Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 17 of 226
Found at i:7861638 original size:14 final size:15
Alignment explanation
Indices: 7861618--7861655 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7861608 GTAGCTGATC
*
7861618 CAAAATTGGATAAAT
1 CAAAATTGAATAAAT
7861633 -AAAATTTGAATAAAT
1 CAAAA-TTGAATAAAT
7861648 CAAAATTG
1 CAAAATTG
7861656 TGCTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 4 0.20
15 12 0.60
16 4 0.20
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (15 bp):
CAAAATTGAATAAAT
Found at i:7867932 original size:29 final size:30
Alignment explanation
Indices: 7867885--7867944 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
7867875 TTTTACATTT
* *
7867885 AGAATTTAGTTCTTTTACTTTT-ATTTTCA
1 AGAATTTAGTTCTTCTACTTTTCATATTCA
7867914 AGAATTTAG-TCTCTCTACTTTTCATATTCA
1 AGAATTTAGTTCT-TCTACTTTTCATATTCA
7867944 A
1 A
7867945 AAATGTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.52
Consensus pattern (30 bp):
AGAATTTAGTTCTTCTACTTTTCATATTCA
Found at i:7876804 original size:15 final size:16
Alignment explanation
Indices: 7876774--7876812 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
7876764 TCACGAAAAT
7876774 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
7876791 ATAATTTA-TATTTTA
1 ATAATTTATTATTTTA
7876806 ATAATTT
1 ATAATTT
7876813 TTAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:7876845 original size:30 final size:29
Alignment explanation
Indices: 7876773--7876875 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
7876763 ATCACGAAAA
*
7876773 TATAATTTTATTA-TTTT---AA-TAATT
1 TATAATTTTATTATTTTTAAAAATTAAAT
*
7876797 TAT-ATTTTAATAATTTTTAAAATATTAAAT
1 TATAATTTT-ATTATTTTTAAAA-ATTAAAT
7876827 TA-AACTTTTATTATTTTTAAAAATTAAAT
1 TATAA-TTTTATTATTTTTAAAAATTAAAT
*
7876856 TATAATTTTATTATTATTAA
1 TATAATTTTATTATTTTTAA
7876876 TTTAAAATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
23 5 0.08
24 6 0.09
25 4 0.06
28 1 0.02
29 24 0.37
30 21 0.32
31 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
TATAATTTTATTATTTTTAAAAATTAAAT
Found at i:7881417 original size:3 final size:3
Alignment explanation
Indices: 7881409--7881442 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7881399 AAACAATTCG
7881409 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7881443 TTGTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7885776 original size:13 final size:14
Alignment explanation
Indices: 7885749--7885786 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
7885739 TTAAATTTAT
7885749 TTTTTTATAAATAA
1 TTTTTTATAAATAA
*
7885763 TTTTTT-TAATTAA
1 TTTTTTATAAATAA
7885776 TTTTATTATAA
1 TTTT-TTATAA
7885787 CTTCTCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 10 0.48
14 8 0.38
15 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTATAAATAA
Found at i:7888771 original size:17 final size:17
Alignment explanation
Indices: 7888734--7888781 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
7888724 GAATTTATAA
*
7888734 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
7888750 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
7888767 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
7888782 AAAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:7890793 original size:36 final size:36
Alignment explanation
Indices: 7890747--7890891 Score: 254
Period size: 36 Copynumber: 4.0 Consensus size: 36
7890737 GGTAGCTTTA
* *
7890747 GCTACACTTATCTGATCAAGTGAAGAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
7890783 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
7890819 GCAATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
7890855 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
7890891 G
1 G
7890892 GTAGCTTAGC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 104 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:7892374 original size:46 final size:46
Alignment explanation
Indices: 7892304--7892488 Score: 316
Period size: 46 Copynumber: 4.0 Consensus size: 46
7892294 CATGGCAAAG
*
7892304 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
7892350 TGTGAAAAGTAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
7892396 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACGATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
7892442 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
7892488 T
1 T
7892489 ATAGCAATGT
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:7898491 original size:18 final size:19
Alignment explanation
Indices: 7898456--7898496 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7898446 TATAATTTTA
*
7898456 AAAAAATATATAACACA-T
1 AAAAAATATATAAAACATT
7898474 AAAAAATACTA-AAAACATT
1 AAAAAATA-TATAAAACATT
7898493 AAAA
1 AAAA
7898497 TAAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAAATATATAAAACATT
Found at i:7921483 original size:13 final size:13
Alignment explanation
Indices: 7921465--7921489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7921455 GGGTATAGTA
7921465 AAATATTAAAAAT
1 AAATATTAAAAAT
7921478 AAATATTAAAAA
1 AAATATTAAAAA
7921490 AAAAGTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATTAAAAAT
Found at i:7921726 original size:19 final size:18
Alignment explanation
Indices: 7921686--7921749 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
7921676 AATAATTCCA
*
7921686 ATATCTTTT-ATAATGTTCT
1 ATAT-TTTTAATAAT-TTTT
7921705 ATAATTTTTAATAATTTTT
1 AT-ATTTTTAATAATTTTT
* *
7921724 ATATTTTTTACAATTTTT
1 ATATTTTTAATAATTTTT
7921742 -TATTTTTA
1 ATATTTTTA
7921750 TTTTTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.18
18 14 0.36
19 11 0.28
20 7 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTTTAATAATTTTT
Found at i:7921731 original size:9 final size:9
Alignment explanation
Indices: 7921708--7921781 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 9
7921698 ATGTTCTATA
*
7921708 ATTTTTAAT
1 ATTTTTTAT
*
7921717 AATTTTTAT
1 ATTTTTTAT
*
7921726 ATTTTTTAC
1 ATTTTTTAT
*
7921735 AATTTTT-T
1 ATTTTTTAT
7921743 A-TTTTTAT
1 ATTTTTTAT
7921751 -TTTTTTA-
1 ATTTTTTAT
7921758 A--TTTTA-
1 ATTTTTTAT
7921764 ATTTTTATAT
1 ATTTTT-TAT
7921774 ATTTTTTA
1 ATTTTTTA
7921782 AAAAAATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
6 6 0.12
7 5 0.10
8 11 0.21
9 24 0.46
10 6 0.12
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:7921750 original size:25 final size:22
Alignment explanation
Indices: 7921738--7921779 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
7921728 TTTTTACAAT
*
7921738 TTTTTATTTTTAT-TTTTTTAA
1 TTTTAATTTTTATATTTTTTAA
7921759 TTTTAATTTTTATATATTTTT
1 TTTTAATTTTTATAT-TTTTT
7921780 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 1 0.06
23 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTAATTTTTATATTTTTTAA
Found at i:7921756 original size:14 final size:14
Alignment explanation
Indices: 7921737--7921779 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
7921727 TTTTTTACAA
7921737 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
*
7921751 TTTTTTAATTTTAAT
1 TTTTTT-ATTTTTAT
7921766 TTTTATATATTTTT
1 TTTT-T-TATTTTT
7921780 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 6 0.25
17 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:7924514 original size:90 final size:90
Alignment explanation
Indices: 7923898--7924502 Score: 942
Period size: 90 Copynumber: 6.7 Consensus size: 90
7923888 GTGGACCCAT
* * *
7923898 GGTTTGTGCATTGACTAGAGCAGGAGAAACAGTTTGCAT-GCTAGTAGCTGAGCCAGTTGAAGGG
