 original size:26 final size:26
Alignment explanation
Indices: 36496717--36496769 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
36496707 CTCCAATATA
* *
36496717 TATTGTCCAGTCTCAAATATGTAAAG
1 TATTATCCACTCTCAAATATGTAAAG
36496743 TATTATCCACTCTCAAATATGTAAAG
1 TATTATCCACTCTCAAATATGTAAAG
36496769 T
1 T
36496770 TTTAATTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (26 bp):
TATTATCCACTCTCAAATATGTAAAG
Found at i:36500655 original size:15 final size:18
Alignment explanation
Indices: 36500635--36500670 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36500625 ATGAACAAAT
36500635 TTTTA-CTT-AGTT-TAA
1 TTTTACCTTCAGTTATAA
36500650 TTTTACCTTCAGTTATAA
1 TTTTACCTTCAGTTATAA
36500668 TTT
1 TTT
36500671 AGATTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 4 0.22
18 6 0.33
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTTACCTTCAGTTATAA
Found at i:36504762 original size:15 final size:15
Alignment explanation
Indices: 36504721--36504763 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36504711 ATTCTATTTT
36504721 TATTTTTATTTATTA
1 TATTTTTATTTATTA
*
36504736 TATATTTATTTATT-
1 TATTTTTATTTATTA
*
36504750 TCATTTTTCTTTAT
1 T-ATTTTTATTTAT
36504764 CAACTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTATTTATTA
Found at i:36505050 original size:20 final size:20
Alignment explanation
Indices: 36505027--36505066 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36505017 TTTAGGTTAG
36505027 GGACTAAATTGCAAT-AAATT
1 GGACTAAATTG-AATGAAATT
36505047 GGACTAAATTGAATGAAATT
1 GGACTAAATTGAATGAAATT
36505067 CAAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (20 bp):
GGACTAAATTGAATGAAATT
Found at i:36513528 original size:23 final size:23
Alignment explanation
Indices: 36513502--36513974 Score: 125
Period size: 23 Copynumber: 20.0 Consensus size: 23
36513492 CAACAATTTG
*
36513502 GACAGCATTTATATACCAAACTA
1 GACAGCATTTATATACCAAATTA
* * *
36513525 GACATCATTGT-CACACCAAAATTTA
1 GACAGCATT-TATATACC-AAA-TTA
* *
36513550 GACAGCATATATATATACAACAATTTG
1 GACAGCAT-T-TATATAC--CAAATTA
* * *
36513577 GGCAGCATTTATATACCTAACTA
1 GACAGCATTTATATACCAAATTA
* *
36513600 GACAGCATTT-TAACACCAAAATTTG
1 GACAGCATTTAT-ATACC-AAA-TTA
* * * * *
36513625 GACAGCATATATACAACAATTTG
1 GACAGCATTTATATACCAAATTA
* *
36513648 GGCAGCATTTATATACCAAACTA
1 GACAGCATTTATATACCAAATTA
* * **
36513671 GACAGCATATATACAAAAAATT-
1 GACAGCATTTATATACCAAATTA
* * *
36513693 GAGCAGCATTTTTACACCAAAAATTG
1 GA-CAGCATTTATATACC--AAATTA
* * * *
36513719 GACAGCATATATACAACAAATTG
1 GACAGCATTTATATACCAAATTA
* *
36513742 GGCAGCATATATATACCAAATT-
1 GACAGCATTTATATACCAAATTA
* * * * *
36513764 GAGCCGCATTTTTACATCAAAATTG
1 GA-CAGCATTTATATA-CCAAATTA
* * * *
36513789 GACAGCATATATACAACC-ATTTG
1 GACAGCATTTATA-TACCAAATTA
* ** * *
36513812 GGCAGCATAAATACAACAAATT-
1 GACAGCATTTATATACCAAATTA
* * *
36513834 GAGCAGCATTTTTACACCAAAAATTG
1 GA-CAGCATTTATATACC--AAATTA
* * * *
36513860 GACAGCATATATACAACAAATTG
1 GACAGCATTTATATACCAAATTA
* *
36513883 GGCAGCATATATATACCAAATT-
1 GACAGCATTTATATACCAAATTA
* * * * *
36513905 GAGCTGCATTTTTACATCAAAATTG
1 GA-CAGCATTTATATA-CCAAATTA
* *
36513930 GACAGCATATATACTA-CAAATTG
1 GACAGCATTTATA-TACCAAATTA
* *
36513953 GGCAGCATATATATACCAAATT
1 GACAGCATTTATATACCAAATT
36513975 GAGCCGCATT
Statistics
Matches: 335, Mismatches: 86, Indels: 58
0.70 0.18 0.12
Matches are distributed among these distances:
22 10 0.03
23 195 0.58
24 37 0.11
25 70 0.21
26 8 0.02
27 12 0.04
28 2 0.01
29 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (23 bp):
GACAGCATTTATATACCAAATTA
Found at i:36513670 original size:71 final size:71
Alignment explanation
Indices: 36513485--36513678 Score: 291
Period size: 75 Copynumber: 2.7 Consensus size: 71
36513475 AACTACACAA
* * *
36513485 CATAT-TACAACAATTTGGACAGCATTTATATACCAAACTAGACATCATTGTCACACCAAAATTT
1 CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTGTAACACCAAAATTT
36513549 AGACAG
66 AGACAG
* *
36513555 CATATATATATACAACAATTTGGGCAGCATTTATATACCTAACTAGACAGCATTTTAACACCAAA
1 C----ATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTGTAACACCAAA
*
36513620 ATTTGGACAG
62 ATTTAGACAG
36513630 CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCAT
1 CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCAT
36513679 ATATACAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
70 1 0.01
71 47 0.42
74 4 0.04
75 60 0.54
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (71 bp):
CATATATACAACAATTTGGGCAGCATTTATATACCAAACTAGACAGCATTGTAACACCAAAATTT
AGACAG
Found at i:36513820 original size:70 final size:71
Alignment explanation
Indices: 36513673--36514125 Score: 653
Period size: 70 Copynumber: 6.4 Consensus size: 71
36513663 CCAAACTAGA
*
36513673 CAGCATATATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
36513738 ATTGGG
66 ATTGGG
* * * * *
36513744 CAGCATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAACCA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
*
36513808 TTTGGG
66 ATTGGG
*
36513814 CAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
36513879 ATTGGG
66 ATTGGG
* * * * *
36513885 CAGCATATATATACCAAATTGAGCTGCATTTTTACATC-AAAATTGGACAGCATATATACTACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
36513949 ATTGGG
66 ATTGGG
* * * *
36513955 CAGCATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
*
36514019 TTTGGG
66 ATTGGG
* * * * *
36514025 TAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCCTATATGCAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
*
36514090 ATTGAG
66 ATTGGG
*
36514096 CAGTATATATACAACAAATTG-GCAGCATTT
1 CAGCATATATACAACAAATTGAGCAGCATTT
36514126 AAGCATCAAA
Statistics
Matches: 342, Mismatches: 38, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
70 201 0.59
71 141 0.41
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (71 bp):
CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
ATTGGG
Found at i:36513820 original size:141 final size:141
Alignment explanation
Indices: 36513673--36514125 Score: 685
Period size: 141 Copynumber: 3.2 Consensus size: 141
36513663 CCAAACTAGA
*
36513673 CAGCATATATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
*
36513738 ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
66 ATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATAC
* *
36513803 AACCATTTGGG
131 AACAAATTGGG
*
36513814 CAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
*
36513879 ATTGGGCAGCATATATATACCAAATTGAGCTGCATTTTTACATCAAAATTGGACAGCATATATAC
66 ATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATAC
*
36513944 TACAAATTGGG
131 AACAAATTGGG
* * * *
36513955 CAGCATATATATACCAAATTGAGCCGCATTTTTACATC-AAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
* * * * ** * * *
36514019 TTTGGGTAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCCTATATG
