Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 41
Found at i:7282026 original size:3 final size:3
Alignment explanation
Indices: 7282018--7282058 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
7282008 CTTTTAACAT
*
7282018 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7282059 CTTTCATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7282857 original size:2 final size:2
Alignment explanation
Indices: 7282852--7282919 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
7282842 AGAGATTACA
*
7282852 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7282894 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 A
7282920 AAATAATTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7290298 original size:60 final size:60
Alignment explanation
Indices: 7290179--7290299 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
7290169 TAATGAATAT
* * * *
7290179 TTAGATGATCATTTTGTAACTTTTAACAGTCGAAGGACTCGACAAAATAACTTTCTATAG
1 TTAGAAGATCATTTTATAACTTTTAACAGTCAAAGGACTCGACAAAATAACTATCTATAG
* * *
7290239 TTAGAAGATTATTTTATAACTTTTAATAGTTAAAGGACTTC-ACAAAATAA-TATCTTATAG
1 TTAGAAGATCATTTTATAACTTTTAACAGTCAAAGGAC-TCGACAAAATAACTATC-TATAG
7290299 T
1 T
7290300 CAATGGATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.06
60 47 0.90
61 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (60 bp):
TTAGAAGATCATTTTATAACTTTTAACAGTCAAAGGACTCGACAAAATAACTATCTATAG
Found at i:7290699 original size:17 final size:18
Alignment explanation
Indices: 7290672--7290709 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
7290662 TAAAATTATT
7290672 AATTTTCTAAACTCCTAA
1 AATTTTCTAAACTCCTAA
* *
7290690 AATTTT-TAAATTGCTAA
1 AATTTTCTAAACTCCTAA
7290707 AAT
1 AAT
7290710 CTCTCAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTTTCTAAACTCCTAA
Found at i:7291959 original size:2 final size:2
Alignment explanation
Indices: 7291952--7291976 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7291942 GGAATGGTTC
7291952 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 A
7291977 CCTATTCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7296397 original size:20 final size:20
Alignment explanation
Indices: 7296356--7296398 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7296346 AAAATATTAT
*
7296356 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
7296376 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
7296396 TAA
1 TAA
7296399 AACCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Found at i:7296757 original size:84 final size:84
Alignment explanation
Indices: 7296621--7296893 Score: 312
Period size: 84 Copynumber: 3.2 Consensus size: 84
7296611 CTGAATGAAA
* * * * *
7296621 TCGAACTCGTTAGGTCTTTGGTTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTGGAAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
7296686 TGCCTCGGAGCTGAGCGTAG
65 TGCCTCGGAGCTGAGCGTAG
* * * * * *
7296706 TCAAACTCGAAGGTATTTGGTTGGAAAATAGCCCTTCTTGCCTTGATCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
* *
7296771 ACCTTGGAGCTGAGCGTAG
66 GCCTCGGAGCTGAGCGTAG
* * * * * *
7296790 TCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCTTTGAGCTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
* * *
7296855 GCCCTCGAAGCTGAGTGTAA
66 G-CCTCGGAGCTGAGCGTAG
**
7296875 TCGAACTCGGGGGTCTTTG
1 TCGAACTCGAAGGTCTTTG
7296894 ACAGATAGCC
Statistics
Matches: 155, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
84 117 0.75
85 38 0.25
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
GCCTCGGAGCTGAGCGTAG
Found at i:7297238 original size:106 final size:106
Alignment explanation
Indices: 7297041--7298739 Score: 2769
Period size: 106 Copynumber: 16.0 Consensus size: 106
7297031 TCCTTCGTCG
* * *
7297041 TGAAGTTGA-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGGGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
7297105 CTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
7297146 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* **
7297211 CTAGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
7297252 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
7297317 CTGGAGTCCAATATCTTTCGTTATGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
7297358 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
7297423 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
7297464 TGAAATTGAGAAGTTATTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
7297529 CTGGAGTCCAATATCATTCGATGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
7297570 TGAAATT-AGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
7297634 TCTGGATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
7297676 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
7297741 CTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
7297782 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGTGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
7297847 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
7297888 TGAAATTGAGAAGTTATTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
7297953 CTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
7297994 TGAAATT-AGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
7298058 TCTGGATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
7298100 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
7298165 CTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
7298206 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCTCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
7298271 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
7298312 TGAAATTGAGAAGTTATTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
7298377 CTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
7298418 TGAAATT-AGGAAGTTATTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
7298482 TATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
7298524 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
7298589 CTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * * *
7298630 TAGAAGTGGA-AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTG
1 T-GAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* * ** * *
7298694 TCTGGAGTCCAATTTTCTTCGCTACGAAGTTGAAATAGACTC
65 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
7298736 TGAA
1 TGAA
7298740 TGAAATTGGA
Statistics
Matches: 1497, Mismatches: 89, Indels: 16
0.93 0.06 0.01
Matches are distributed among these distances:
105 13 0.01
106 1475 0.99
107 9 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:7301648 original size:17 final size:17
Alignment explanation
Indices: 7301622--7301654 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7301612 TGCAAATGAT
*
7301622 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
7301639 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
7301655 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:7302778 original size:19 final size:21
Alignment explanation
Indices: 7302735--7302778 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
7302725 TATAATAGTG
* *
7302735 ATAATAAAATAAATAGAATAG