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAG-TAGAAGCTGAGCCAGTTGAAGGG
* * *
7923962 ATCCCTGAAGCAGTGGAAGGCGGCAA
65 ATCCCTGAAGCAGTAGAACGCTGCAA
* * *
7923988 GGTTTGTGCATTGCCTACAGCAGGTGAAACAGTTTGCATACTAGAAGCTGAGCCAGTTGGAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
* *
7924053 TCCCTGAAGCAGTGGAAGGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * * * *
7924078 GGTTTGTGCATTGACTGCAGCAAGTGAAACAGTTTGCATAGTAGAAGTTGAGCTACTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
7924143 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* *
7924168 AGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGTTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
7924233 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
*
7924258 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGAA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
*
7924323 TCCCTGAAGCAGTAGAAAGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * *
7924348 TGTTTGCGCATTGACTACAGCAGGTGAAACAATTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
7924413 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
** * * *
7924438 TATTTGTGCATTAACTACAGCGGGTGAAACAGTTTGCATACTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
7924503 GACCAGAAGC
Statistics
Matches: 477, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
90 477 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (90 bp):
GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
TCCCTGAAGCAGTAGAACGCTGCAA
Found at i:7933169 original size:16 final size:16
Alignment explanation
Indices: 7933150--7933180 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7933140 AATTCAAGTA
7933150 AACCCATAACCTAAAT
1 AACCCATAACCTAAAT
7933166 AACCCATAACCTAAA
1 AACCCATAACCTAAA
7933181 ACAAGATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCATAACCTAAAT
Found at i:7940224 original size:42 final size:42
Alignment explanation
Indices: 7939976--7940216 Score: 365
Period size: 42 Copynumber: 5.7 Consensus size: 42
7939966 TTAAATCATT
*
7939976 ATCTCCATCATCCTTAGCTTTCCTACTAGAAGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* ** *
7940018 ATCTCCATCATCCTTAGTTTTCCTACTAGTTGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
7940060 ATCTCCATCATTCTTAGCTTTCCTACTAGAGGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
7940102 ACCTCCATCATCCTCAGCTTTCCTACTAGACGATCTAATACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* *
7940144 ATCTCCGTCATCCTTAGCTTTCCTACCAGACGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
7940186 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
7940217 AGCCTAGTGC
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 178 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (42 bp):
ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
Found at i:7941144 original size:24 final size:24
Alignment explanation
Indices: 7941117--7941170 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
7941107 TAAACATACC
* *
7941117 TATTTTATTATTTATATTTATTAA
1 TATTTTATAATTTATATTTAATAA
* *
7941141 TATTATATAATTTATTTTTAATAA
1 TATTTTATAATTTATATTTAATAA
7941165 -ATTTTA
1 TATTTTA
7941171 ACAATAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTATAATTTATATTTAATAA
Found at i:7941291 original size:23 final size:23
Alignment explanation
Indices: 7941258--7941314 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7941248 ATTTTTAATA
7941258 ATAAATATTTT-A-TAGTATCAAAT
1 ATAAATATTTTAATTA-TAT-AAAT
*
7941281 ATGAATATTTTAATTATATAAAT
1 ATAAATATTTTAATTATATAAAT
7941304 ATAAATATTTT
1 ATAAATATTTT
7941315 TTAAATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.80
24 4 0.13
25 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTAATTATATAAAT
Found at i:7943417 original size:30 final size:30
Alignment explanation
Indices: 7943383--7943445 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
7943373 ACTTAACAAG
*
7943383 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
7943413 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
7943443 CAA
1 CAA
7943446 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:7943816 original size:10 final size:11
Alignment explanation
Indices: 7943789--7943815 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7943779 ATTTTAAAAA
7943789 TAAAAATATTT
1 TAAAAATATTT
7943800 TAAAAATATTT
1 TAAAAATATTT
7943811 TAAAA
1 TAAAA
7943816 TTAGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:7944625 original size:30 final size:28
Alignment explanation
Indices: 7944586--7944647 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
7944576 ATGGATTTAA
7944586 ATTACTTATTATTTAAGTAAACATATATTT
1 ATTACTTATTA-TTAAGTAAA-ATATATTT
*
7944616 ATTATTTATTATTAAGTAAAATATATTT
1 ATTACTTATTATTAAGTAAAATATATTT
7944644 ATTA
1 ATTA
7944648 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAATATATTT
Found at i:7948136 original size:28 final size:30
Alignment explanation
Indices: 7948104--7948160 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
7948094 ATGATTTAGG
* *
7948104 TATTATATTGGATAT-TT-TCAAAGTACAA
1 TATTAAATCGGATATCTTATCAAAGTACAA
*
7948132 TATTAAATCGGATATCTTATGAAAGTACA
1 TATTAAATCGGATATCTTATCAAAGTACA
7948161 TGTACCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (30 bp):
TATTAAATCGGATATCTTATCAAAGTACAA
Found at i:7955624 original size:24 final size:23
Alignment explanation
Indices: 7955568--7955625 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7955558 GTTTGTTTAT
*
7955568 TTAAAT-TAATTTATAAATATTAA
1 TTAAATAT-ATTTATAAACATTAA
*
7955591 ATAAATATATTTATAAACATATAA
1 TTAAATATATTTATAAACAT-TAA
7955615 TTAAATATATT
1 TTAAATATATT
7955626 CGTGTCAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAATATATTTATAAACATTAA
Found at i:7956077 original size:22 final size:24
Alignment explanation
Indices: 7956037--7956082 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
7956027 CAATAATTTT
7956037 TTTGTATTTGCATTATACT-CTAA
1 TTTGTATTTGCATTATACTACTAA
7956060 TTTG-ATTTGCAATT-TACTACTAA
1 TTTGTATTTGC-ATTATACTACTAA
7956083 CACAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (24 bp):
TTTGTATTTGCATTATACTACTAA
Found at i:7957638 original size:24 final size:23
Alignment explanation
Indices: 7957608--7957682 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 23
7957598 GGGGTTAAAA
*
7957608 TTAAAATTTATATTTTTATGATAG
1 TTAAAATTTATATTTTTATCAT-G
* *
7957632 TTAAAATGTA-A-TTTTATCATT
1 TTAAAATTTATATTTTTATCATG
* *
7957653 TTAATAATTTATATTTTTATAATT
1 TTAA-AATTTATATTTTTATCATG
7957677 TTAAAA
1 TTAAAA
7957683 AAGTTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.09
22 13 0.30
23 4 0.09
24 22 0.51
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (23 bp):
TTAAAATTTATATTTTTATCATG
Found at i:7957679 original size:16 final size:17
Alignment explanation
Indices: 7957640--7957679 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
7957630 AGTTAAAATG
7957640 TAATTTTATCATTTTAA
1 TAATTTTATCATTTTAA
*
7957657 TAA-TTTAT-ATTTTTA
1 TAATTTTATCATTTTAA
7957672 TAATTTTA
1 TAATTTTA
7957680 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTATCATTTTAA
Found at i:7959783 original size:22 final size:23
Alignment explanation
Indices: 7959738--7959781 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
7959728 GGAAAATATT
7959738 AAATATATATATTTTTATTTTTA
1 AAATATATATATTTTTATTTTTA
7959761 AAATATA-ATAGTTTTTATTTT
1 AAATATATATA-TTTTTATTTT
7959782 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
AAATATATATATTTTTATTTTTA