66 ATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATC-AAAATTGGACAGCATATATA
*
36514084 CAACAAATTGAG
130 CAACAAATTGGG
*
36514096 CAGTATATATACAACAAATTG-GCAGCATTT
1 CAGCATATATACAACAAATTGAGCAGCATTT
36514126 AAGCATCAAA
Statistics
Matches: 284, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
140 70 0.25
141 214 0.75
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (141 bp):
CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
ATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATAC
AACAAATTGGG
Found at i:36513954 original size:211 final size:212
Alignment explanation
Indices: 36513673--36514125 Score: 775
Period size: 211 Copynumber: 2.1 Consensus size: 212
36513663 CCAAACTAGA
*
36513673 CAGCATATATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
36513738 ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
66 ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
* *
36513803 AACCATTTGGGCAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCAT
131 AACAATTTGGGCAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCAT
*
36513868 ATATACAACAAATTGGG
196 ATATACAACAAATTGAG
* * * * *
36513885 CAGCATATATATACCAAATTGAGCTGCATTTTTACATC-AAAATTGGACAGCATATATACTACAA
1 CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
36513949 ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
66 ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
* *
36514014 AACAATTTGGGTAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCCT
131 AACAATTTGGGCAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCAT
*
36514079 ATATGCAACAAATTGAG
196 ATATACAACAAATTGAG
*
36514096 CAGTATATATACAACAAATTG-GCAGCATTT
1 CAGCATATATACAACAAATTGAGCAGCATTT
36514126 AAGCATCAAA
Statistics
Matches: 225, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
210 8 0.04
211 184 0.82
212 33 0.15
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (212 bp):
CAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAA
ATTGGGCAGCATATATATACCAAATTGAGCCGCATTTTTACATCAAAATTGGACAGCATATATAC
AACAATTTGGGCAGCATAAATACAAAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCAT
ATATACAACAAATTGAG
Found at i:36513975 original size:23 final size:23
Alignment explanation
Indices: 36513560--36514123 Score: 353
Period size: 23 Copynumber: 24.1 Consensus size: 23
36513550 GACAGCATAT
* *
36513560 ATATATACAACAATTTGGGCAGC
1 ATATATACACCAAATTGGGCAGC
* * * * * *
36513583 ATTTATATACCTAACTAGACAGC
1 ATATATACACCAAATTGGGCAGC
* *
36513606 AT-TTTAACACCAAAATTTGGACAGC
1 ATATAT-ACACC-AAA-TTGGGCAGC
* *
36513631 ATATATACAACAATTTGGGCAGC
1 ATATATACACCAAATTGGGCAGC
* * * * *
36513654 ATTTATATACCAAACTAGACAGC
1 ATATATACACCAAATTGGGCAGC
** *
36513677 ATATATACAAAAAATTGAGCAGC
1 ATATATACACCAAATTGGGCAGC
* * *
36513700 ATTTTTACACCAAAAATTGGACAGC
1 ATATATACACC--AAATTGGGCAGC
*
36513725 ATATATACAACAAATTGGGCAGC
1 ATATATACACCAAATTGGGCAGC
* * *
36513748 ATATATATACCAAATTGAGCCGC
1 ATATATACACCAAATTGGGCAGC
* * * *
36513771 ATTTTTACATCAAAATTGGACAGC
1 ATATATACA-CCAAATTGGGCAGC
*
36513795 ATATATACAACC-ATTTGGGCAGC
1 ATATATAC-ACCAAATTGGGCAGC
* * *
36513818 ATAAATACAACAAATTGAGCAGC
1 ATATATACACCAAATTGGGCAGC
* * *
36513841 ATTTTTACACCAAAAATTGGACAGC
1 ATATATACACC--AAATTGGGCAGC
*
36513866 ATATATACAACAAATTGGGCAGC
1 ATATATACACCAAATTGGGCAGC
* * *
36513889 ATATATATACCAAATTGAGCTGC
1 ATATATACACCAAATTGGGCAGC
* * * *
36513912 ATTTTTACATCAAAATTGGACAGC
1 ATATATACA-CCAAATTGGGCAGC
36513936 ATATATACTA-CAAATTGGGCAGC
1 ATATATAC-ACCAAATTGGGCAGC
* * *
36513959 ATATATATACCAAATTGAGCCGC
1 ATATATACACCAAATTGGGCAGC
* * * *
36513982 ATTTTTACATCAAAATTGGACAGC
1 ATATATACA-CCAAATTGGGCAGC
* * *
36514006 ATATATACAACAATTTGGGTAGC
1 ATATATACACCAAATTGGGCAGC
* ** *
36514029 ATAAATACAAAAAATTGAGCAGC
1 ATATATACACCAAATTGGGCAGC
* * *
36514052 ATTTTTACACCAAAAATTGGACAGC
1 ATATATACACC--AAATTGGGCAGC
* * * * *
36514077 CTATATGCAACAAATTGAGCAGT
1 ATATATACACCAAATTGGGCAGC
*
36514100 ATATATACAACAAATT-GGCAGC
1 ATATATACACCAAATTGGGCAGC
36514122 AT
1 AT
36514124 TTAAGCATCA
Statistics
Matches: 396, Mismatches: 128, Indels: 35
0.71 0.23 0.06
Matches are distributed among these distances:
22 11 0.03
23 262 0.66
24 54 0.14
25 67 0.17
26 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
ATATATACACCAAATTGGGCAGC
Found at i:36514882 original size:28 final size:28
Alignment explanation
Indices: 36514849--36514946 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
36514839 TAATAAGTTT
36514849 GCACACTTAGTGCTTAATAATAAATCTC
1 GCACACTTAGTGCTTAATAATAAATCTC
*
36514877 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATAAATCTC
* *
36514905 GCACACTTAGTGCTTTACAATTAAA-CTC
1 GCACACTTAGTGCTTAATAA-TAAATCTC
36514933 GCACACTTAGTGCT
1 GCACACTTAGTGCT
36514947 AATCTCATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
28 62 0.95
29 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATAAATCTC
Found at i:36516480 original size:14 final size:14
Alignment explanation
Indices: 36516461--36516498 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
36516451 AAATGTCCAC
36516461 TATTTTATAACTAT
1 TATTTTATAACTAT
36516475 TATTTTATAACTAT
1 TATTTTATAACTAT
36516489 TATTTTATAA
1 TATTTTATAA
36516499 TTGCTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTTATAACTAT
Found at i:36526239 original size:6 final size:6
Alignment explanation
Indices: 36526228--36526261 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36526218 TAACTTCAAA
* *
36526228 ATTTTT ATTTTT ATTTTT ATTTTC ATTTTA ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
36526262 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:36526278 original size:13 final size:12
Alignment explanation
Indices: 36526227--36526280 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
36526217 TTAACTTCAA
*
36526227 AATTTTTATTTT
1 AATTTTTAATTT
* *
36526239 TATTTTTATTTT
1 AATTTTTAATTT
*
36526251 CA-TTTTAATTT
1 AATTTTTAATTT
36526262 AATTTTTAATGTT
1 AATTTTTAAT-TT
36526275 AATTTT
1 AATTTT
36526281 ACTTGTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
11 9 0.25
12 19 0.53
13 8 0.22
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
AATTTTTAATTT
Found at i:36532713 original size:34 final size:31
Alignment explanation
Indices: 36532675--36532797 Score: 95
Period size: 34 Copynumber: 3.7 Consensus size: 31
36532665 GCTACCGAAT
*
36532675 TGATCTGTTATAAGCATGCTTATTGCTATCGTAA
1 TGATCTATTATAAGCATG-TTATTGCTA-C-TAA
* * *
36532709 TGATCTATTATAAGTATGATAATTTCTACTATA
1 TGATCTATTATAAGCATG-TTATTGCTACTA-A
* * *
36532742 TCGA-CGTGTTATAAGTATGTTATTGCTACCTTAT
1 T-GATC-TATTATAAGCATGTTATTGCTA-C-TAA
36532776 TGATCTATTATAAGCATGTTAT
1 TGATCTATTATAAGCATGTTAT
36532798 GTTACATTGC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
32 2 0.03
33 28 0.39
34 40 0.56
35 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (31 bp):