1 ATAACAAAATAAATAGAATAA
7302756 ATAACAAAA-AAAT-GAATAA
1 ATAACAAAATAAATAGAATAA
7302775 ATAA
1 ATAA
7302779 AAGTTGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (21 bp):
ATAACAAAATAAATAGAATAA
Found at i:7304223 original size:20 final size:20
Alignment explanation
Indices: 7304182--7304224 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7304172 AAAATATTAT
*
7304182 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
7304202 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
7304222 TAA
1 TAA
7304225 AACCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Found at i:7304630 original size:13 final size:14
Alignment explanation
Indices: 7304602--7304630 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7304592 ATTGCGAAAA
7304602 TTAAAAATTTAAAT
1 TTAAAAATTTAAAT
7304616 TTAAAAA-TTAAAT
1 TTAAAAATTTAAAT
7304629 TT
1 TT
7304631 GAATCGCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAAATTTAAAT
Found at i:7304765 original size:21 final size:21
Alignment explanation
Indices: 7304693--7304768 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
7304683 GATAATAATA
7304693 ATAATAAATGAAA-ATAAAAAAT
1 ATAATAAAT-AAATA-AAAAAAT
* * *
7304715 TTAAAAAATAGAAT-AATAAAT
1 ATAATAAATA-AATAAAAAAAT
*
7304736 CA-AAGAAATAAATAAAAAAAT
1 -ATAATAAATAAATAAAAAAAT
7304757 ATAATAAATAAA
1 ATAATAAATAAA
7304769 ATCCTTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
20 4 0.10
21 29 0.69
22 9 0.21
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (21 bp):
ATAATAAATAAATAAAAAAAT
Found at i:7306251 original size:22 final size:22
Alignment explanation
Indices: 7306221--7306274 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
7306211 AACATGTATG
7306221 TAAAAAAATAGA-AATAAATAAA
1 TAAAAAAATAGATAA-AAATAAA
* *
7306243 TAAATAAATGGATAAAAATAAA
1 TAAAAAAATAGATAAAAATAAA
7306265 -AATAAAAATA
1 TAA-AAAAATA
7306275 TATATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (22 bp):
TAAAAAAATAGATAAAAATAAA
Found at i:7310495 original size:3 final size:3
Alignment explanation
Indices: 7310489--7310523 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
7310479 AAAAATGAAA
7310489 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
7310524 TATATATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7310513 original size:16 final size:16
Alignment explanation
Indices: 7310492--7310523 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7310482 AATGAAAAAT
7310492 AATAATAATAATAATA
1 AATAATAATAATAATA
7310508 AATAATAATAATAATA
1 AATAATAATAATAATA
7310524 TATATATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:7310688 original size:36 final size:36
Alignment explanation
Indices: 7310581--7310805 Score: 192
Period size: 36 Copynumber: 6.1 Consensus size: 36
7310571 AAATGTTTTT
* *
7310581 TTTTTAAAACTATATAATATACGAATGTTTTCCAACATG
1 TTTTAAAAACTATATAATATA--AATGTTTT-CAAAATG
* * * *
7310620 TTTTCAAAAA--AGATTATATAAAT-TTTCCCAAAACG
1 TTTT-AAAAACTATATAATATAAATGTTT-TCAAAATG
7310655 TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
1 TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
* *
7310691 TTTTCAAAAC--TATAATATATATGTTTTCAAAAATG
1 TTTTAAAAACTATATAATATAAATGTTTTC-AAAATG
*
7310726 TTTTCAAAAACTATATATATATATAA-GTTTTCCAAATG
1 TTTT-AAAAACTATATA-ATATA-AATGTTTTCAAAATG
* * * *
7310764 ATTTTAAAAATTATATATTATATATATTTTCTAAAATG
1 -TTTTAAAAACTATATAATATAAATGTTTTC-AAAATG
7310802 TTTT
1 TTTT
7310806 TTTTAAAACT
Statistics
Matches: 152, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
34 22 0.14
35 22 0.14
36 35 0.23
37 16 0.11
38 33 0.22
39 19 0.12
40 5 0.03
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
Found at i:7310691 original size:11 final size:11
Alignment explanation
Indices: 7310675--7310699 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7310665 TATATAATAT
7310675 AAATGTTTTCA
1 AAATGTTTTCA
7310686 AAATGTTTTCA
1 AAATGTTTTCA
7310697 AAA
1 AAA
7310700 CTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:7310728 original size:12 final size:12
Alignment explanation
Indices: 7310711--7310735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7310701 TATAATATAT
7310711 ATGTTTTCAAAA
1 ATGTTTTCAAAA
7310723 ATGTTTTCAAAA
1 ATGTTTTCAAAA
7310735 A
1 A
7310736 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:7310735 original size:72 final size:71
Alignment explanation
Indices: 7310581--7310805 Score: 222
Period size: 74 Copynumber: 3.1 Consensus size: 71
7310571 AAATGTTTTT
* * * * *
7310581 TTTTTAAAACTATATAATATACGAATGTTTTCCAACATGTTTTCAAAAAAGATTATATAAATTTT
1 TTTTAAAAACTATATAATATAC-AATGTTTT-CAAAATGTTTTC-AAAAATATAATATATATTTT
* * *
7310646 CCCAAAACG
63 TCAAAAATG
*
7310655 TTTTAAAAACTATATAATATA-AATGTTTTCAAAATGTTTTCAAAACTATAATATATATGTTTTC
1 TTTTAAAAACTATATAATATACAATGTTTTCAAAATGTTTTCAAAAATATAATATATAT-TTTTC
7310719 AAAAATG
65 AAAAATG
* *
7310726 TTTTCAAAAACTATATATATATATAA-GTTTTCCAAATGATTTT-AAAAATTATATATTATATAT
1 TTTT-AAAAACTATATA-ATATACAATGTTTTCAAAATG-TTTTCAAAAA-TATA-A-TATATAT
*
7310789 ATTTTCTAAAATG
60 -TTTTCAAAAATG
7310802 TTTT
1 TTTT
7310806 TTTTAAAACT
Statistics
Matches: 130, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
70 13 0.10
71 24 0.18
72 20 0.15
73 20 0.15
74 30 0.23
75 1 0.01
76 22 0.17
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (71 bp):
TTTTAAAAACTATATAATATACAATGTTTTCAAAATGTTTTCAAAAATATAATATATATTTTTCA
AAAATG
Found at i:7310907 original size:18 final size:18
Alignment explanation
Indices: 7310872--7310910 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7310862 CGTAGTTTCA
* *
7310872 AAATATGTATATATATAT
1 AAATATGTAGATACATAT
*
7310890 AAATATGTAGGTACATAT
1 AAATATGTAGATACATAT
7310908 AAA
1 AAA
7310911 GGGGGAAAAA
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:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (18 bp):
AAATATGTAGATACATAT
Found at i:7311944 original size:169 final size:163
Alignment explanation
Indices: 7311537--7312375 Score: 823
Period size: 169 Copynumber: 5.1 Consensus size: 163
7311527 AAGGTCTTTA
* * * * * **
7311537 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGC-AAATGATGTGCCCTCGAAGCTGAATGTAATC
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTG-CCTTGAAGCTGAGCGTAATC
* **** * ** * * * *
7311601 AAACTTGGGGGTCTTTGGCAGATAGCTATTCTCGACTTAACCTATACTGCAAATGATGTGCCTTG
65 GAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTG
* * *
7311666 GAGCTGAGTGTAGTCGAACTCGAAGGTCTTGGTGG
130 AAGCTGAGTGTAGTCGAACT-GAAGGTCTTTGTTG
* * * * * *
7311701 GCAGATAGCCCTTCTGGACTTAAGCTATTCTGC-AAATGATGTGCCTTGGAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTGAAGCTGAGCGTAATCG
* * * *
7311765 AACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCC
66 AACTCAAAGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CC
* *
7311830 TTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
127 TTGAAGCTGAGTGTAGTCGAACTGAA-GGTCTTT-GTTG
* *
7311869 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTGAAGCTGAGCGTAATCG
* * * *
7311934 AACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCC
66 AACTCAAAGGTCTTT-G-G-CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG-CC