Found at i:7959911 original size:59 final size:59
Alignment explanation
Indices: 7959848--7960026 Score: 250
Period size: 68 Copynumber: 2.9 Consensus size: 59
7959838 TCAAGTTTGT
*
7959848 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGAAAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGAAAAA
*
7959907 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAA
7959972 AAA
57 AAA
*
7959975 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
7960027 AATAATTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 47 0.44
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 55 0.51
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGAAAAA
Found at i:7959949 original size:9 final size:9
Alignment explanation
Indices: 7959937--7959964 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7959927 TTTTATTACA
7959937 ACAATTAAT
1 ACAATTAAT
7959946 ACAATTAAT
1 ACAATTAAT
7959955 ACAATTAAT
1 ACAATTAAT
7959964 A
1 A
7959965 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:7959955 original size:68 final size:68
Alignment explanation
Indices: 7959878--7960048 Score: 310
Period size: 68 Copynumber: 2.5 Consensus size: 68
7959868 TTTTGTTACA
*
7959878 ACAATTAATACAATTAATAATTTGAAAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
7959943 AAT
66 AAT
7959946 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
7960011 AAT
66 AAT
*
7960014 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
7960049 CAATTAATTT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
66 27 0.27
67 1 0.01
68 73 0.72
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AAT
Found at i:7960058 original size:16 final size:16
Alignment explanation
Indices: 7960037--7960078 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7960027 AATAATTTGA
*
7960037 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7960053 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7960069 TAGTTTTAAT
1 TAATTTTAAT
7960079 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:7960062 original size:22 final size:22
Alignment explanation
Indices: 7960052--7960112 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
7960042 TTACTAACAA
* * **
7960052 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAACT
*
7960074 TTAATTTTATTAAAAAATAACT
1 TTAATTTTAATAAAAAATAACT
*
7960096 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
7960113 CGGGCCGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAACT
Found at i:7960067 original size:59 final size:66
Alignment explanation
Indices: 7959878--7960070 Score: 274
Period size: 68 Copynumber: 3.0 Consensus size: 66
7959868 TTTTGTTACA
*
7959878 ACAATTAATACAATTAATAATTTGAAAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
7959943 AAT
64 AAT
7959946 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAA-GTTAGATTTTA-TACAACAATT
7960011 AAT
64 AAT
* *
7960014 ACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTA
7960071 GTTTTAATTT
Statistics
Matches: 122, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
59 9 0.07
61 6 0.05
62 3 0.02
64 2 0.02
65 1 0.01
66 27 0.22
67 1 0.01
68 73 0.60
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (66 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAAGTTAGATTTTATACAACAATTAA
T
Found at i:7960554 original size:94 final size:94
Alignment explanation
Indices: 7960393--7960578 Score: 363
Period size: 94 Copynumber: 2.0 Consensus size: 94
7960383 CATTGGGTCG
7960393 TATATTATGACATATTAGTTCAAGAAAGGATTAAATCGTAAAAGTGAGAAAAGTTTTGTGGCCCA
1 TATATTATGACATATTAGTTCAAGAAAGGATTAAATCGTAAAAGTGAGAAAAGTTTTGTGGCCCA
7960458 AGAGTAAATACTCAAAAATTAAGGGGTGT
66 AGAGTAAATACTCAAAAATTAAGGGGTGT
*
7960487 TATATTATGACATATTAGTTCAAGAAAGGATTAAATCGTAAAAGTGAGAAAAGTTTTGTTGCCCA
1 TATATTATGACATATTAGTTCAAGAAAGGATTAAATCGTAAAAGTGAGAAAAGTTTTGTGGCCCA
7960552 AGAGTAAATACTCAAAAATTAAGGGGT
66 AGAGTAAATACTCAAAAATTAAGGGGT
7960579 TAAAGTGTAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (94 bp):
TATATTATGACATATTAGTTCAAGAAAGGATTAAATCGTAAAAGTGAGAAAAGTTTTGTGGCCCA
AGAGTAAATACTCAAAAATTAAGGGGTGT
Found at i:7964299 original size:24 final size:23
Alignment explanation
Indices: 7964257--7964301 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7964247 CGATATTAAT
* *
7964257 ATAAAAAATAGATTAAATTGTGA
1 ATAAAAAATACACTAAATTGTGA
7964280 ATAAAAAATACACTATAATTGT
1 ATAAAAAATACACTA-AATTGT
7964302 AAATGTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (23 bp):
ATAAAAAATACACTAAATTGTGA
Found at i:7971859 original size:46 final size:46
Alignment explanation
Indices: 7971786--7971961 Score: 273
Period size: 46 Copynumber: 3.8 Consensus size: 46
7971776 AGTGTGGAAC
* *
7971786 GTAGGTATGGTATTTCAGTAAATAAAACTATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
7971832 GTAGGTATGATATTTCAATAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
7971878 GTAGGTATGGTATTTCAGTAACGAAAATCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
7971924 GTA-GTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
7971962 ATAGCATTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 32 0.27
46 85 0.73
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.31
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:7975429 original size:51 final size:51
Alignment explanation
Indices: 7975351--7975460 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
7975341 ATCACATTTC
*
7975351 TCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
* *
7975402 TCACTTGTTACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
7975453 TCACTTGT
1 TCACTTGT
7975461 GACTGATTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:7976637 original size:42 final size:42
Alignment explanation
Indices: 7976584--7976683 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
7976574 CTATACGAAT
* ** * *
7976584 GGCACTAAGTGTGTGAAATTAAAATGACAATGTTGAATAAAG
1 GGCACTAAGTGTGCGAAACAAAAATAACAATGTCGAATAAAG
* *
7976626 GGCACTAAGTGTGCGAAACAAAAATAACGATGTCGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATAACAATGTCGAATAAAG
7976668 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
7976684 TACCAAGATC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACAAAAATAACAATGTCGAATAAAG
Found at i:7977840 original size:40 final size:40
Alignment explanation
Indices: 7977787--7977870 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
7977777 AATTTGTTAC
* * * * *
7977787 TTCAGTAATTTCACAGTTCAA-TGCATTACACATAACAATA
1 TTCAATAACTTCACAATTCAAGT-CAGTACACAGAACAATA
*
7977827 TTCAATAACTTCACAATTCAAGTCAGTACTCAGAACAATA
1 TTCAATAACTTCACAATTCAAGTCAGTACACAGAACAATA
7977867 TTCA
1 TTCA
7977871 GTATTCCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAAGTCAGTACACAGAACAATA
Found at i:7978552 original size:5 final size:5
Alignment explanation
Indices: 7978542--7978608 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
7978532 TTACCTATTT
7978542 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
7978592 ATATA ATATA ATATA AT
1 ATATA ATATA ATATA AT
7978609 CTTATTTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:7979598 original size:21 final size:21
Alignment explanation
Indices: 7979558--7979654 Score: 117
Period size: 21 Copynumber: 4.7 Consensus size: 21
7979548 ATACGCCAAT
*
7979558 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
7979577 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
* *
7979598 AGAAGCTCGTAAGAGTTTAAA
1 AGAAGCTCGTAAGAGTTGAAC
* *
7979619 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGTTGAAC
*