TGATCTATTATAAGCATGTTATTGCTACTAA
Found at i:36532811 original size:17 final size:17
Alignment explanation
Indices: 36532789--36532827 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
36532779 TCTATTATAA
36532789 GCATGTTATGTTACATT
1 GCATGTTATGTTACATT
36532806 GCATGTTATGTTACATT
1 GCATGTTATGTTACATT
36532823 GCATG
1 GCATG
36532828 GGGTGGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (17 bp):
GCATGTTATGTTACATT
Found at i:36532935 original size:48 final size:48
Alignment explanation
Indices: 36532858--36533087 Score: 189
Period size: 48 Copynumber: 4.8 Consensus size: 48
36532848 AGGAAGTGTG
* * * ** *
36532858 AACAATTTATTTGCACGACCAGT-GATTCATCCACAATGTATTTTAGTTG
1 AACAGTTTATCTGCACAACCAGTAG-TTCATCCACAACATATTTTAG-TC
* *
36532907 AA-AGTTTATTTGCACAACCAGTAGTTCATCCACAAAATATTTTAGTC
1 AACAGTTTATCTGCACAACCAGTAGTTCATCCACAACATATTTTAGTC
* * * *
36532954 AACAATTTATCTCCA-ATGACCAATGGTTCATCCACAACATATTTTAGTC
1 AACAGTTTATCTGCACA--ACCAGTAGTTCATCCACAACATATTTTAGTC
* * * *
36533003 AACAGTTTATCTGCATAACCAGTAGTTCATCCGCAACGTGTTTTAGTC
1 AACAGTTTATCTGCACAACCAGTAGTTCATCCACAACATATTTTAGTC
** * * *
36533051 AGTATTTTATCTACA-ATGACCAGTGGTTCATCCACAA
1 AACAGTTTATCTGCACA--ACCAGTAGTTCATCCACAA
36533088 TGTATTAACA
Statistics
Matches: 150, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
47 5 0.03
48 83 0.55
49 61 0.41
50 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (48 bp):
AACAGTTTATCTGCACAACCAGTAGTTCATCCACAACATATTTTAGTC
Found at i:36532996 original size:49 final size:49
Alignment explanation
Indices: 36532923--36533087 Score: 197
Period size: 49 Copynumber: 3.4 Consensus size: 49
36532913 TATTTGCACA
* * *
36532923 ACCAGTAGTTCATCCACAAAATATTTTAGTCAACAATTTATCTCCAATG
1 ACCAGTGGTTCATCCACAACATATTTTAGTCAACAATTTATCTACAATG
* * * *
36532972 ACCAATGGTTCATCCACAACATATTTTAGTCAACAGTTTATCTGC-ATA
1 ACCAGTGGTTCATCCACAACATATTTTAGTCAACAATTTATCTACAATG
* * * * ** *
36533020 ACCAGTAGTTCATCCGCAACGTGTTTTAGTCAGTATTTTATCTACAATG
1 ACCAGTGGTTCATCCACAACATATTTTAGTCAACAATTTATCTACAATG
36533069 ACCAGTGGTTCATCCACAA
1 ACCAGTGGTTCATCCACAA
36533088 TGTATTAACA
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 38 0.39
49 59 0.61
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (49 bp):
ACCAGTGGTTCATCCACAACATATTTTAGTCAACAATTTATCTACAATG
Found at i:36533047 original size:97 final size:97
Alignment explanation
Indices: 36532874--36533087 Score: 277
Period size: 97 Copynumber: 2.2 Consensus size: 97
36532864 TTATTTGCAC
* ** * *
36532874 GACCAGTGATTCATCCACAATGTATTTTAGTTGAAAGTTTATTTGCACAACCAGTAGTTCATCCA
1 GACCAGTGGTTCATCCACAACATATTTTAGTTCAAAGTTTATCTGCACAACCAGTAGTTCATCCA
*
36532939 CAAAATATTTTAGTCAACAATTTATCTCCAAT
66 CAAAATATTTTAGTCAACAATTTATCTACAAT
* *
36532971 GACCAATGGTTCATCCACAACATATTTTAG-TCAACAGTTTATCTGCATAACCAGTAGTTCATCC
1 GACCAGTGGTTCATCCACAACATATTTTAGTTCAA-AGTTTATCTGCACAACCAGTAGTTCATCC
* ** * ** *
36533035 GCAACGTGTTTTAGTCAGTATTTTATCTACAAT
65 ACAAAATATTTTAGTCAACAATTTATCTACAAT
36533068 GACCAGTGGTTCATCCACAA
1 GACCAGTGGTTCATCCACAA
36533088 TGTATTAACA
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
96 3 0.03
97 97 0.97
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (97 bp):
GACCAGTGGTTCATCCACAACATATTTTAGTTCAAAGTTTATCTGCACAACCAGTAGTTCATCCA
CAAAATATTTTAGTCAACAATTTATCTACAAT
Found at i:36538320 original size:6 final size:6
Alignment explanation
Indices: 36538309--36538338 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36538299 ACGCTTAAAA
36538309 GATAAG GATAAG GATAAG GATAAG GATAAG
1 GATAAG GATAAG GATAAG GATAAG GATAAG
36538339 CATCTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
GATAAG
Found at i:36548744 original size:3 final size:3
Alignment explanation
Indices: 36548736--36548776 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
36548726 AAATTAGTTA
36548736 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36548777 AAGGATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36549120 original size:31 final size:30
Alignment explanation
Indices: 36549082--36549143 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 30
36549072 AAATTACAAG
36549082 AGTAATTGAATCCTAATAAAACTCTTTCAAA
1 AGTAATTGAATCCTAATAAAACTCTTT-AAA
36549113 AGTAATTGAATCCTAATAAAACTCTTTAAA
1 AGTAATTGAATCCTAATAAAACTCTTTAAA
36549143 A
1 A
36549144 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (30 bp):
AGTAATTGAATCCTAATAAAACTCTTTAAA
Found at i:36554692 original size:12 final size:12
Alignment explanation
Indices: 36554675--36554715 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
36554665 TAGGCAACTT
*
36554675 TTTTTTTTGCGG
1 TTTTTTTTGCGC
36554687 TTTTTTTTGCGC
1 TTTTTTTTGCGC
36554699 TTTTTTTTGCGC
1 TTTTTTTTGCGC
36554711 TTTTT
1 TTTTT
36554716 GCTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGCGC
Found at i:36554931 original size:3 final size:3
Alignment explanation
Indices: 36554923--36554951 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36554913 AAATTCGTTA
36554923 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36554952 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:36555291 original size:31 final size:31
Alignment explanation
Indices: 36555253--36555314 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36555243 AGGCAAATTA
36555253 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
36555284 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
36555315 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:36567340 original size:9 final size:9
Alignment explanation
Indices: 36567326--36567361 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
36567316 GATAAAGTAA
36567326 AATTAAATT
1 AATTAAATT
*
36567335 AATTAAAGT
1 AATTAAATT
*
36567344 AATCAAATT
1 AATTAAATT
36567353 AATTAAATT
1 AATTAAATT
36567362 TAATATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (9 bp):
AATTAAATT
Found at i:36570359 original size:58 final size:58
Alignment explanation
Indices: 36570282--36570411 Score: 183
Period size: 58 Copynumber: 2.2 Consensus size: 58
36570272 ATCACTTTAA
* * * *
36570282 TATTAAATTTAATATAATATTTATCTT-GATAAATATTATA-TTAATTTAATATTAAATC
1 TATTAAA-ATAATAGAATATTTATCTTAGATAAACATTAAATTTAATTTAATATTAAA-C
36570340 TTATTAAAATAATAGAATATTTATCTTAGATAAACATTAAATTTAATTTAATATTAAAC
1 -TATTAAAATAATAGAATATTTATCTTAGATAAACATTAAATTTAATTTAATATTAAAC
36570399 TATTAAAATAATA
1 TATTAAAATAATA
36570412 TTATTTTTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
58 30 0.46
59 19 0.29
60 16 0.25
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (58 bp):
TATTAAAATAATAGAATATTTATCTTAGATAAACATTAAATTTAATTTAATATTAAAC
Found at i:36576399 original size:21 final size:22
Alignment explanation
Indices: 36576366--36576408 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36576356 ACACAATCCC
*
36576366 TTTAAAAATATT-ATTTTTTTG