* *
7311999 TTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
127 TTGAAGCTGAGTGTAGTCGAACTGAA-GGTCTTT-GTTG
*
7312038 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTCGAAGCTGAACGTAATC
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTT-GAAGCTGAGCGTAATC
* * * * *
7312103 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATGCCTT-
65 GAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTG
* * *
7312167 ----TGAGCGTAGTCGAACTCAAAGGTCTTTGGTG
130 AAGCTGAGTGTAGTCGAACT-GAAGGTCTTTGTTG
* * * * * * * *
7312198 ACAGATAACCCTTCTAGCCTTGAGTTATGCTG-TAAATGATGTGCCCTCGAAGCTGAGTGTAATC
1 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTG-CCTTGAAGCTGAGCGTAATC
*** * * * *
7312262 GAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
65 GAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTG
* * *
7312327 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTG
130 AAGCTGAGTGTAGTCGAACT-GAAGGTCTTTGTTG
*
7312361 GCAGATAGCCCTTCT
1 GCAGATAACCCTTCT
7312376 GGCCTTGAGC
Statistics
Matches: 598, Mismatches: 62, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
159 86 0.14
160 33 0.06
161 21 0.04
162 2 0.00
163 45 0.08
164 65 0.11
165 1 0.00
166 37 0.06
167 64 0.11
168 33 0.06
169 184 0.31
170 27 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (163 bp):
GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTGAAGCTGAGCGTAATCG
AACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGA
AGCTGAGTGTAGTCGAACTGAAGGTCTTTGTTG
Found at i:7312201 original size:245 final size:243
Alignment explanation
Indices: 7311537--7312397 Score: 962
Period size: 245 Copynumber: 3.5 Consensus size: 243
7311527 AAGGTCTTTA
* * * *
7311537 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAATGTAATCA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAACGTAATCG
* * ** *
7311602 AACTTGGGGGTCTTTGGCAGATAGCTATTCTCGACTTAACCTATACTGCAAATGATGTGCCTTGG
65 AACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT--
* * * * * * * * *
7311667 AGCTGAGTGTAGTCGAACTCGAAGGTC-TTGGTGGGCAGATAGCCCTTCTGGACTTAAGCTATTC
128 -G-TGAGCGTAGTCGAACTCAAAGGTCTTTGGT-GACAGATAACCCTTCTAGCCTTGAGTTATGC
* * * * * *
7311731 TGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTG
190 TGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTG
* * * * * * * **
7311784 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGAAGCTGAACGTAATCG
** * * *
7311849 AACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGC
65 AACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGC-AAATGATGTGC
7311914 CTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
125 CTT---G-TGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
* *
7311979 ATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTG
186 ATGCTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTT-GTTG
* * *
7312038 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAAATGATGTGCCTTCGAAGCTGAACGTAATC
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGC-AAATGATGTGCCTT-GAAGCTGAACGTAATC
* *
7312103 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATGCCTT-
64 GAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTG
7312167 TGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
129 TGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* **
7312232 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTG
194 AATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTG
* * * * *
7312279 GCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAACGTAATCGA
* * * *
7312344 ACTCGAAGGTCTTGGTGGCAGATAGCCCTTCTGGCCTTGAGCTA-AGCTGCAAAT
66 ACTCGAGGGTCTT--TGGCAGATAGCCCTTCTCGACTTAAGCTATA-CTGCAAAT
7312398 AGTTTGTTTA
Statistics
Matches: 532, Mismatches: 69, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
239 27 0.05
240 14 0.03
241 66 0.12
243 1 0.00
245 103 0.19
247 64 0.12
249 1 0.00
250 13 0.02
251 62 0.12
252 76 0.14
253 37 0.07
254 34 0.06
255 34 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (243 bp):
GCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAAGCTGAACGTAATCGA
ACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGTG
AGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
TGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTG
Found at i:7315749 original size:19 final size:19
Alignment explanation
Indices: 7315725--7315770 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
7315715 AGTTAATGTG
7315725 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
7315744 AATGCAAAGAAAATAACGA
1 AATGCAAAGAAAATAACAA
7315763 AATGCAAA
1 AATGCAAA
7315771 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:7316410 original size:17 final size:18
Alignment explanation
Indices: 7316381--7316434 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
7316371 TGATGCAAAC
*
7316381 GATGAACACAAAATAAAA
1 GATGAACAAAAAATAAAA
*
7316399 GA-GAACAAAAAAAAAAA
1 GATGAACAAAAAATAAAA
* * *
7316416 AATAAAAAAAAAATAAAA
1 GATGAACAAAAAATAAAA
7316434 G
1 G
7316435 GGTTAGTGAG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.78, C:0.06, G:0.09, T:0.07
Consensus pattern (18 bp):
GATGAACAAAAAATAAAA
Found at i:7316422 original size:11 final size:11
Alignment explanation
Indices: 7316390--7316433 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
7316380 CGATGAACAC
7316390 AAAATAAAAGAGA
1 AAAATAAAA-A-A
7316403 ACAAA-AAAAAA
1 A-AAATAAAAAA
7316414 AAAATAAAAAA
1 AAAATAAAAAA
7316425 AAAATAAAA
1 AAAATAAAA
7316434 GGGTTAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.10
11 17 0.59
12 1 0.03
13 5 0.17
14 3 0.10
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:7318863 original size:36 final size:36
Alignment explanation
Indices: 7318756--7318980 Score: 201
Period size: 36 Copynumber: 6.1 Consensus size: 36
7318746 TTTTTTTTTT
*
7318756 TTTTAAAAACTATATAATATACGAATGTTTTCCAACATG
1 TTTTAAAAACTATATAATATA--AATGTTTT-CAAAATG
* * * *
7318795 TTTTCAAAAA--AGATTATATAAAT-TTTCCCAAAACG
1 TTTT-AAAAACTATATAATATAAATGTTT-TCAAAATG
7318830 TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
1 TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
* *
7318866 TTTTCAAAAC--TATAATATATATGTTTTCAAAAATG
1 TTTTAAAAACTATATAATATAAATGTTTTC-AAAATG
*
7318901 TTTTCAAAAACTATATATATATATAA-GTTTTCCAAATG
1 TTTT-AAAAACTATATA-ATATA-AATGTTTTCAAAATG
* * * *
7318939 ATTTTAAAAATTATATATTATATATATTTTCTAAAATG
1 -TTTTAAAAACTATATAATATAAATGTTTTC-AAAATG
7318977 TTTT
1 TTTT
7318981 TTTTAAAACT
Statistics
Matches: 153, Mismatches: 19, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
34 22 0.14
35 22 0.14
36 35 0.23
37 16 0.10
38 33 0.22
39 19 0.12
40 6 0.04
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATAAATGTTTTCAAAATG
Found at i:7318866 original size:11 final size:11
Alignment explanation
Indices: 7318850--7318874 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7318840 TATATAATAT
7318850 AAATGTTTTCA
1 AAATGTTTTCA
7318861 AAATGTTTTCA
1 AAATGTTTTCA
7318872 AAA
1 AAA
7318875 CTATAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:7318903 original size:12 final size:12
Alignment explanation