7979640 AGAAGCTCGAAAGAG
1 AGAAGCTCGTAAGAG
7979655 CTAAACCGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 56 0.85
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGTTGAAC
Found at i:7984675 original size:2 final size:2
Alignment explanation
Indices: 7984668--7984704 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7984658 TCGAACTTTG
7984668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7984705 GCTGATTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8000441 original size:14 final size:14
Alignment explanation
Indices: 8000379--8000442 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 14
8000369 ATTTTTCTAG
8000379 AATTTTTATATAAA
1 AATTTTTATATAAA
* *
8000393 AATTTCTATTCTTTAAA
1 AA-TT-T-TTATATAAA
*
8000410 TAATTTTTATTATTAA
1 -AATTTTTA-TATAAA
8000426 AATTTTTATATAAA
1 AATTTTTATATAAA
8000440 AAT
1 AAT
8000443 ATAAAAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
14 10 0.26
15 12 0.31
16 6 0.15
17 9 0.23
18 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTATATAAA
Found at i:8002988 original size:6 final size:6
Alignment explanation
Indices: 8002977--8003002 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8002967 GACTTTATAG
8002977 AGGGGC AGGGGC AGGGGC AGGGGC AG
1 AGGGGC AGGGGC AGGGGC AGGGGC AG
8003003 CGACAGGGCA
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:0.19, C:0.15, G:0.65, T:0.00
Consensus pattern (6 bp):
AGGGGC
Found at i:8003880 original size:2 final size:2
Alignment explanation
Indices: 8003873--8003902 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8003863 CTCATTTGCA
8003873 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8003903 AATCAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8004987 original size:16 final size:16
Alignment explanation
Indices: 8004940--8004987 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
8004930 TATCAAGTTA
8004940 ATAATTTAATATAA-AT
1 ATAA-TTAATATAATAT
*
8004956 ATAATTATTACTTAATAT
1 ATAATTAATA--TAATAT
8004974 ATAATTAATATAAT
1 ATAATTAATATAAT
8004988 CATGTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.19
16 8 0.30
17 3 0.11
18 11 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAATATAATAT
Found at i:8013105 original size:9 final size:9
Alignment explanation
Indices: 8013091--8013132 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
8013081 TTAAATTTTA
8013091 TAAAAATATT
1 TAAAAA-ATT
8013101 TAAAAAATT
1 TAAAAAATT
8013110 T--AAAATT
1 TAAAAAATT
8013117 TAAAAAATT
1 TAAAAAATT
8013126 TAAAAAA
1 TAAAAAA
8013133 AAGAATGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.23
9 17 0.57
10 6 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAAATT
Found at i:8013112 original size:28 final size:26
Alignment explanation
Indices: 8013078--8013133 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
8013068 GCTAATGATT
* *
8013078 AATTTAAATTTTATAAAAATATTTAAAA
1 AATTTAAAATTTA-AAAAAT-TTAAAAA
8013106 AATTTAAAATTTAAAAAATTTAAAAA
1 AATTTAAAATTTAAAAAATTTAAAAA
8013132 AA
1 AA
8013134 AGAATGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.31
27 6 0.23
28 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AATTTAAAATTTAAAAAATTTAAAAA
Found at i:8013119 original size:16 final size:16
Alignment explanation
Indices: 8013098--8013130 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8013088 TTATAAAAAT
8013098 ATTTAAAAAATTTAAA
1 ATTTAAAAAATTTAAA
8013114 ATTTAAAAAATTTAAA
1 ATTTAAAAAATTTAAA
8013130 A
1 A
8013131 AAAAGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTAAAAAATTTAAA
Found at i:8023973 original size:6 final size:6
Alignment explanation
Indices: 8023964--8023988 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8023954 TAAAAGTAAA
8023964 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
8023989 CCTCTGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:8026459 original size:7 final size:7
Alignment explanation
Indices: 8026437--8026480 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
8026427 ATTTTATTAC
8026437 AACAATT
1 AACAATT
8026444 AATACAATT
1 -A-ACAATT
8026453 AACAATT
1 AACAATT
8026460 AACAATT
1 AACAATT
*
8026467 AATAATT
1 AACAATT
*
8026474 AATAATT
1 AACAATT
8026481 TGATAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 26 0.76
8 2 0.06
9 6 0.18
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (7 bp):
AACAATT
Found at i:8026525 original size:30 final size:30
Alignment explanation
Indices: 8026491--8026550 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
8026481 TGATAATTTT
*
8026491 AATAACAATTAGTTTTAATTTT-ATTAAAAA
1 AATAA-AATTAATTTTAATTTTAATTAAAAA
**
8026521 AATAATTTTAATTTTAATTTTAATTAAAAA
1 AATAAAATTAATTTTAATTTTAATTAAAAA
8026551 CGGGCCGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAAAATTAATTTTAATTTTAATTAAAAA
Found at i:8026898 original size:83 final size:83
Alignment explanation
Indices: 8026750--8026902 Score: 188
Period size: 83 Copynumber: 1.8 Consensus size: 83
8026740 GATAAAATGA
* * * *
8026750 AATTTTAATTTTTAATAATTTATATTTTATTATTTTTAAATGATTAAATTAAAATTTTATAATTT
1 AATTTTAACTTTTAATAATTTAAATTTTATTATTTTTAAATGACTAAAATAAAATTTTATAATTT
8026815 TAAAGAAGGTTAAAGTAT
66 TAAAGAAGGTTAAAGTAT
* *
8026833 AATTTT-ACTTTTACTAATTTAAAATTTTAATT-TTTTTAAA-GAACTAAAATAATAATTTT-TC
1 AATTTTAACTTTTAATAATTT-AAATTTT-ATTATTTTTAAATG-ACTAAAATAA-AATTTTATA
8026894 ATTTTAAAG
62 ATTTTAAAG
8026903 GGTCGAAGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
82 13 0.22
83 38 0.63
84 9 0.15
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (83 bp):
AATTTTAACTTTTAATAATTTAAATTTTATTATTTTTAAATGACTAAAATAAAATTTTATAATTT
TAAAGAAGGTTAAAGTAT
Found at i:8044782 original size:25 final size:26
Alignment explanation
Indices: 8044733--8044784 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8044723 TTTAAAATAC
* * *
8044733 TTTTAAAATATTTTTTATTTTTTTAT
1 TTTTAAAATAATTTTTATATGTTTAT
8044759 TTTTAAAATAATTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTATATGTTTAT
8044784 T
1 T
8044785 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTAAAATAATTTTTATATGTTTAT
Found at i:8045221 original size:24 final size:24
Alignment explanation
Indices: 8045193--8045248 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
8045183 CATTCGATCA
8045193 AATCGAGTGGAAAACTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
*
8045217 AATCGAGTGGAAAATTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
8045241 AATCGAGT
1 AATCGAGT
8045249 TGACAAATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (24 bp):
AATCGAGTGGAAAACTTTCAAGAT
Found at i:8045588 original size:18 final size:18
Alignment explanation
Indices: 8045565--8045603 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8045555 ACATCAATTT
8045565 ATTATTCAAATTATTAGA
1 ATTATTCAAATTATTAGA
* * *
8045583 ATTATTTAAGTTATTCGA
1 ATTATTCAAATTATTAGA
8045601 ATT
1 ATT
8045604 GTAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTATTCAAATTATTAGA
Found at i:8048101 original size:22 final size:23
Alignment explanation
Indices: 8048076--8048123 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
8048066 ACAATAATTA
8048076 TTTTGTA-AAATAAATAAGATAT
1 TTTTGTACAAATAAATAAGATAT
* *
8048098 TTTTTTACAAATAAATGAGATAT
1 TTTTGTACAAATAAATAAGATAT
8048121 TTT
1 TTT
8048124 GACTTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTTGTACAAATAAATAAGATAT
Found at i:8053622 original size:21 final size:20
Alignment explanation
Indices: 8053591--8053643 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8053581 CTTGAATTTT