1 TTTAAAAATATTAATATTTTTG
36576387 TTTAACAAA-ATTAATATTTTTG
1 TTTAA-AAATATTAATATTTTTG
36576409 AAGCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAAAATATTAATATTTTTG
Found at i:36582875 original size:22 final size:22
Alignment explanation
Indices: 36582850--36582897 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
36582840 ACAATAACTC
36582850 TTTTTTTTTGAAAACAC-AAAA
1 TTTTTTTTTGAAAACACGAAAA
*
36582871 TTTTTTTTTGAAAACACGGAAA
1 TTTTTTTTTGAAAACACGAAAA
36582893 TTTTT
1 TTTTT
36582898 GAAATACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (22 bp):
TTTTTTTTTGAAAACACGAAAA
Found at i:36582914 original size:18 final size:18
Alignment explanation
Indices: 36582853--36582930 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 18
36582843 ATAACTCTTT
*
36582853 TTTTTTGAAAACACAAAA
1 TTTTTTGAAAACACAGAA
*
36582871 TTTTTTTTTGAAAACACGGAA
1 ---TTTTTTGAAAACACAGAA
*
36582892 ATTTTTGAAATAC-CAGAA
1 TTTTTTGAAA-ACACAGAA
*
36582910 -TTTTTG-AAGCAC-GAA
1 TTTTTTGAAAACACAGAA
36582925 TTTTTT
1 TTTTTT
36582931 TTAATTTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.08
16 8 0.16
17 6 0.12
18 13 0.27
19 2 0.04
21 16 0.33
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (18 bp):
TTTTTTGAAAACACAGAA
Found at i:36583450 original size:28 final size:27
Alignment explanation
Indices: 36583419--36583474 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
36583409 ATTTTGGGCC
*
36583419 TTTTCCCTACCTTT-TTCCTTTTTCTTT
1 TTTTTCCTACCTTTCTTCCTTTTT-TTT
* *
36583446 TTTTTTCTTCCTTTCTTCCTTTTTTTT
1 TTTTTCCTACCTTTCTTCCTTTTTTTT
36583473 TT
1 TT
36583475 CGGCTGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTCCTACCTTTCTTCCTTTTTTTT
Found at i:36583458 original size:20 final size:22
Alignment explanation
Indices: 36583433--36583473 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36583423 CCCTACCTTT
36583433 TTCCTTT-TT-CTTTTTTTTTC
1 TTCCTTTCTTCCTTTTTTTTTC
36583453 TTCCTTTCTTCCTTTTTTTTT
1 TTCCTTTCTTCCTTTTTTTTT
36583474 TCGGCTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCCTTTCTTCCTTTTTTTTTC
Found at i:36583953 original size:23 final size:21
Alignment explanation
Indices: 36583918--36583988 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 21
36583908 CTCTTCCCCC
36583918 CTTTTCTTCTTTTT-CTTCTTTG
1 CTTTTCTT-TTTTTACTT-TTTG
36583940 CTCTTTCTTTTTTTCACTTTTTTG
1 CT-TTTCTTTTTTT-AC-TTTTTG
* *
36583964 CTTGTTGTTTTTTTCCTTTTTG
1 CTT-TTCTTTTTTTACTTTTTG
36583986 CTT
1 CTT
36583989 CTTGGTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
24 16 0.38
25 2 0.05
ACGTcount: A:0.01, C:0.20, G:0.07, T:0.72
Consensus pattern (21 bp):
CTTTTCTTTTTTTACTTTTTG
Found at i:36583963 original size:24 final size:22
Alignment explanation
Indices: 36583918--36583988 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
36583908 CTCTTCCCCC
*
36583918 CTTTTCTTCTTTTT-CTTCTTTG
1 CTTTTCTT-TTTTTCCTTTTTTG
36583940 CTCTTTCTTTTTTTCACTTTTTTG
1 CT-TTTCTTTTTTTC-CTTTTTTG
*
36583964 CTTGTTGTTTTTTTCC-TTTTTG
1 CTT-TTCTTTTTTTCCTTTTTTG
36583986 CTT
1 CTT
36583989 CTTGGTTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
24 19 0.44
ACGTcount: A:0.01, C:0.20, G:0.07, T:0.72
Consensus pattern (22 bp):
CTTTTCTTTTTTTCCTTTTTTG
Found at i:36584375 original size:30 final size:29
Alignment explanation
Indices: 36584303--36584508 Score: 135
Period size: 30 Copynumber: 6.9 Consensus size: 29
36584293 TAAAGGGTGC
* *
36584303 AAAGTTTCTGGGGCAAAAATGTAATTTTAGG
1 AAAGTTT-AGGGGCCAAAATGTAATTTTA-G
* *
36584334 AAAATAT-GGGGCCAAAATGTAATTTATAG
1 AAAGTTTAGGGGCCAAAATGTAATTT-TAG
* * *
36584363 AAAGTTTAGGGGCCCAAATGAAAATTTAAG
1 AAAGTTTAGGGGCCAAAATG-TAATTTTAG
* ** * * *
36584393 AAAGTTAAAAGGTCAAAATGTAAATGTAGG
1 AAAGTTTAGGGGCCAAAATGTAATTTTA-G
* * *
36584423 AAAGTTTAGGGTCCAAAATGCAATTTTAA
1 AAAGTTTAGGGGCCAAAATGTAATTTTAG
* * ** *
36584452 AAAGTTAAGGGGTCAAAAAATAATTTTAAA
1 AAAGTTTAGGGGCCAAAATGTAATTTT-AG
* * *
36584482 AAAGTTTAAGGGTCAAAATGCAATTTT
1 AAAGTTTAGGGGCCAAAATGTAATTTT
36584509 TTATTTAAAA
Statistics
Matches: 133, Mismatches: 37, Indels: 11
0.73 0.20 0.06
Matches are distributed among these distances:
29 48 0.36
30 75 0.56
31 10 0.08
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (29 bp):
AAAGTTTAGGGGCCAAAATGTAATTTTAG
Found at i:36584468 original size:59 final size:60
Alignment explanation
Indices: 36584361--36584508 Score: 165
Period size: 59 Copynumber: 2.5 Consensus size: 60
36584351 TGTAATTTAT
* * * * **
36584361 AGAAAGTTTAGGGGCCCAAATGAAAATTTAAGAAAGTTAAAAGGTCAAAATGTAAATGTA
1 AGAAAGTTTAGGGTCCAAAATGCAATTTTAAGAAAGTTAAAAGGTCAAAAAATAAATGTA
* ** * *
36584421 GGAAAGTTTAGGGTCCAAAATGCAATTTTAA-AAAGTTAAGGGGTCAAAAAATAATTTTA
1 AGAAAGTTTAGGGTCCAAAATGCAATTTTAAGAAAGTTAAAAGGTCAAAAAATAAATGTA
*
36584480 AAAAAGTTTAAGGGT-CAAAATGCAATTTT
1 AGAAAGTTT-AGGGTCCAAAATGCAATTTT
36584509 TTATTTAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
59 43 0.58
60 31 0.42
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (60 bp):
AGAAAGTTTAGGGTCCAAAATGCAATTTTAAGAAAGTTAAAAGGTCAAAAAATAAATGTA
Found at i:36587446 original size:3 final size:3
Alignment explanation
Indices: 36587438--36587497 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
36587428 AATCACTTTT
36587438 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
36587486 TTA TTA TTA TTA
1 TTA TTA TTA TTA
36587498 AAGTTATTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36593460 original size:6 final size:6
Alignment explanation
Indices: 36593443--36593475 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
36593433 AAATTATATA
36593443 ATTAAC -TTAAC ATTAAC ATTAAC ATTAAC ATTA
1 ATTAAC ATTAAC ATTAAC ATTAAC ATTAAC ATTA
36593476 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAC
Found at i:36595692 original size:27 final size:26
Alignment explanation
Indices: 36595634--36595694 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
36595624 GACATTATGG
* ** *
36595634 TCATTTTACCCTATAGGGTTTTTTGG
1 TCATTTTACCCTATAGGGTATTACGA
*
36595660 TAATTTTACCCTATAGGGGTATTACGA
1 TCATTTTACCCTATA-GGGTATTACGA
36595687 TCATTTTA
1 TCATTTTA
36595695 AAAATATTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (26 bp):
TCATTTTACCCTATAGGGTATTACGA
Found at i:36606719 original size:81 final size:81
Alignment explanation
Indices: 36606583--36606741 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 81
36606573 TCCCAAGATA
* *
36606583 AGGCATCTCCCCAATTAGATCTGATAAATAGCATATTAGTCTTCCAATCAATTTGATCATTTCCG
1 AGGCATCTCCCCAATTAGATATGATAAATAGCATATTAGTCCTCCAATCAATTTGATCATTTCCG
36606648 ATTAGACTAAGGAATT
66 ATTAGACTAAGGAATT
* **
36606664 AGGCATCTCCCCAATTGGATATGATAAATAGCATATTAGTCCTCCAATCGGTTTGATCATTTCCG
1 AGGCATCTCCCCAATTAGATATGATAAATAGCATATTAGTCCTCCAATCAATTTGATCATTTCCG
36606729 ATTAGACTAAGGA
66 ATTAGACTAAGGA