Indices: 7318886--7318910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7318876 TATAATATAT
7318886 ATGTTTTCAAAA
1 ATGTTTTCAAAA
7318898 ATGTTTTCAAAA
1 ATGTTTTCAAAA
7318910 A
1 A
7318911 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:7322148 original size:30 final size:30
Alignment explanation
Indices: 7322109--7322173 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
7322099 ACCATTTTTC
*
7322109 TAATTTTATTTTATTTATTTAATATTAATA
1 TAATATTATTTTATTTATTTAATATTAATA
7322139 TAATATTATTTTATTTATTTAATATTAATA
1 TAATATTATTTTATTTATTTAATATTAATA
7322169 TAATA
1 TAATA
7322174 GTTTAGTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TAATATTATTTTATTTATTTAATATTAATA
Found at i:7322190 original size:30 final size:30
Alignment explanation
Indices: 7322124--7322191 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
7322114 TTATTTTATT
** *
7322124 TATTTAATATTAATATAATATTATTTTATT
1 TATTTAATATTAATATAATATTATAGTATA
7322154 TATTTAATATTAATATAATAGTT-TAGTATCA
1 TATTTAATATTAATATAATA-TTATAGTAT-A
7322185 T-TTTAAT
1 TATTTAAT
7322192 TAAAATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (30 bp):
TATTTAATATTAATATAATATTATAGTATA
Found at i:7322210 original size:15 final size:16
Alignment explanation
Indices: 7322190--7322219 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7322180 TATCATTTTA
7322190 ATTAAAATA-TTAATT
1 ATTAAAATAGTTAATT
7322205 ATTAAAATAGTTAAT
1 ATTAAAATAGTTAAT
7322220 ATATATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAAAATAGTTAATT
Found at i:7322713 original size:12 final size:13
Alignment explanation
Indices: 7322642--7322713 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 13
7322632 GTATTCAATT
*
7322642 TTAATATAATATTA
1 TTAATATTAT-TTA
7322656 -TAATATTATTTTAA
1 TTAATATTA-TTT-A
7322670 TTAATATATTATTTA
1 TT-A-ATATTATTTA
7322685 TTAA-ATTATTTA
1 TTAATATTATTTA
*
7322697 -AAATA-TATTTA
1 TTAATATTATTTA
7322708 TTAATA
1 TTAATA
7322714 AAATTATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
11 8 0.17
12 13 0.27
13 10 0.21
14 3 0.06
15 4 0.08
16 4 0.08
17 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATATTATTTA
Found at i:7322725 original size:26 final size:27
Alignment explanation
Indices: 7322672--7322743 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
7322662 TATTTTAATT
* * *
7322672 AATATA-TTATTTATTAAATTATTTAA
1 AATATATTTATTAATAAAATTATTAAA
7322698 AATATATTTATTAATAAAATTA-TAAA
1 AATATATTTATTAATAAAATTATTAAA
*
7322724 AAGTAATATTGTAGTAATAA
1 AA-T-ATATT-TATTAATAA
7322744 TATTGAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 11 0.29
27 14 0.37
28 5 0.13
29 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
AATATATTTATTAATAAAATTATTAAA
Found at i:7327619 original size:20 final size:21
Alignment explanation
Indices: 7327581--7327661 Score: 119
Period size: 21 Copynumber: 3.9 Consensus size: 21
7327571 CAGATTGTCT
7327581 AGGGGGTACAGATTCCCCCCC
1 AGGGGGTACAGATTCCCCCCC
*
7327602 AGGGGGTACCGATT-CCCCCC
1 AGGGGGTACAGATTCCCCCCC
* *
7327622 AAGGGGAACAGATTCCCCCCC
1 AGGGGGTACAGATTCCCCCCC
*
7327643 AGGGGGTACCGATTCCCCC
1 AGGGGGTACAGATTCCCCC
7327662 TGTCTAACGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.14
Consensus pattern (21 bp):
AGGGGGTACAGATTCCCCCCC
Found at i:7327639 original size:41 final size:41
Alignment explanation
Indices: 7327583--7327661 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
7327573 GATTGTCTAG
*
7327583 GGGGTACAGATTCCCCCCCAGGGGGTACCGATTCCCCCCAA
1 GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCCCAA
7327624 GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCC
1 GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCC
7327662 TGTCTAACGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.14
Consensus pattern (41 bp):
GGGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCCCCAA
Found at i:7328051 original size:34 final size:32
Alignment explanation
Indices: 7328012--7328081 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
7328002 TTTTGTAAAG
*
7328012 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
7328046 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
7328078 GGGA
1 GGGA
7328082 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:7329001 original size:20 final size:20
Alignment explanation
Indices: 7328958--7329007 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7328948 GCTAGAGTTG
***
7328958 ATTTTGAAAATCAAAATTTC
1 ATTTTGAAAATCAAAATGAA
7328978 ATTTTGAAAATCAAAATGAA
1 ATTTTGAAAATCAAAATGAA
7328998 ATTTTGAAAA
1 ATTTTGAAAA
7329008 ATGATTTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTTTGAAAATCAAAATGAA
Found at i:7330832 original size:34 final size:32
Alignment explanation
Indices: 7330792--7330861 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
7330782 TTTTGTAAAG
* *
7330792 GGGAAAGGTTTTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
7330826 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
7330858 GGGA
1 GGGA
7330862 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:7334482 original size:26 final size:26
Alignment explanation
Indices: 7334452--7334504 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7334442 TATATTTGAG
7334452 TCACATTTGTACATTATAGGTTAATA
1 TCACATTTGTACATTATAGGTTAATA
7334478 TCACATTTGTACATTATAGGTTAATA
1 TCACATTTGTACATTATAGGTTAATA
7334504 T
1 T
7334505 GCATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (26 bp):
TCACATTTGTACATTATAGGTTAATA
Found at i:7335236 original size:16 final size:16
Alignment explanation
Indices: 7335215--7335247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7335205 TTAGTGAGGC
7335215 AATAATAT-AATATAAT
1 AATAATATCAATA-AAT
7335231 AATAATATCAATAAAT
1 AATAATATCAATAAAT
7335247 A
1 A
7335248 TAAAGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATATCAATAAAT
Found at i:7335666 original size:103 final size:102
Alignment explanation
Indices: 7335539--7335856 Score: 582
Period size: 103 Copynumber: 3.1 Consensus size: 102
7335529 TGTCCATAAG
7335539 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
7335604 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
* *
7335641 GAACCACATATAATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGA
1 G-ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGA
*
7335706 CCTCACACATGTTCCAAAGAATACATATATGTCCCGAA
65 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
7335744 GGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGA
1 -GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGA
7335809 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
65 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
7335847 TGACCACATA
1 -GACCACATA
7335857 GACCCTCTAC
Statistics
Matches: 207, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
102 1 0.00
103 205 0.99
104 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (102 bp):
GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
Found at i:7336372 original size:19 final size:20
Alignment explanation
Indices: 7336335--7336372 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7336325 CCTTTTTTTA
*
7336335 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