*
8053591 ATTTATTTTTTCA-TATTCAC
1 ATTTATTTTTTTATTATT-AC
*
8053611 ATTTATTTTTTTATTATTTC
1 ATTTATTTTTTTATTATTAC
8053631 ATTATATTTTTTT
1 ATT-TATTTTTTT
8053644 GACCCCTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTATTTTTTTATTATTAC
Found at i:8054179 original size:20 final size:21
Alignment explanation
Indices: 8054154--8054210 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
8054144 TAAATGCTAC
8054154 TTATTCACAATTTTT-AATAA
1 TTATTCACAATTTTTAAATAA
*
8054174 TTATTCGCAATTTTTTTAAATAA
1 TTATTCACAA--TTTTTAAATAA
*
8054197 AT-TTCACAATTTTT
1 TTATTCACAATTTTT
8054211 GATGATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 14 0.45
22 11 0.35
23 6 0.19
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATTCACAATTTTTAAATAA
Found at i:8054192 original size:22 final size:22
Alignment explanation
Indices: 8054157--8054210 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
8054147 ATGCTACTTA
*
8054157 TTCACAA--TTTTT-AATAATT
1 TTCACAATTTTTTTAAATAAAT
*
8054176 ATTCGCAATTTTTTTAAATAAAT
1 -TTCACAATTTTTTTAAATAAAT
8054199 TTCACAATTTTT
1 TTCACAATTTTT
8054211 GATGATCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 6 0.21
22 16 0.57
23 6 0.21
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (22 bp):
TTCACAATTTTTTTAAATAAAT
Found at i:8054317 original size:18 final size:19
Alignment explanation
Indices: 8054274--8054318 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
8054264 ACAATTTAAA
8054274 AATATTTTTAACAATATTT
1 AATATTTTTAACAATATTT
*
8054293 -ATTTTTTTAA-AAGT-TTT
1 AATATTTTTAACAA-TATTT
8054310 AATATTTTT
1 AATATTTTT
8054319 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATATTTTTAACAATATTT
Found at i:8054331 original size:12 final size:11
Alignment explanation
Indices: 8054306--8054354 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
8054296 TTTTTAAAAG
8054306 TTTTAATATTT
1 TTTTAATATTT
8054317 TTTTAATATTT
1 TTTTAATATTT
8054328 TTTT-ATATATT
1 TTTTAATAT-TT
* *
8054339 TTTAAATATTA
1 TTTTAATATTT
8054350 TTTTA
1 TTTTA
8054355 TGATTTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 4 0.12
11 25 0.76
12 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATATTT
Found at i:8060288 original size:17 final size:17
Alignment explanation
Indices: 8060268--8060304 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8060258 ATTACATATT
8060268 TTTAG-ATTTTTTAAGAA
1 TTTAGAATTTTTTAA-AA
8060285 TTTAGAATTTTTTAAAA
1 TTTAGAATTTTTTAAAA
8060302 TTT
1 TTT
8060305 TATCTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (17 bp):
TTTAGAATTTTTTAAAA
Found at i:8060306 original size:18 final size:18
Alignment explanation
Indices: 8060267--8060306 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8060257 TATTACATAT
8060267 TTTTAGATTTTTTAAGAA
1 TTTTAGATTTTTTAAGAA
8060285 -TTTAGAATTTTTTAA-AA
1 TTTTAG-ATTTTTTAAGAA
8060302 TTTTA
1 TTTTA
8060307 TCTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTAGATTTTTTAAGAA
Found at i:8060337 original size:32 final size:31
Alignment explanation
Indices: 8060285--8060371 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 31
8060275 TTTTTAAGAA
*
8060285 TTTAGAATTTTTTAAAATTTTAT-CTTTTAT-T
1 TTTAGAATTTTTT-ATATTTTATACTTTT-TCT
*
8060316 TTATAGAATTTTTATATATTTTTTACTTTTTCT
1 TT-TAGAATTTTT-TATATTTTATACTTTTTCT
* *
8060349 TTTTGAATTATTTATATTTTATA
1 TTTAGAATTTTTTATATTTTATA
8060372 TAATTTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
31 12 0.26
32 26 0.55
33 9 0.19
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTAGAATTTTTTATATTTTATACTTTTTCT
Found at i:8063900 original size:2 final size:2
Alignment explanation
Indices: 8063893--8063919 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8063883 TTCTCATGTG
8063893 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8063920 CAAAATAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8065605 original size:21 final size:20
Alignment explanation
Indices: 8065565--8065608 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
8065555 ATATTAAGAA
*
8065565 TATTATTTAAAATGCAAAAT
1 TATTATTTAAAATGAAAAAT
8065585 TATTATATTAAAAT-AATAAAT
1 TATTAT-TTAAAATGAA-AAAT
8065606 TAT
1 TAT
8065609 ATTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TATTATTTAAAATGAAAAAT
Found at i:8065728 original size:21 final size:22
Alignment explanation
Indices: 8065696--8065737 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8065686 ATGTTTAATA
8065696 ATATTGAATA-TTATAATATTTG
1 ATATTGAATATTTA-AATATTTG
8065718 ATATT-AATATTTAAATATTT
1 ATATTGAATATTTAAATATTT
8065738 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTGAATATTTAAATATTTG
Found at i:8069582 original size:16 final size:17
Alignment explanation
Indices: 8069550--8069582 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8069540 TCTCTAAGAA
8069550 ATTTGAATATCAAAATAT
1 ATTTGAATA-CAAAATAT
8069568 ATTTGAATA-AAAATA
1 ATTTGAATACAAAATA
8069583 AAAGCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTTGAATACAAAATAT
Found at i:8079966 original size:21 final size:21
Alignment explanation
Indices: 8079941--8079981 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8079931 GTATCCATAT
8079941 CCAGGATAACTCGGCATGTAG
1 CCAGGATAACTCGGCATGTAG
* *
8079962 CCAGGGTAACTTGGCATGTA
1 CCAGGATAACTCGGCATGTA
8079982 TCCATATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (21 bp):
CCAGGATAACTCGGCATGTAG
Found at i:8081519 original size:4 final size:4
Alignment explanation
Indices: 8081510--8081543 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
8081500 TGCTGATGAC
8081510 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
8081544 TTCATGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:8082670 original size:20 final size:19
Alignment explanation
Indices: 8082634--8082709 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
8082624 CTTTATATAT
8082634 TTTTTAAGAATATTTTTGAAA
1 TTTTTAA-AATA-TTTTGAAA
*
8082655 TTTTTATAAATATTTT-TAA
1 TTTTTA-AAATATTTTGAAA
*
8082674 TTTTAAAAAATATTTTGAAA
1 TTTT-TAAAATATTTTGAAA
8082694 TTTTTAAAATTATTTT
1 TTTTTAAAA-TATTTT
8082710 ATATTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 19 0.40
20 17 0.36
21 10 0.21
22 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATATTTTGAAA
Found at i:8082715 original size:19 final size:18
Alignment explanation
Indices: 8082629--8082717 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 18
8082619 ACTTTCTTTA
8082629 TATATTTTTTAAGAATATTTT
1 TATA-TTTTTAA-AATA-TTT
*
8082650 TGAAATTTTTATAAATATTT
1 T-ATATTTTTA-AAATATTT
*
8082670 T-TAATTTTAAAAAATATTT
1 TAT-ATTTT-TAAAATATTT
*
8082689 TGAAATTTTTAAAATTATTT
1 T-ATATTTTTAAAA-TATTT
8082709 TATATTTTT
1 TATATTTTT
8082718 TTGTTGAGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
19 25 0.45
20 16 0.29
21 11 0.20
22 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TATATTTTTAAAATATTT
Found at i:8087839 original size:2 final size:2
Alignment explanation
Indices: 8087832--8087858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8087822 TTAAGAAATA
8087832 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
8087859 AAGATTTCTG
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:8090602 original size:19 final size:18
Alignment explanation
Indices: 8090578--8090634 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
8090568 TTTAAAAATA
8090578 TTTATTTTTACAAATTATT
1 TTTA-TTTTACAAATTATT
*
8090597 TTTATTTT-C--ATCATT
1 TTTATTTTACAAATTATT
*
8090612 TTTACTTTTACAAAATATT
1 TTTA-TTTTACAAATTATT
8090631 TTTA
1 TTTA