36606742 CATGTTTAGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (81 bp):
AGGCATCTCCCCAATTAGATATGATAAATAGCATATTAGTCCTCCAATCAATTTGATCATTTCCG
ATTAGACTAAGGAATT
Found at i:36609323 original size:16 final size:16
Alignment explanation
Indices: 36609297--36609334 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36609287 ATGGTGAGAG
*
36609297 TCTTAAATTAGTTTCCA
1 TCTT-AATTAGTTACCA
36609314 TCTTAATTAGTTACCA
1 TCTTAATTAGTTACCA
36609330 TCTTA
1 TCTTA
36609335 GTTGCACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (16 bp):
TCTTAATTAGTTACCA
Found at i:36612017 original size:50 final size:50
Alignment explanation
Indices: 36611904--36612096 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
36611894 GATCATAACA
* **
36611904 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
36611955 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
36612005 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36612055 TGCCAACGCCATGTCCCAGACATGGTCTTTCATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36612097 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 98 0.75
51 33 0.25
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36613199 original size:33 final size:33
Alignment explanation
Indices: 36613157--36613223 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36613147 AAGTTAGTTT
36613157 ATTATTTATCAAAAGCAAAAGTGGAATGAACTC
1 ATTATTTATCAAAAGCAAAAGTGGAATGAACTC
36613190 ATTATTTATCAAAAGCAAAAGTGGAATGAACTC
1 ATTATTTATCAAAAGCAAAAGTGGAATGAACTC
36613223 A
1 A
36613224 CCAAAAACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (33 bp):
ATTATTTATCAAAAGCAAAAGTGGAATGAACTC
Found at i:36620830 original size:30 final size:30
Alignment explanation
Indices: 36620796--36620857 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
36620786 CTCCATCTAA
36620796 ACTCAATCCCATCGAATCCAAGAATTTACG
1 ACTCAATCCCATCGAATCCAAGAATTTACG
*
36620826 ACTCAATCCCATCGAATCCAAGAATTTCCG
1 ACTCAATCCCATCGAATCCAAGAATTTACG
36620856 AC
1 AC
36620858 GCCGTTCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.32, G:0.10, T:0.23
Consensus pattern (30 bp):
ACTCAATCCCATCGAATCCAAGAATTTACG
Found at i:36625825 original size:98 final size:98
Alignment explanation
Indices: 36625705--36625899 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
36625695 AAAAAAATAA
*
36625705 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
36625770 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
36625803 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
36625868 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
36625900 AGTTTTATTG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:36635984 original size:24 final size:24
Alignment explanation
Indices: 36635955--36636003 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
36635945 TAGCTAAAGG
36635955 ACAAATGTGACAATAGGAAATACA
1 ACAAATGTGACAATAGGAAATACA
*
36635979 ACAAATGTGACAATGGGAAATACA
1 ACAAATGTGACAATAGGAAATACA
36636003 A
1 A
36636004 TCATTGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.16
Consensus pattern (24 bp):
ACAAATGTGACAATAGGAAATACA
Found at i:36640187 original size:32 final size:32
Alignment explanation
Indices: 36640151--36640211 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
36640141 TGAATAAAAA
*
36640151 TATATTAAATTATTAAATTAAAAATAATATAT
1 TATATTAAATTATTAAAATAAAAATAATATAT
* *
36640183 TATATTATATTATTAAAATAATAATAATA
1 TATATTAAATTATTAAAATAAAAATAATA
36640212 GAAGAAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TATATTAAATTATTAAAATAAAAATAATATAT
Found at i:36640197 original size:27 final size:26
Alignment explanation
Indices: 36640149--36640205 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
36640139 AATGAATAAA
36640149 AATATATTAAATTATTAAATTAAAAAT
1 AATATATTAAATTATTAAATT-AAAAT
* *
36640176 AATATATTATATTA-TATTATTAAAAT
1 AATATATTAAATTATTA-AATTAAAAT
36640202 AATA
1 AATA
36640206 ATAATAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATATATTAAATTATTAAATTAAAAT
Found at i:36643492 original size:5 final size:5
Alignment explanation
Indices: 36643482--36643517 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
36643472 TAGGCGATTG
36643482 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
1 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
36643518 TTTAGCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.61, T:0.19
Consensus pattern (5 bp):
GGTGC
Found at i:36645222 original size:24 final size:24
Alignment explanation
Indices: 36645176--36645222 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36645166 ACACCAAATG
*
36645176 AAAATAATTACATAGTAAATTTAT
1 AAAATAATTAAATAGTAAATTTAT
*
36645200 AAAATAAATTAAATA-TAATTTTA
1 AAAAT-AATTAAATAGTAAATTTA
36645223 GTTGAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATAATTAAATAGTAAATTTAT
Found at i:36645526 original size:12 final size:12
Alignment explanation
Indices: 36645509--36645534 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36645499 AGGATATGCA
36645509 ATCTTAGATATG
1 ATCTTAGATATG
36645521 ATCTTAGATATG
1 ATCTTAGATATG
36645533 AT
1 AT
36645535 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:36645557 original size:19 final size:20
Alignment explanation
Indices: 36645521--36645568 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
36645511 CTTAGATATG
36645521 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
36645542 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
36645561 ATCTTAGA
1 ATCTTAGA
36645569 AGATACGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:36645916 original size:3 final size:3
Alignment explanation
Indices: 36645908--36645946 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
36645898 TGTTATTAAG
* * *
36645908 TTA TTA TTA TTG TTA TTA TTA TCA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36645947 CTATANNNNN
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:36645922 original size:20 final size:20
Alignment explanation
Indices: 36645866--36645925 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
36645856 CTTTTTTTAT
* *
36645866 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
36645888 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
36645908 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
36645926 TTATCATTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:36646142 original size:22 final size:20
Alignment explanation
Indices: 36646091--36646144 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
36646081 TTAATATATG
*
36646091 TAATTATTATTATTTGTTTA
1 TAATTATAATTATTTGTTTA
*
36646111 TATATATATAATTATCTTTTTTA
1 TA-AT-TATAATTAT-TTGTTTA
36646134 TAATCTATAAT
1 TAAT-TATAAT
36646145 ATGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 16 0.57
23 8 0.29
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTATAATTATTTGTTTA
Found at i:36646335 original size:18 final size:18
Alignment explanation
Indices: 36646314--36646350 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36646304 GCTTTGCCTG
*
36646314 TTATTGATTTGTTTTTAT
1 TTATTGATTTGTTTATAT
*
36646332 TTATTTATTTGTTTATAT
1 TTATTGATTTGTTTATAT
36646350 T
1 T
36646351 ATTTCTATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (18 bp):
TTATTGATTTGTTTATAT
Found at i:36648011 original size:6 final size:6
Alignment explanation
Indices: 36648000--36648026 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36647990 TAATCATGCC
36648000 AGGTTT AGGTTT AGGTTT AGGTTT AGG
1 AGGTTT AGGTTT AGGTTT AGGTTT AGG
36648027 GTTTCCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (6 bp):
AGGTTT
Found at i:36649399 original size:20 final size:19
Alignment explanation
Indices: 36649363--36649405 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
36649353 TCACGTTTGT
*
36649363 ATTATTTTCTCAAAATTTTA
1 ATTATTTTCT-AAAAATTTA
36649383 ATTATTTT-TAAATAATTTA
1 ATTATTTTCTAAA-AATTTA
36649402 ATTA
1 ATTA
36649406 AAAGTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTTTCTAAAAATTTA
Found at i:36658053 original size:43 final size:43
Alignment explanation
Indices: 36657999--36658385 Score: 564
Period size: 43 Copynumber: 9.0 Consensus size: 43
36657989 TTTTCTTTAC
* * *
36657999 AACGCCGCTATAGACCATGATCTTTAGCGGCGCTTATCCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* *
36658042 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGACTAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* * *
36658085 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGACGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* * *
36658128 AACGCCACTATAGACCATGGTCTTTCGCGGCGCTTAGACGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* * *
36658171 AACGCCACTATAGACCATGGTCTATAGCAGCGCTTAGCCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* *
36658214 AACGCCACTATAGACCATGGT-TATAGCGGCGCTTAGCCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
36658256 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* *
36658299 AACGCCACTATAGACCATGGTCTTTTGCGGCGCTTAG-GAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
* *
36658341 AAAGCCACTATAGACCATGGTCTTTAGCGGCACTTATG-CAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTA-GCCAAAA
36658384 AA
1 AA
36658386 TGCCGCTAAT
Statistics
Matches: 322, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
42 78 0.24
43 244 0.76
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (43 bp):
AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGCCAAAA
Found at i:36658723 original size:21 final size:21
Alignment explanation
Indices: 36658697--36658762 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
36658687 AGCTGTTCTG
36658697 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
*
36658718 CTTCCCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
* * * *
36658739 CTTCTCTCGCGGCCGCATCTA
1 CTTCCCTCGCTGCAGCCTCTA
36658760 CTT
1 CTT
36658763 TAAGCTGCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.08, C:0.45, G:0.17, T:0.30
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:36658820 original size:66 final size:66
Alignment explanation
Indices: 36658733--36658879 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
36658723 CTCGCTGCAG
*
36658733 CCTCTGCTTCTCTCGCGGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCGGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
36658796 GAA
64 GAA
** * * *
36658799 CCTCAGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCGGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
36658864 A
66 A
36658865 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
36658880 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCGGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:36658895 original size:66 final size:66
Alignment explanation
Indices: 36658733--36658902 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 66
36658723 CTCGCTGCAG
* ** ** *
36658733 CCTCTGCTTCTCTCGCGGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTG
1 CCTCAGCTTCTCTCGATGCCGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTG
36658797 AA
65 AA
* * *
36658799 CCTCAGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGATGCCGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTG
36658863 AA
65 AA
** *
36658865 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CCTCAGCTTCTCTCGATGCCGCATCCGCTTTAAGTTGT
36658903 GTAATTTGCT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 86 0.95
67 4 0.04
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGATGCCGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGA
A
Found at i:36664551 original size:19 final size:18
Alignment explanation
Indices: 36664521--36664571 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 18
36664511 TCCATAAATA
36664521 TATTA-ATAAGTTATGTCG
1 TATTATATAAGTTATGT-G
*
36664539 TATTATGTAAGTTA--TG
1 TATTATATAAGTTATGTG
36664555 TATTATATAAGTTATGT
1 TATTATATAAGTTATGT
36664572 AAGATATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 14 0.50
17 1 0.04
18 6 0.21
19 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (18 bp):
TATTATATAAGTTATGTG
Found at i:36664555 original size:9 final size:9
Alignment explanation
Indices: 36664541--36664581 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
36664531 TTATGTCGTA
36664541 TTATGTAAG
1 TTATGTAAG
36664550 TTATGT-A-
1 TTATGTAAG
*
36664557 TTATATAAG
1 TTATGTAAG
36664566 TTATGTAAG
1 TTATGTAAG
*
36664575 ATATGTA
1 TTATGTA
36664582 TCATCTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
7 5 0.19
8 2 0.07
9 20 0.74
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36664559 original size:16 final size:16
Alignment explanation
Indices: 36664538--36664665 Score: 67
Period size: 16 Copynumber: 8.2 Consensus size: 16
36664528 AAGTTATGTC
*
36664538 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
36664554 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
* *
36664570 GTA--AGATATG-TAT
1 GTATTATATAAGTTAT
* *
36664583 -CATCT-TA-AAATATAT
1 GTAT-TATATAAGT-TAT
*
36664598 ATATTA-ATAAGTTATGT
1 GTATTATATAAGTTA--T
36664615 CGTATTATATAAGTTAT
1 -GTATTATATAAGTTAT
*
36664632 GTATTA-ACTGAGTTAT
1 GTATTATA-TAAGTTAT
*
36664648 GAATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
36664663 GTA
1 GTA
36664666 AGTCGCATGG
Statistics
Matches: 85, Mismatches: 14, Indels: 27
0.67 0.11 0.21
Matches are distributed among these distances:
12 1 0.01
13 4 0.05
14 6 0.07
15 17 0.20
16 42 0.49
17 2 0.02
18 5 0.06
19 8 0.09
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:36664648 original size:78 final size:78
Alignment explanation
Indices: 36664477--36664637 Score: 245
Period size: 78 Copynumber: 2.1 Consensus size: 78