7336355 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
7336373 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:7346867 original size:2 final size:2
Alignment explanation
Indices: 7346860--7346897 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7346850 TTGATCCGTG
*
7346860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7346898 ATTATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7347449 original size:19 final size:18
Alignment explanation
Indices: 7347427--7347462 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7347417 ATATTTTTAT
*
7347427 TTTATTTTATTGATTTTGG
1 TTTAATTTATT-ATTTTGG
7347446 TTTAATTTATTATTTTG
1 TTTAATTTATTATTTTG
7347463 ATCAAATCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTAATTTATTATTTTGG
Found at i:7353602 original size:30 final size:31
Alignment explanation
Indices: 7353568--7353648 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 31
7353558 AACTTTTAAA
*
7353568 TATTATAAAATGATCATTA-ACTTGTTGAAC
1 TATTATAAAATGATCATTACACTTATTGAAC
* *
7353598 TATTATAAAATGATCGTAAACACTTATTGAAC
1 TATTATAAAATGATCAT-TACACTTATTGAAC
** *
7353630 TATTACGAAATGACCATTA
1 TATTATAAAATGATCATTA
7353649 GATTGACCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 16 0.39
31 2 0.05
32 23 0.56
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (31 bp):
TATTATAAAATGATCATTACACTTATTGAAC
Found at i:7353633 original size:32 final size:30
Alignment explanation
Indices: 7353556--7353634 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
7353546 TTTTGGTCAG
*
7353556 TAAACTT-TT-AAATATTATAAAATGATCA
1 TAAACTTATTGAACTATTATAAAATGATCA
* * *
7353584 TTAACTTGTTGAACTATTATAAAATGATCG
1 TAAACTTATTGAACTATTATAAAATGATCA
7353614 TAAACACTTATTGAACTATTA
1 T-AA-ACTTATTGAACTATTA
7353635 CGAAATGACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.14
29 2 0.05
30 18 0.43
31 1 0.02
32 15 0.36
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (30 bp):
TAAACTTATTGAACTATTATAAAATGATCA
Found at i:7356384 original size:28 final size:28
Alignment explanation
Indices: 7356351--7356413 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
7356341 ATTAAGTGCA
7356351 TATGCATAAAGTTATCCAAAACAAATGT
1 TATGCATAAAGTTATCCAAAACAAATGT
7356379 TATGCATAAAGTTATCCAAAACAAATGT
1 TATGCATAAAGTTATCCAAAACAAATGT
7356407 TATGCAT
1 TATGCAT
7356414 TTGAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (28 bp):
TATGCATAAAGTTATCCAAAACAAATGT
Found at i:7357183 original size:20 final size:20
Alignment explanation
Indices: 7357145--7357184 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7357135 CTCTAAATCA
*
7357145 TTTTTCAAAGATTCATTTTG
1 TTTTTCAAAGATTAATTTTG
7357165 TTTTTCAAAG-TTAACTTTTG
1 TTTTTCAAAGATTAA-TTTTG
7357185 CTTTCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTTCAAAGATTAATTTTG
Found at i:7360462 original size:11 final size:11
Alignment explanation
Indices: 7360446--7360471 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7360436 CCGTTGCCGG
7360446 TGGAGCAAAGT
1 TGGAGCAAAGT
7360457 TGGAGCAAAGT
1 TGGAGCAAAGT
7360468 TGGA
1 TGGA
7360472 TCTACGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.38, T:0.19
Consensus pattern (11 bp):
TGGAGCAAAGT
Found at i:7363469 original size:60 final size:60
Alignment explanation
Indices: 7363393--7363532 Score: 219
Period size: 60 Copynumber: 2.3 Consensus size: 60
7363383 TCGAGTAACC
* * * *
7363393 ATTTTGTAACTTTTAATAGTCGAAGGA-TTCAACAAAGCATCATCATATGGTCTAAGGACT
1 ATTTTATAACTTTTAATAGTCGAAAGACTT-AACAAAGCAACATCATATAGTCTAAGGACT
*
7363453 ATTTTATAACTTTTAATAGTCGAAAGACTTAACAAAGCAACATCATATAGTCTAATGACT
1 ATTTTATAACTTTTAATAGTCGAAAGACTTAACAAAGCAACATCATATAGTCTAAGGACT
7363513 ATTTTATAACTTTTAATAGT
1 ATTTTATAACTTTTAATAGT
7363533 TAGAGATTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
60 72 0.97
61 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGAAAGACTTAACAAAGCAACATCATATAGTCTAAGGACT
Found at i:7367541 original size:14 final size:15
Alignment explanation
Indices: 7367522--7367550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7367512 TTTGAGACCT
7367522 TACCCGT-CCGCATC
1 TACCCGTCCCGCATC
7367536 TACCCGTCCCGCATC
1 TACCCGTCCCGCATC
7367551 CGTCCGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.52, G:0.14, T:0.21
Consensus pattern (15 bp):
TACCCGTCCCGCATC
Found at i:7373474 original size:20 final size:20
Alignment explanation
Indices: 7373446--7373484 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7373436 TTTGCTTGGG
7373446 AAGAATTGGTACCTT-ATTCT
1 AAGAATTGGT-CCTTCATTCT
*
7373466 AAGATTTGGTCCTTCATTC
1 AAGAATTGGTCCTTCATTC
7373485 CGGGAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
AAGAATTGGTCCTTCATTCT
Found at i:7382227 original size:32 final size:32
Alignment explanation
Indices: 7382186--7382249 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
7382176 AGAAAATGGA
*
7382186 TCAGAGATTGCATATTCTTTGGTGAATACGTT
1 TCAGAGATTGCATATTCTTCGGTGAATACGTT
7382218 TCAGAGATTGCATATTCTTCGGTGAATACGTT
1 TCAGAGATTGCATATTCTTCGGTGAATACGTT
7382250 AACTCGTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (32 bp):
TCAGAGATTGCATATTCTTCGGTGAATACGTT
Found at i:7383669 original size:44 final size:44
Alignment explanation
Indices: 7383606--7383694 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
7383596 TAGCGTAAAC
7383606 TATGTTATGCAAACTCTTTATTTTCTCCGAATTCTCGCCAACAT
1 TATGTTATGCAAACTCTTTATTTTCTCCGAATTCTCGCCAACAT
7383650 TATGTTATGCAAACTCTTTATTTTCTCCGAATTCTCGCCAACAT
1 TATGTTATGCAAACTCTTTATTTTCTCCGAATTCTCGCCAACAT
7383694 T
1 T
7383695 TGTATCCGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.42
Consensus pattern (44 bp):
TATGTTATGCAAACTCTTTATTTTCTCCGAATTCTCGCCAACAT
Found at i:7387478 original size:89 final size:88
Alignment explanation
Indices: 7387323--7387500 Score: 329
Period size: 89 Copynumber: 2.0 Consensus size: 88
7387313 GATAAACTGC
*
7387323 TCATCAAATGAACAATTAGAATATACAGGAACTAAATTCTAACAAAACACCAAATGCCACATCCA
1 TCATCAAATGAACAATTAGAATATACAGGAACTAAATTCTAACAAAACACCAAATGCCACACCCA
7387388 TGTATTAATAATAATAACCAGTTT
66 TGTATTAATAATAATAACCA-TTT
*
7387412 TCATCAAATGAACAATTAGAATATACAGGAACTAAATTCTAACAAAACACCAAATGCCAGACCCA
1 TCATCAAATGAACAATTAGAATATACAGGAACTAAATTCTAACAAAACACCAAATGCCACACCCA
7387477 TGTATTAATAATAATAACCATTT
66 TGTATTAATAATAATAACCATTT
7387500 T
1 T
7387501 AAACAAGGAA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 4 0.05
89 83 0.95
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (88 bp):
TCATCAAATGAACAATTAGAATATACAGGAACTAAATTCTAACAAAACACCAAATGCCACACCCA
TGTATTAATAATAATAACCATTT
Found at i:7389756 original size:13 final size:13
Alignment explanation
Indices: 7389738--7389773 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7389728 TAAAGAGTCA
7389738 TTTTATAATAAGT
1 TTTTATAATAAGT
*
7389751 TTTTATATTAAGT
1 TTTTATAATAAGT
*
7389764 TTATATAATA
1 TTTTATAATA
7389774 TCTGATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
TTTTATAATAAGT
Found at i:7391836 original size:15 final size:15
Alignment explanation
Indices: 7391805--7391838 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7391795 ATATAATATT
7391805 AAAACTTGAACTCAA