8090635 GTAGGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 2 0.06
18 4 0.13
19 12 0.39
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTTACAAATTATT
Found at i:8096274 original size:2 final size:2
Alignment explanation
Indices: 8096267--8096293 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8096257 GCTCTCCCCA
8096267 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8096294 TTCAGTCTTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8116402 original size:39 final size:39
Alignment explanation
Indices: 8116359--8116439 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
8116349 AGCAAAACAA
* * *
8116359 TAATGGAAAGGAATCAAAGGATTGAGAATCAAATAAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATAAATG
*
8116398 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATCAATG
1 TAATGGAAAGAAATCAAAAGATTGAGAATAAAATAAATG
8116437 TAA
1 TAA
8116440 ACAAGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (39 bp):
TAATGGAAAGAAATCAAAAGATTGAGAATAAAATAAATG
Found at i:8116433 original size:20 final size:20
Alignment explanation
Indices: 8116370--8116434 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
8116360 AATGGAAAGG
* *
8116370 AATCAAAGGATTGAGAATCA
1 AATCAAAAGATTGAGAATAA
* *
8116390 AAT-AAATGTAATG-GAA-AGA
1 AATCAAAAG-ATTGAGAATA-A
8116409 AATCAAAAGATTGAGAATAA
1 AATCAAAAGATTGAGAATAA
8116429 AATCAA
1 AATCAA
8116435 TGTAAACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 14 0.40
20 20 0.57
21 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCAAAAGATTGAGAATAA
Found at i:8120945 original size:5 final size:5
Alignment explanation
Indices: 8120935--8121017 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
8120925 AAAAAAATAT
* * * *
8120935 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA T-TTT TAATA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA TATTA TATTA
8120984 TATTA TATTA TATTA TA-TA TATATA TATATA TAT
1 TATTA TATTA TATTA TATTA TAT-TA TAT-TA TAT
8121018 CAAAAGAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
3 2 0.03
4 9 0.14
5 35 0.55
6 17 0.27
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:8120987 original size:19 final size:21
Alignment explanation
Indices: 8120963--8121017 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 21
8120953 ATTATGTTTT
*
8120963 TATATTATATTAT-TTTTA-A
1 TATATTATATTATATTATATA
8120982 TATATTATATTATATTATATA
1 TATATTATATTATATTATATA
8121003 TATA-TATATATATAT
1 TATATTATAT-TATAT
8121018 CAAAAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.41
20 9 0.28
21 10 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTATATTATATTATATA
Found at i:8121002 original size:2 final size:2
Alignment explanation
Indices: 8120981--8121017 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8120971 ATTATTTTTA
8120981 AT AT AT -T AT AT -T AT AT -T 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
8121018 CAAAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:8122566 original size:45 final size:45
Alignment explanation
Indices: 8122484--8122623 Score: 178
Period size: 45 Copynumber: 3.1 Consensus size: 45
8122474 TATTGCCGGC
* * *
8122484 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTGTTACTG
1 TTACTGATTCA-GCACTTTGTGTGTCGAATACTGTTACTGTTACTG
* *
8122528 TTACTGATTC-GATACTTTGTGTGTCGAATATTGTTACTGTTACTG
1 TTACTGATTCAG-CACTTTGTGTGTCGAATACTGTTACTGTTACTG
* *
8122573 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTGTTACTG
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
8122618 TTACTG
1 TTACTG
8122624 CTACCGTTAC
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
43 1 0.01
44 9 0.11
45 71 0.87
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (45 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:8122612 original size:6 final size:6
Alignment explanation
Indices: 8122601--8122642 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
8122591 GTGTGTTGAA
* *
8122601 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
8122643 ATCAGGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:8128044 original size:14 final size:14
Alignment explanation
Indices: 8128021--8128051 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8128011 TGTCGCGTTC
*
8128021 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
8128035 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
8128049 TTA
1 TTA
8128052 AAAAAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:8133596 original size:18 final size:18
Alignment explanation
Indices: 8133559--8133597 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8133549 CGATAGTGAC
* * *
8133559 TAATTTAAAAAATTATAT
1 TAATTAAAAAAACTAAAT
8133577 TAATTAAAAAAACTAAAT
1 TAATTAAAAAAACTAAAT
8133595 TAA
1 TAA
8133598 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATTAAAAAAACTAAAT
Found at i:8176530 original size:247 final size:246
Alignment explanation
Indices: 8176144--8176791 Score: 824
Period size: 247 Copynumber: 2.7 Consensus size: 246
8176134 TATTATTATT
* *** *
8176144 ATTATTATCGATCACTAAAAA-ATATATATATTTGACCATGGTAATTAAAATTATCTACAACAAA
1 ATTATTATCTATCACTAAAAATA-ATATATATTTGACCACAATAATTAAAATCATCTACAACAAA
* *
8176208 ATATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTCTCACTCACTATAATAAACGCA
65 ATATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTCTCACTCACTAAAATAAACACA
* * * *
8176273 TATCTTGATCGATAAATTGTTTGAATAAATTCACAATTATATTTTAATTGATCATTAAAATAAAT
130 TATCTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTTAATTAACCATTAAAACAAAT
* *
8176338 TAGATTTACAATATAAATGCATAACGATATTTTAACAACCATTAAAATCATC
195 TAGATTTACAAGATAAATGCATAACGACATTTTAACAACCATTAAAATCATC
* *
8176390 ATTATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATCATCTATAACAAAA
1 ATTATTATCTATCACTAAAAATAATATATATTTGACCACAATAATTAAAATCATCTACAACAAAA
* *
8176455 TATAGTAAGGATATTTTAGTTGGCCGTTAAAACCTTTATTACTCTCACTCACTAAAATAAACACA
66 TATA-TAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTCTCACTCACTAAAATAAACACA
* *
8176520 TATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTTAATTAACCGTTAAAACAAAT
130 TATCTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTTAATTAACCATTAAAACAAAT
* * * *
8176585 TAGATTTATAAGATAAATGCATAATGACATTTTAACAATCATTAAAATCATT
195 TAGATTTACAAGATAAATGCATAACGACATTTTAACAACCATTAAAATCATC
8176637 ATTATTATCTATCACTAAAAATAATATATA--T-----C------T---A-CA---AC-A-AA-A
1 ATTATTATCTATCACTAAAAATAATATATATTTGACCACAATAATTAAAATCATCTACAACAAAA
* * * *
8176679 TATATAAGAATATTTTAGTTGACCGTTAAAACCGTTATTACTATCTA-TCACTAAAATAAACACA
66 TATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTCTC-ACTCACTAAAATAAACACA
* * *
8176743 TATTTTTATCGATAAATTGTTTAAATAAGTTCACAATTATATTTTAATT
130 TATCTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTTAATT
8176792 GAAAATGCAT
Statistics
Matches: 369, Mismatches: 30, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
223 101 0.27
224 6 0.02
225 2 0.01
226 1 0.00
227 1 0.00
230 2 0.01
231 1 0.00
234 1 0.00
240 1 0.00
245 1 0.00
246 60 0.16
247 192 0.52
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (246 bp):
ATTATTATCTATCACTAAAAATAATATATATTTGACCACAATAATTAAAATCATCTACAACAAAA
TATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTCTCACTCACTAAAATAAACACAT
ATCTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTTAATTAACCATTAAAACAAATT
AGATTTACAAGATAAATGCATAACGACATTTTAACAACCATTAAAATCATC
Found at i:8181703 original size:22 final size:19
Alignment explanation
Indices: 8181652--8181704 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 19