36664467 AAAAATGTAA
* * **
36664477 GTATTA-ATAAATTATGTAAGTTATGTATCATTTATCCATAAATATATTAATAAGTTATGTCGTA
1 GTATTATATAAGTTATGTAAGATATGTATCATTTATAAATAAATATATTAATAAGTTATGTCGTA
*
36664541 TTATGTAAGTTAT
66 TTATATAAGTTAT
*
36664554 GTATTATATAAGTTATGTAAGATATGTATCATCTTA-AAATATATATATTAATAAGTTATGTCGT
1 GTATTATATAAGTTATGTAAGATATGTATCAT-TTATAAATAAATATATTAATAAGTTATGTCGT
36664618 ATTATATAAGTTAT
65 ATTATATAAGTTAT
36664632 GTATTA
1 GTATTA
36664638 ACTGAGTTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 6 0.08
78 67 0.88
79 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (78 bp):
GTATTATATAAGTTATGTAAGATATGTATCATTTATAAATAAATATATTAATAAGTTATGTCGTA
TTATATAAGTTAT
Found at i:36664719 original size:9 final size:9
Alignment explanation
Indices: 36664702--36664886 Score: 100
Period size: 9 Copynumber: 21.9 Consensus size: 9
36664692 TAAGTATAAT
*
36664702 TAAGCTATG
1 TAAGTTATG
36664711 TAAGTTATG
1 TAAGTTATG
*
36664720 TAAGTTATA
1 TAAGTTATG
*
36664729 TAAGTTGTG
1 TAAGTTATG
*
36664738 T-A-TAATG
1 TAAGTTATG
36664745 TAAGTTATG
1 TAAGTTATG
*
36664754 AAAGTTATATG
1 TAAG-T-TATG
36664765 T-A-TTATG
1 TAAGTTATG
36664772 TAAGTTAT-
1 TAAGTTATG
*
36664780 T-A--TAAG
1 TAAGTTATG
*
36664786 TAAGTTATA
1 TAAGTTATG
36664795 TAAG-T-TG
1 TAAGTTATG
36664802 TAAGTTATG
1 TAAGTTATG
36664811 TAAGTTATG
1 TAAGTTATG
*
36664820 TATA-ATAT-
1 TA-AGTTATG
36664828 TAA-TTAAT-
1 TAAGTT-ATG
36664836 TAAGTTATG
1 TAAGTTATG
*
36664845 TAATTTATG
1 TAAGTTATG
*
36664854 TATA-ATAT-
1 TA-AGTTATG
36664862 TAA-TTAAT-
1 TAAGTT-ATG
36664870 TAAGTTATG
1 TAAGTTATG
36664879 TAAGTTAT
1 TAAGTTAT
36664887 ATATAATATT
Statistics
Matches: 138, Mismatches: 18, Indels: 40
0.70 0.09 0.20
Matches are distributed among these distances:
5 2 0.01
6 1 0.01
7 20 0.14
8 25 0.18
9 82 0.59
10 4 0.03
11 4 0.03
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:36664798 original size:13 final size:14
Alignment explanation
Indices: 36664771--36664799 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36664761 TATGTATTAT
36664771 GTAAGTTATTATAA
1 GTAAGTTATTATAA
36664785 GTAAGTTA-TATAA
1 GTAAGTTATTATAA
36664798 GT
1 GT
36664800 TGTAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (14 bp):
GTAAGTTATTATAA
Found at i:36664806 original size:16 final size:16
Alignment explanation
Indices: 36664785--36664816 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36664775 GTTATTATAA
36664785 GTAAGTTATATAAGTT
1 GTAAGTTATATAAGTT
*
36664801 GTAAGTTATGTAAGTT
1 GTAAGTTATATAAGTT
36664817 ATGTATAATA
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:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
GTAAGTTATATAAGTT
Found at i:36664845 original size:34 final size:34
Alignment explanation
Indices: 36664802--36664899 Score: 178
Period size: 34 Copynumber: 2.9 Consensus size: 34
36664792 ATATAAGTTG
36664802 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
*
36664836 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
*
36664870 TAAGTTATGTAAGTTATATATAATATTAAT
1 TAAGTTATGTAAGTTATGTATAATATTAAT
36664900 GTAAGTTATG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATAATATTAATTAAT
Found at i:36664904 original size:22 final size:22
Alignment explanation
Indices: 36664876--36664917 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36664866 TAATTAAGTT
36664876 ATGTAAGTTATATATAATATTA
1 ATGTAAGTTATATATAATATTA
* *
36664898 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTATATATAATAT
36664918 AACAGCGTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATATATAATATTA
Found at i:36666642 original size:16 final size:16
Alignment explanation
Indices: 36666618--36666649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36666608 TATTTATTTC
*
36666618 TTAATTGTATCTTTTA
1 TTAACTGTATCTTTTA
36666634 TTAACTGTATCTTTTA
1 TTAACTGTATCTTTTA
36666650 ATTACTAAGT
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:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (16 bp):
TTAACTGTATCTTTTA
Found at i:36670105 original size:117 final size:117
Alignment explanation
Indices: 36669899--36670370 Score: 890
Period size: 117 Copynumber: 4.0 Consensus size: 117
36669889 TTGGGACACC
36669899 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
**
36669964 GCTAGACAGGTCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
66 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
36670016 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
36670081 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
66 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
36670133 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
36670198 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
66 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
*
36670250 AATAGAAGAAGAAAGGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
* * *
36670315 GCTAGACAGATCATAACAACCACAACATGATACATTTATACTTCTTAACCTT
66 GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
36670367 AATA
1 AATA
36670371 AGATAAATCT
Statistics
Matches: 349, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 349 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (117 bp):
AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
GCTAGACAGACCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
Found at i:36671148 original size:6 final size:6
Alignment explanation
Indices: 36671137--36671162 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36671127 CTTTTTCAGA
36671137 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
36671163 CATCACTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:36672075 original size:9 final size:9
Alignment explanation
Indices: 36672063--36672105 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
36672053 ATATTTAATC
36672063 AATTTTAAA
1 AATTTTAAA
36672072 AATTTTAAA
1 AATTTTAAA
**
36672081 AATTCAAAA
1 AATTTTAAA
36672090 AATATTTATAA
1 AAT-TTTA-AA
36672101 AATTT
1 AATTT
36672106 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 19 0.68
10 4 0.14
11 5 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:36672128 original size:8 final size:8
Alignment explanation
Indices: 36672109--36672173 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 8
36672099 AAAATTTATT
36672109 TTAAAA-A
1 TTAAAATA
36672116 TTAAAATA
1 TTAAAATA
36672124 TTAAAAATA
1 TT-AAAATA
36672133 TATAAAAATTA
1 T-T-AAAA-TA
36672144 TTGAAAATA
1 TT-AAAATA
*
36672153 GTGAAAATA
1 -TTAAAATA
*
36672162 TTAAAATT
1 TTAAAATA
36672170 TTAA
1 TTAA
36672174 TCAAATACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.12
8 13 0.27
9 15 0.31
10 12 0.24
11 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (8 bp):
TTAAAATA
Found at i:36672140 original size:11 final size:9
Alignment explanation