1 AAAACTTGAACTCAA
7391820 AAAAGCTTGAACT-AA
1 AAAA-CTTGAACTCAA
7391835 AAAA
1 AAAA
7391839 AAATTAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAACTTGAACTCAA
Found at i:7391839 original size:16 final size:15
Alignment explanation
Indices: 7391805--7391839 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7391795 ATATAATATT
7391805 AAAACTTGAACTCAAA
1 AAAACTTGAACT-AAA
*
7391821 AAAGCTTGAACTAAA
1 AAAACTTGAACTAAA
7391836 AAAA
1 AAAA
7391840 AATTAGAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (15 bp):
AAAACTTGAACTAAA
Found at i:7395591 original size:39 final size:39
Alignment explanation
Indices: 7395537--7395672 Score: 263
Period size: 39 Copynumber: 3.5 Consensus size: 39
7395527 TGAAACTACA
*
7395537 TATATGCAAAGTGGAGCACAGATTAGTTTGCTTGGAAAT
1 TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
7395576 TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
1 TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
7395615 TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
1 TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
7395654 TATATGCAAAGTGGAGCAC
1 TATATGCAAAGTGGAGCAC
7395673 TTTCATTAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (39 bp):
TATATGCAAAGTGGAGCACAGATCAGTTTGCTTGGAAAT
Found at i:7396130 original size:16 final size:16
Alignment explanation
Indices: 7396105--7396190 Score: 102
Period size: 16 Copynumber: 5.4 Consensus size: 16
7396095 GGTATTATCC
7396105 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
**
7396121 GATTTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* * *
7396137 AACATGTTTTTAACCT
1 GACCTGTTTTCAACCT
* *
7396153 GATCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
7396169 GACCTGTTTT-AACCT
1 GACCTGTTTTCAACCT
7396184 GACCTGT
1 GACCTGT
7396191 AAATGATCCG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
15 12 0.20
16 48 0.80
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:7396337 original size:17 final size:18
Alignment explanation
Indices: 7396304--7396337 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7396294 CCGCTACTAG
7396304 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
7396322 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
7396338 GACCGGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:7396620 original size:37 final size:37
Alignment explanation
Indices: 7396563--7396667 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
7396553 CCTTTTCGTC
* *
7396563 CTACTAAGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
7396600 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
7396637 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
7396668 CCACAAGCAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:7398777 original size:64 final size:65
Alignment explanation
Indices: 7398683--7398811 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 65
7398673 ATTCAAGGGA
*
7398683 ACCGATACCCCTTCAACGAATATGATTTCCAGAATGCTAGAGGGGAATCGATA-CCCCAGGGGGG
1 ACCGATACCCCTTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGGGGG
* * * *
7398747 ACCGATACCCC-TCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCAGGGGG
1 ACCGATACCCCTTCAACGAATATG-AATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGGGG
7398811 G
65 G
7398812 GGAACCGATT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
63 10 0.17
64 37 0.64
65 11 0.19
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (65 bp):
ACCGATACCCCTTCAACGAATATGAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAGGGGGG
Found at i:7399246 original size:30 final size:30
Alignment explanation
Indices: 7399188--7399246 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7399178 GTTATATGGG
*
7399188 CTATGTGATAAAGGTATGAAATTGATATGT
1 CTATGTGATAAAGGTATGAAATTAATATGT
7399218 CTATGTGATAAAGGTATGGAAA-TAATATG
1 CTATGTGATAAAGGTAT-GAAATTAATATG
7399247 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAATTAATATGT
Found at i:7399534 original size:22 final size:22
Alignment explanation
Indices: 7399460--7399526 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
7399450 TTATGGACAT
7399460 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
*
7399482 AATTCTATGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7399504 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7399526 A
1 A
7399527 TTTATACGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:7405574 original size:21 final size:21
Alignment explanation
Indices: 7405548--7405590 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7405538 TTTCTGGGTT
* *
7405548 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
7405569 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
7405590 A
1 A
7405591 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:7405650 original size:66 final size:69
Alignment explanation
Indices: 7405570--7405721 Score: 220
Period size: 66 Copynumber: 2.2 Consensus size: 69
7405560 ACCCATTCAA
* *
7405570 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
7405633 -GGG
66 GGGG
* * * *
7405636 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
7405701 GGGG
66 GGGG
*
7405705 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
7405722 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
66 26 0.34
67 26 0.34
68 5 0.07
69 19 0.25
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGGG
Found at i:7406146 original size:30 final size:30
Alignment explanation
Indices: 7406088--7406146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7406078 GTTATATGGG
*
7406088 CTATGTGATAAAGGTATGAAATTGATATGT
1 CTATGTGATAAAGGTATGAAATTAATATGT
7406118 CTATGTGATAAAGGTATGGAAA-TAATATG
1 CTATGTGATAAAGGTAT-GAAATTAATATG
7406147 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAATTAATATGT
Found at i:7406434 original size:22 final size:22
Alignment explanation
Indices: 7406360--7406426 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
7406350 TTATGGACAT
7406360 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7406382 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7406404 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
7406426 A
1 A
7406427 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:7407827 original size:19 final size:20
Alignment explanation
Indices: 7407791--7407828 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7407781 ACCTTACTAA
*
7407791 CTCTTTTCATTTTTTTTCCT
1 CTCTTTTCATTTTATTTCCT
7407811 CTCTTTT-ATTTTATTTCC
1 CTCTTTTCATTTTATTTCC
7407829 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
CTCTTTTCATTTTATTTCCT
Found at i:7411304 original size:25 final size:23
Alignment explanation
Indices: 7411243--7411306 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
7411233 CAATCAGAAC
7411243 AAAAAGGG-C-AAAAAACAAAAA
1 AAAAAGGGACAAAAAAACAAAAA
* *
7411264 AGAAAAGAAGAAAAAAAAATCAAAAA
1 A-AAAAG-GGACAAAAAAA-CAAAAA
7411290 GAAAAAGGGACAAAAAA
1 -AAAAAGGGACAAAAAA
7411307 GCACATGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.03
22 5 0.15
23 1 0.03
25 14 0.42
26 11 0.33
27 1 0.03
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAAAGGGACAAAAAAACAAAAA
Found at i:7413002 original size:106 final size:106
Alignment explanation
Indices: 7412873--7414148 Score: 1987
Period size: 106 Copynumber: 12.0 Consensus size: 106
7412863 ATATCGTGAC
* ** * *
7412873 ACTCGAGACAACATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7412938 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
7412979 ACTCTAGACAACACAAGTTCAACTTCACGATGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
7413044 GATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
7413085 ACTCCAGACAACGCAAGTTCAACTTCACGCCGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7413150 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
7413191 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7413256 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
7413297 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
7413362 AATTTCAGAGCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
7413403 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
7413468 AATTTTAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
7413509 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
7413574 AATTTCGGAGCCAATTTCAACTTCACAGCGAAATATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
7413615 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7413680 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
7413721 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7413786 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* **
7413827 ACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGTTCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7413892 AATTTCAGAGCCAAATTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
7413933 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTTAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
7413998 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * *
7414039 ACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
7414104 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
7414145 ACTC
1 ACTC
7414149 GGAACAATGC
Statistics
Matches: 1079, Mismatches: 90, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 1079 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:7414988 original size:37 final size:37
Alignment explanation
Indices: 7414901--7415002 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
7414891 TTTCGTCCTT
* *
7414901 CTAGGATTTAAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTTAAACTCCTAAAAATAGGATAGAATTCTA
* *
7414938 CTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTA
1 CTAGGATTTAAACTCCTAAAAATAGGATAGAATTCTA
** * *
7414975 CTATTATTTAAACTCATAAAGATAGGAT
1 CTAGGATTTAAACTCCTAAAAATAGGAT
7415003 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (37 bp):
CTAGGATTTAAACTCCTAAAAATAGGATAGAATTCTA
Found at i:7415944 original size:24 final size:24
Alignment explanation
Indices: 7415917--7415999 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
7415907 ATATTTTATC
7415917 TTCATTTATTTTATTTTATTCAAT
1 TTCATTTATTTTATTTTATTCAAT
* * * *
7415941 TTCATTTTTTTTGTTTCATCCAA-
1 TTCATTTATTTTATTTTATTCAAT
**
7415964 TT-ATTTTATGTTTATTATTATT-GGT
1 TTCA-TTTAT-TTTATT-TTATTCAAT
7415989 TTCATTTATTT
1 TTCATTTATTT
7416000 CCTTGGTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
22 1 0.02
23 6 0.14
24 26 0.59
25 10 0.23
26 1 0.02
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66
Consensus pattern (24 bp):
TTCATTTATTTTATTTTATTCAAT
Found at i:7417588 original size:42 final size:42
Alignment explanation
Indices: 7417516--7417598 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
7417506 CCTCCAGTTC
* * *
7417516 CACCGCCAAACCCACCACCAGCTCCCCCACCGAG-TCCACCTA
1 CACCACCAAACCCACCACCACCACCCCCACC-AGCTCCACCTA
*
7417558 CACCACCAAACCCACCACCACCACCTCCACCAGCTCCACCT
1 CACCACCAAACCCACCACCACCACCCCCACCAGCTCCACCT
7417599 CCAACTCCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.28, C:0.59, G:0.06, T:0.07
Consensus pattern (42 bp):
CACCACCAAACCCACCACCACCACCCCCACCAGCTCCACCTA
Found at i:7417629 original size:18 final size:18
Alignment explanation
Indices: 7417593--7417630 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7417583 TCCACCAGCT
*
7417593 CCACCTCCAACTCCTGCA
1 CCACCTCCAACTCCGGCA
7417611 CCACCTCCGAAC-CCGGCA
1 CCACCTCC-AACTCCGGCA
7417629 CC
1 CC
7417631 GCCACCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.21, C:0.58, G:0.11, T:0.11
Consensus pattern (18 bp):
CCACCTCCAACTCCGGCA
Found at i:7417657 original size:18 final size:18
Alignment explanation
Indices: 7417634--7417668 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7417624 CGGCACCGCC
* *
7417634 ACCTCCTCCAAGTCCACT
1 ACCTCCACCAAGCCCACT
7417652 ACCTCCACCAAGCCCAC
1 ACCTCCACCAAGCCCAC
7417669 CACCAGCACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.54, G:0.06, T:0.14
Consensus pattern (18 bp):
ACCTCCACCAAGCCCACT
Found at i:7417696 original size:12 final size:12
Alignment explanation
Indices: 7417656--7417697 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7417646 TCCACTACCT
7417656 CCACCAAGC-CCA
1 CCACC-AGCACCA
7417668 CCACCAGCACCA
1 CCACCAGCACCA
* *
7417680 GCACCAGCACCC
1 CCACCAGCACCA
7417692 CCACCA
1 CCACCA
7417698 AATCCTGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.31, C:0.60, G:0.10, T:0.00
Consensus pattern (12 bp):
CCACCAGCACCA
Found at i:7418286 original size:3 final size:3
Alignment explanation
Indices: 7418278--7418344 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
7418268 TTTAGGGTTT
7418278 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
7418326 TTA TTA TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
7418345 GTTGTTGTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7418816 original size:99 final size:104
Alignment explanation
Indices: 7418705--7418901 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 104
7418695 TATGGATGTT
*
7418705 TATATTATTAGACAAAGTTCAA-GTGAC-G-G-TC-TCCCTTCAGTCCATCCCTACATATTACTA
1 TATATTATTAGACAAAGATCAAGGTGACTGTGATCGTCCCTTCAGTCCAT-CCTACATATTACTA
*
7418765 TTGCTTTATCCAATCAATAT-ATTGACTCTCTATACATGC
65 TGGCTTTATCCAATCAATATGATTGACTCTCTATACATGC
*
7418804 TATATTATTAGACAAAGATCAAGGGTGACTGTTGTACTCGTCCCTTCAGTCCATCTTACATATTA
1 TATATTATTAGACAAAGATCAA-GGTGACTG-TG-A-TCGTCCCTTCAGTCCATCCTACATATTA
* *
7418869 CTATGGCTTTATTCAATTAATATGATTGACTCT
62 CTATGGCTTTATCCAATCAATATGATTGACTCT
7418902 AAATAAGATT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
99 21 0.25
101 5 0.06
102 1 0.01
104 1 0.01
107 32 0.39
108 23 0.28
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (104 bp):
TATATTATTAGACAAAGATCAAGGTGACTGTGATCGTCCCTTCAGTCCATCCTACATATTACTAT
GGCTTTATCCAATCAATATGATTGACTCTCTATACATGC
Found at i:7427777 original size:4 final size:4
Alignment explanation
Indices: 7427726--7428136 Score: 786
Period size: 4 Copynumber: 102.8 Consensus size: 4
7427716 TCATGCATGC
* * * *