8181642 TACCATGTTT
*
8181652 ATTAAAATATTTATTTTTA
1 ATTAAAATATTGATTTTTA
8181671 ATTAATCAATATTGATTTTATA
1 ATTAA--AATATTGATTTT-TA
8181693 ATCATAAAATAT
1 AT--TAAAATAT
8181705 ATATAACTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.18
21 11 0.39
22 9 0.32
24 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAAATATTGATTTTTA
Found at i:8184842 original size:2 final size:2
Alignment explanation
Indices: 8184835--8184864 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8184825 CAAATGATGC
8184835 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
8184865 CCATAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8189282 original size:17 final size:17
Alignment explanation
Indices: 8189260--8189300 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
8189250 TTGGGTTAGA
*
8189260 GAAACTTGAACCTACCC
1 GAAACTCGAACCTACCC
8189277 GAAACTCGAACCTACCC
1 GAAACTCGAACCTACCC
8189294 GAAACTC
1 GAAACTC
8189301 CACTGCTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.37, G:0.12, T:0.15
Consensus pattern (17 bp):
GAAACTCGAACCTACCC
Found at i:8191522 original size:103 final size:103
Alignment explanation
Indices: 8191343--8191552 Score: 420
Period size: 103 Copynumber: 2.0 Consensus size: 103
8191333 CGATGTTCCT
8191343 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
8191408 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
8191446 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
8191511 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
8191549 AAGA
1 AAGA
8191553 GACAGATCCT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (103 bp):
AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
Found at i:8195570 original size:29 final size:29
Alignment explanation
Indices: 8195515--8195570 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
8195505 ATAATACAAA
* **
8195515 AATATTTACCAAACTAATATATGTTTTAC
1 AATACTTACCAAACTAATATAAATTTTAC
* *
8195544 AATACTTACCAAATTAGTATAAATTTT
1 AATACTTACCAAACTAATATAAATTTT
8195571 GTTGGAGGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (29 bp):
AATACTTACCAAACTAATATAAATTTTAC
Found at i:8198751 original size:51 final size:51
Alignment explanation
Indices: 8198674--8198790 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
8198664 CGGATCACAT
* *
8198674 TTATCACTTGTCACTTGTCACCGATCAGTTAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGCAGCTAAAGCTACCAC
* *
8198725 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGCAGCTAAAGCTACCAC
8198776 TTATCACTTGTCACT
1 TTATCACTTGTCACT
8198791 GATCAGAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACCGATCAGATAAGTGCAGCTAAAGCTACCAC
Found at i:8199684 original size:112 final size:110
Alignment explanation
Indices: 8199484--8199713 Score: 334
Period size: 112 Copynumber: 2.0 Consensus size: 110
8199474 CTAAATGTGT
8199484 ATAACACATTTAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTGTCT
1 ATAACACATTTAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTGTCT
8199549 GAGTCAAAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
66 GAGTCAAAGTCACTAA--TATTTATATCTCGAGCTACAGAGCTCCAA
* * * * *
8199596 ATAACACATTTAAACAACATTATTCATACTATCATTATTTTCCTGTATGTTAATTCAAGTTGTCT
1 ATAACACATTTAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAA----ACT
*
8199661 GTCTGAGTCAGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
62 GTCTGAGTCAAAGTCACTAA--TATTTATATCTCGAGCTACAGAGCTCCAA
8199712 AT
1 AT
8199714 TAAGATCCGT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
112 54 0.50
116 54 0.50
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (110 bp):
ATAACACATTTAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTGTCT
GAGTCAAAGTCACTAATATTTATATCTCGAGCTACAGAGCTCCAA
Found at i:8201953 original size:22 final size:22
Alignment explanation
Indices: 8201928--8201976 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8201918 TTTTTAAAAT
*
8201928 TTTTAAATAT-ATATTTATATTA
1 TTTTAAATATAATATTTA-ATGA
* *
8201950 TTTTTAATTTAATATTTAATGA
1 TTTTAAATATAATATTTAATGA
8201972 TTTTA
1 TTTTA
8201977 TGTTTATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAAATATAATATTTAATGA
Found at i:8210189 original size:16 final size:16
Alignment explanation
Indices: 8210168--8210198 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8210158 TCAATGAAAG
8210168 ATTTAGATAGCTTAGA
1 ATTTAGATAGCTTAGA
*
8210184 ATTTAGATAGTTTAG
1 ATTTAGATAGCTTAG
8210199 GCAGAGCCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTTAGATAGCTTAGA
Found at i:8226653 original size:42 final size:42
Alignment explanation
Indices: 8226590--8226669 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
8226580 TATTTTCGTC
8226590 CACACGGCCAGAGACACGGGCGTGT-GTCTCAGCCGTGTATGA
1 CACACGGCCAGAGACACGGGCGTGTAGTCT-AGCCGTGTATGA
* * *
8226632 CACACGGCCTG-GCACATGGGCGTGTAGTCTGGCCGTGT
1 CACACGGCCAGAG-ACACGGGCGTGTAGTCTAGCCGTGT
8226670 GTCCCCTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.03
42 28 0.85
43 4 0.12
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (42 bp):
CACACGGCCAGAGACACGGGCGTGTAGTCTAGCCGTGTATGA
Found at i:8227732 original size:17 final size:17
Alignment explanation
Indices: 8227701--8227745 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
8227691 CCCGATATAA
8227701 TAAATATATTTATTTTT
1 TAAATATATTTATTTTT
*
8227718 TAAAT-TATTTAATTTT
1 TAAATATATTTATTTTT
* *
8227734 AAAATATTTTTA
1 TAAATATATTTA
8227746 AAATATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAATATATTTATTTTT
Found at i:8227735 original size:15 final size:16
Alignment explanation
Indices: 8227701--8227742 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8227691 CCCGATATAA
*
8227701 TAAATATATTTATTTTT
1 TAAAT-TATTTATATTT
8227718 TAAATTATTTA-ATTT
1 TAAATTATTTATATTT
*
8227733 TAAAATATTT
1 TAAATTATTT
8227743 TTAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 12 0.52
16 6 0.26
17 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATTATTTATATTT
Found at i:8227746 original size:11 final size:11
Alignment explanation
Indices: 8227730--8227796 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
8227720 AATTATTTAA
8227730 TTTTAAAATAT
1 TTTTAAAATAT
8227741 TTTTAAAATA-
1 TTTTAAAATAT
* *
8227751 TTTTATTATTAT
1 TTTTA-AAATAT
*
8227763 TTTT----TAA
1 TTTTAAAATAT
8227770 TTTTAAAATAT
1 TTTTAAAATAT
8227781 TTTTAAAATACT
1 TTTTAAAATA-T
8227793 TTTT
1 TTTT
8227797 TTAATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 6 0.13
10 5 0.11
11 25 0.56
12 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8227771 original size:40 final size:38
Alignment explanation
Indices: 8227713--8227807 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 38
8227703 AATATATTTA
* *
8227713 TTTTTTAAATTATTTAATTTTAAAATATTTTTAAAATAT
1 TTTTTTTAATT-TTTAATTTTAAAATATTTTTAAAATAC
*
8227752 TTTATTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTT-TT-TTAATTTTTAATTTTAAAATATTTTTAAAATAC
8227792 TTTTTTTAATTTTTAA
1 TTTTTTTAATTTTTAA
8227808 AATAAGTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 10 0.20
39 5 0.10
40 31 0.62
41 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (38 bp):
TTTTTTTAATTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:8227817 original size:21 final size:21
Alignment explanation
Indices: 8227779--8227818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8227769 ATTTTAAAAT
**
8227779 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAGTTTTTTA
8227800 ATTTTTAAAATAAGTTTTT
1 ATTTTTAAAATAAGTTTTT
8227819 GGTATTTATT