Indices: 36672118--36672167 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
36672108 TTTAAAAATT
36672118 AAAATATTA
1 AAAATATTA
36672127 AAAATATATA
1 AAAATAT-TA
*
36672137 AAAATTATTG
1 AAAA-TATTA
* *
36672147 AAAATAGTG
1 AAAATATTA
36672156 AAAATATTA
1 AAAATATTA
36672165 AAA
1 AAA
36672168 TTTTAATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
9 21 0.60
10 11 0.31
11 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (9 bp):
AAAATATTA
Found at i:36672418 original size:2 final size:2
Alignment explanation
Indices: 36672411--36672437 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36672401 GTAAAGATGC
36672411 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36672438 GGCCACATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36673042 original size:40 final size:40
Alignment explanation
Indices: 36672982--36673063 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
36672972 TAGATACGCA
* *
36672982 TCATGTTAGCACTACGGTGCTCCTGATAGTACT-TTTGTAC
1 TCATGTTAGCACTACAGTGCTCCTGATAGCA-TATTTGTAC
*
36673022 TCATGTTAGCATTACAGTGCTCCTGATAGCATATTTGTAC
1 TCATGTTAGCACTACAGTGCTCCTGATAGCATATTTGTAC
36673062 TC
1 TC
36673064 CTATTTGCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (40 bp):
TCATGTTAGCACTACAGTGCTCCTGATAGCATATTTGTAC
Found at i:36678948 original size:7 final size:7
Alignment explanation
Indices: 36678936--36678966 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
36678926 AATGTTTCGA
36678936 TTTTTAT
1 TTTTTAT
36678943 TTTTTAT
1 TTTTTAT
36678950 TTTTTAT
1 TTTTTAT
36678957 TTTTTAT
1 TTTTTAT
36678964 TTT
1 TTT
36678967 CCTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:36680129 original size:22 final size:20
Alignment explanation
Indices: 36680102--36680153 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
36680092 GTGTTCATCG
36680102 TTCTTTTTATTTGTATATATAT
1 TTCTTTTTATTT-TAT-TATAT
*
36680124 TTCTTTTTTATTTTATTTTAT
1 TTC-TTTTTATTTTATTATAT
*
36680145 TTATTTTTA
1 TTCTTTTTA
36680154 CTTAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 6 0.22
23 9 0.33
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (20 bp):
TTCTTTTTATTTTATTATAT
Found at i:36680135 original size:23 final size:21
Alignment explanation
Indices: 36680105--36680152 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
36680095 TTCATCGTTC
*
36680105 TTTTTATTTGTATATATATTTCT
1 TTTTTATTT-TAT-TATATTTAT
*
36680128 TTTTTATTTTATTTTATTTAT
1 TTTTTATTTTATTATATTTAT
36680149 TTTT
1 TTTT
36680153 ACTTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 3 0.13
23 9 0.39
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTATTATATTTAT
Found at i:36685975 original size:7 final size:7
Alignment explanation
Indices: 36685953--36686000 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
36685943 TGAGTCGTAA
36685953 AAAAATG
1 AAAAATG
*
36685960 ATGAAATG
1 A-AAAATG
36685968 AAAAATG
1 AAAAATG
36685975 AAAAAGTG
1 AAAAA-TG
*
36685983 -AAAATA
1 AAAAATG
36685989 AAAAATG
1 AAAAATG
36685996 AAAAA
1 AAAAA
36686001 AGTAAAATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.03
7 25 0.74
8 8 0.24
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:36685987 original size:21 final size:21
Alignment explanation
Indices: 36685963--36686009 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
36685953 AAAAATGATG
36685963 AAATGAAAAATG-AAAAAGTGA
1 AAATGAAAAATGAAAAAAGT-A
*
36685984 AAATAAAAAATGAAAAAAGTA
1 AAATGAAAAATGAAAAAAGTA
36686005 AAATG
1 AAATG
36686010 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (21 bp):
AAATGAAAAATGAAAAAAGTA
Found at i:36686110 original size:21 final size:21
Alignment explanation
Indices: 36686084--36686123 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36686074 GAAAAGGGTG
**
36686084 ACTCAAATTTTGATCAGAACA
1 ACTCAAATACTGATCAGAACA
36686105 ACTCAAATACTGATCAGAA
1 ACTCAAATACTGATCAGAA
36686124 TGGGGCATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (21 bp):
ACTCAAATACTGATCAGAACA
Found at i:36687734 original size:45 final size:45
Alignment explanation
Indices: 36687668--36687794 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 45
36687658 TAAAAAGTAG
** ** *
36687668 CAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCAAAGATAA
* * *
36687713 CGGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCAAAGATAA
* * *
36687758 CAGATCTTATCTTCCTGTATTGGCAGCGAGGTAGATC
1 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
36687795 GATGTCTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCAAAGATAA
Found at i:36688231 original size:50 final size:50
Alignment explanation
Indices: 36688074--36688352 Score: 193
Period size: 50 Copynumber: 5.6 Consensus size: 50
36688064 ATTGCATTTA
* ** * * *
36688074 AAAAGATTAAAGCCACAACGATGAATCTTACTTTCTTGGTGGTATAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGG
* * * * * * * ** * **
36688124 AACAGATTGAAGTCACGACGGTGGATCTT-GTTTCCCTGACATTGTAATTA
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTT-CCTGGCGGTGTAGTGG
36688174 AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGG
* * * * * * * ** * **
36688224 AACAGATTGAAGTCACGACGACGGATCTT-GTTTCCCTGACACTGTAATTA
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTT-CCTGGCGGTGTAGTGG
* * * *
36688274 AAAAGATTGAAGCCATAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGG
* * *
36688324 AATAGATTGAAGCTACGACGGCGAATCTT
1 AAAAGATTGAAGCCACAACGGCGAATCTT
36688353 GTTTCCCCGA
Statistics
Matches: 166, Mismatches: 59, Indels: 8
0.71 0.25 0.03
Matches are distributed among these distances:
49 6 0.04
50 155 0.93
51 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGG
Found at i:36688236 original size:100 final size:100
Alignment explanation
Indices: 36688071--36688367 Score: 434
Period size: 100 Copynumber: 3.0 Consensus size: 100
36688061 GGCATTGCAT
* ** * * *
36688071 TTAAAAAGATTAAAGCCACAACGATGAATCTTACTTTCTTGGTGGTATAGTGGAACAGATTGAAG
1 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAG
*
36688136 TCACGACGGTGGATCTTGTTTCCCTGACATTGTAA
66 TCACGACGGCGGATCTTGTTTCCCTGACATTGTAA
36688171 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAG
1 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAG
* *
36688236 TCACGACGACGGATCTTGTTTCCCTGACACTGTAA
66 TCACGACGGCGGATCTTGTTTCCCTGACATTGTAA
* * * * *
36688271 TTAAAAAGATTGAAGCCATAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAGAATAGATTGAAG
1 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAG
* *
36688336 -CTACGACGGCGAATCTTGTTTCCCCGACATTG
66 TC-ACGACGGCGGATCTTGTTTCCCTGACATTG
36688368 CAGTTAAACA
Statistics
Matches: 178, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.01
100 177 0.99
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (100 bp):
TTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAG
TCACGACGGCGGATCTTGTTTCCCTGACATTGTAA
Done.