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:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAGTTTTTTA
Found at i:8227825 original size:22 final size:20
Alignment explanation
Indices: 8227778--8227832 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
8227768 AATTTTAAAA
*
8227778 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATACTTTTTG
*
8227798 TAATTTTTAAAATAAGTTTTTGG
1 T-ATTTTTAAAAT-ACTTTTT-G
8227821 TATTTATTAAAA
1 TATTT-TTAAAA
8227833 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTTTAAAATACTTTTTG
Found at i:8231479 original size:32 final size:32
Alignment explanation
Indices: 8231429--8231489 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
8231419 TATATCATAA
8231429 ATTATAAAAAAAAATTCTAACTA-TACATTTT
1 ATTATAAAAAAAAATTCTAACTACTACATTTT
8231460 ATTA-AAAAAAAAACTTTCTAACTACTACAT
1 ATTATAAAAAAAAA--TTCTAACTACTACAT
8231490 ATAATCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 9 0.33
31 4 0.15
32 9 0.33
33 5 0.19
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
ATTATAAAAAAAAATTCTAACTACTACATTTT
Found at i:8236429 original size:27 final size:27
Alignment explanation
Indices: 8236399--8236460 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
8236389 ATTAACAATT
8236399 AATTAATTTTTTAAAATTTAAAAAAAA
1 AATTAATTTTTTAAAATTTAAAAAAAA
* * * **
8236426 AATTAATTTTTTTAATTTTACAAAATT
1 AATTAATTTTTTAAAATTTAAAAAAAA
8236453 AATTAATT
1 AATTAATT
8236461 ACTTATGCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTAATTTTTTAAAATTTAAAAAAAA
Found at i:8250099 original size:2 final size:2
Alignment explanation
Indices: 8250092--8250133 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8250082 GGGCATTGCG
8250092 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8250134 ATATATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8250138 original size:2 final size:2
Alignment explanation
Indices: 8250133--8250162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8250123 TCTCTCTCTC
8250133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8250163 CACGTTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8250828 original size:60 final size:60
Alignment explanation
Indices: 8250735--8250857 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
8250725 CCGGCAGTCA
*
8250735 TGGGATTTAAAGGAGGGACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
1 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
8250795 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
1 TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
8250855 TGG
1 TGG
8250858 TGTGTTTTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (60 bp):
TGGGATTTAAAGGAGGCACAAAGTTCCGCACCTCCCACCGTGGAACTGCAGCATATCAAC
Found at i:8251049 original size:4 final size:4
Alignment explanation
Indices: 8251040--8251064 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8251030 TGTGAGTATC
8251040 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
8251065 ATCCGAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8261357 original size:24 final size:24
Alignment explanation
Indices: 8261328--8261383 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
8261318 AGTGTCCAAA
*
8261328 TTTCTTTAACTT-GTTTACCGTCAG
1 TTTCTTTAA-TTCGTTTACCATCAG
*
8261352 TTTCTTCAATTCGTTTACCATCAG
1 TTTCTTTAATTCGTTTACCATCAG
8261376 TTT-TTTAA
1 TTTCTTTAA
8261384 GCACAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTCTTTAATTCGTTTACCATCAG
Found at i:8269090 original size:11 final size:10
Alignment explanation
Indices: 8269074--8269112 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
8269064 GACTTCTGAT
8269074 TTTTTTTTTCA
1 TTTTTTTTT-A
8269085 TTTTTTGTTTA
1 TTTTTT-TTTA
*
8269096 TTTTTTCTTA
1 TTTTTTTTTA
8269106 TTTTTTT
1 TTTTTTT
8269113 GTGATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.36
11 13 0.52
12 3 0.12
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:8285297 original size:20 final size:20
Alignment explanation
Indices: 8285253--8285298 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
8285243 TATTGGTTAT
8285253 ATTTTATTATTTAAAATATA
1 ATTTTATTATTTAAAATATA
* *
8285273 A-TTTATATATTTGAATTA-A
1 ATTTTAT-TATTTAAAATATA
8285292 ATTTTAT
1 ATTTTAT
8285299 GAATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTATTATTTAAAATATA
Found at i:8285350 original size:21 final size:22
Alignment explanation
Indices: 8285326--8285370 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
8285316 TGTTTAAAAA
* *
8285326 ATATTTAAAATTTA-TTTTTAT
1 ATATTAAAAAATTACTTTTTAT
8285347 ATATTAAAAAATTACTTTTTAT
1 ATATTAAAAAATTACTTTTTAT
8285369 AT
1 AT
8285371 TCCTACTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTAAAAAATTACTTTTTAT
Found at i:8286110 original size:17 final size:19
Alignment explanation
Indices: 8286067--8286110 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
8286057 TTGAAGTTCC
8286067 TTAT-TAAAATTTAGAAAA
1 TTATATAAAATTTAGAAAA
*
8286085 TTCTA-AAAA-TTA-AAAA
1 TTATATAAAATTTAGAAAA
8286101 TTATATAAAA
1 TTATATAAAA
8286111 ATAGATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATATAAAATTTAGAAAA
Found at i:8291790 original size:17 final size:16
Alignment explanation
Indices: 8291770--8291815 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8291760 TATATATGTA
8291770 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
8291787 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
8291803 CT-ATAAA-ATTAAA
1 -TAATAAATATTAAA
8291816 CTTTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:8291802 original size:16 final size:17
Alignment explanation
Indices: 8291770--8291802 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8291760 TATATATGTA
8291770 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
8291787 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
8291803 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:8296595 original size:46 final size:46
Alignment explanation
Indices: 8296521--8296706 Score: 250
Period size: 46 Copynumber: 4.0 Consensus size: 46
8296511 ACAATGCTAT
* * ** * *
8296521 AACTCAGTATGGTTTCCTCCATTTAAATACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCATCGAAACACCATACCTACTTTTCAC
* *
8296567 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAACACCATACCTACTTTTCAC
*
8296613 AACTCAGTATGATTTTCTTCACTC-AAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCA-TCGAAACACCATACCTACTTTTCAC
*
8296659 AACTCAGTATGGTTTTCTTCA-CTGAAACACCATACCTTCTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAACACCATACCTACTTTTCAC
8296705 AA
1 AA
8296707 TTTGCCATGG
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.01
46 123 0.98
47 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATCGAAACACCATACCTACTTTTCAC
Found at i:8298249 original size:24 final size:24
Alignment explanation
Indices: 8298192--8298242 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
8298182 TGCTTCCTGA
8298192 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
* *
8298216 TTAAGTGCTCTTTGGAGCTACTCG
1 TTAAGTGCTCTTCGGAGCTACCCG
8298240 TTA
1 TTA
8298243 TATGCTCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTACCCG
Found at i:8300395 original size:18 final size:15
Alignment explanation
Indices: 8300358--8300387 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8300348 GAATATGGTA
8300358 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
8300373 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
8300388 TACTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Done.