7427726 ATGT ATGT ATGT ATGA ATGC ATGC ATGT ATGT ATGT ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7427774 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7427822 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7427870 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7427918 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7427966 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7428014 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7428062 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7428110 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
7428137 CGTACAGTAA
Statistics
Matches: 402, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 402 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:7436277 original size:20 final size:20
Alignment explanation
Indices: 7436252--7436291 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7436242 TTTTGGTGCA
*
7436252 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
7436272 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
7436292 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:7442133 original size:21 final size:21
Alignment explanation
Indices: 7442075--7442133 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
7442065 GAACCCGTGT
7442075 GGGGTATCGATTCCC-TAAAG
1 GGGGTATCGATTCCCTTAAAG
* * * *
7442095 GAGGGAATTGGTTTCCCTTCAAG
1 G-GGGTA-TCGATTCCCTTAAAG
7442118 GGGGTATCGATTCCCT
1 GGGGTATCGATTCCCT
7442134 CTGCACCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 1 0.03
21 12 0.41
22 11 0.38
23 5 0.17
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (21 bp):
GGGGTATCGATTCCCTTAAAG
Found at i:7448492 original size:18 final size:18
Alignment explanation
Indices: 7448469--7448503 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7448459 GTGGCATCAA
7448469 CTAGGCTCTTGTACTCAG
1 CTAGGCTCTTGTACTCAG
7448487 CTAGGCTCTTGTACTCA
1 CTAGGCTCTTGTACTCA
7448504 ACCTCTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (18 bp):
CTAGGCTCTTGTACTCAG
Found at i:7451921 original size:23 final size:23
Alignment explanation
Indices: 7451895--7451972 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
7451885 CACCACAGCT
7451895 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
7451918 CATATAATTGTACC-AGAGTGCCG
1 CATATAATTGCACCGA-AGTGCCA
* * *
7451941 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
7451964 TATAATAAT
1 CAT-ATAAT
7451973 GTCCATAAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 1 0.02
23 37 0.88
24 4 0.10
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:7452150 original size:103 final size:103
Alignment explanation
Indices: 7451979--7452196 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
7451969 TAATGTCCAT
* *
7451979 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTATGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
7452044 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
7452082 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
7452147 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
7452185 AAGGACCACATA
1 AAGGACCACATA
7452197 GACCCTCGAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:7453134 original size:64 final size:64
Alignment explanation
Indices: 7452986--7453143 Score: 151
Period size: 64 Copynumber: 2.5 Consensus size: 64
7452976 CTATCGATGA
* * * * ** *
7452986 ATCGATGCACTACTTGTGCATCGGTGCACAAAATACATTCGATGTTTGTTTATTACTGGGATAC
1 ATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATAC
* * * *
7453050 ATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-AGAGT
1 ATCGATGCACTACC-TGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAGAGA-T
*
7453112 GC
63 AC
*
7453114 ATCGATGCACTACCTGTGCATCGATACACC
1 ATCGATGCACTACCTGTGCATCGATGCACC
7453144 TTCAAACAAT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
63 6 0.08
64 66 0.88
65 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (64 bp):
ATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATAC
Found at i:7460037 original size:10 final size:10
Alignment explanation
Indices: 7460011--7460056 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
7460001 CCAAATAACC
7460011 AACAACT-AT
1 AACAACTAAT
7460020 AACAAACTAAT
1 AAC-AACTAAT
7460031 AACAACTAAT
1 AACAACTAAT
*
7460041 AACAAGTTAAT
1 AACAA-CTAAT
7460052 AACAA
1 AACAA
7460057 ACCATAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 3 0.09
10 16 0.48
11 14 0.42
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (10 bp):
AACAACTAAT
Found at i:7460044 original size:21 final size:20
Alignment explanation
Indices: 7460011--7460069 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
7460001 CCAAATAACC
7460011 AACAACTATAACAAACTAAT
1 AACAACTATAACAAACTAAT
**
7460031 AACAACTAATAACAAGTTAAT
1 AACAACT-ATAACAAACTAAT
*
7460052 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
7460070 CTAACATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.22
21 22 0.69
22 3 0.09
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.19
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:7461744 original size:11 final size:11
Alignment explanation
Indices: 7461724--7461779 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
7461714 AATAACCAAC
7461724 AACT-ATAACA
1 AACTAATAACA
7461734 AACTAATAAC-
1 AACTAATAACA
7461744 AACTAATAACA
1 AACTAATAACA
*
7461755 AGCTAATAACA
1 AACTAATAACA
*
7461766 AAC-CATAACA
1 AACTAATAACA
7461776 AACT
1 AACT
7461780 CTAACACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 23 0.57
11 17 0.43
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.18
Consensus pattern (11 bp):
AACTAATAACA
Found at i:7461754 original size:21 final size:20
Alignment explanation
Indices: 7461721--7461779 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
7461711 CCAAATAACC
7461721 AACAACTATAACAAACTAAT
1 AACAACTATAACAAACTAAT
*
7461741 AACAACTAATAACAAGCTAAT
1 AACAACT-ATAACAAACTAAT
*
7461762 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
7461780 CTAACACTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 24 0.71
22 3 0.09
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:7465804 original size:17 final size:16
Alignment explanation
Indices: 7465784--7465815 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7465774 TTGATTATTT
7465784 AATTTTATAATCTTTAA
1 AATTTTATAAT-TTTAA
7465801 AATTTTATAATTTTA
1 AATTTTATAATTTTA
7465816 CATCTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTATAATTTTAA
Found at i:7468814 original size:15 final size:16
Alignment explanation
Indices: 7468775--7468817 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
7468765 CATACTTTTA
7468775 AAAAAT-ATTAAATTT
1 AAAAATAATTAAATTT
7468790 ACAAATATAATTAAA-TT
1 A-AAA-ATAATTAAATTT
7468807 AAAAATAATTA
1 AAAAATAATTA
7468818 CTTTTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 5 0.20
18 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATAATTAAATTT
Found at i:7472794 original size:45 final size:45
Alignment explanation
Indices: 7472731--7472833 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
7472721 TGCACAGGAA
* *
7472731 GTGCATCGATG-AACCCCTTAAAAT-AGAAACATCGAATGCAATTG
1 GTGCATCGATGCATCCCCTTAAAATGA-AAACATCGAAGGCAATTG
* *
7472775 GTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGCAATTG
*
7472820 GTGTATCGATGCAT
1 GTGCATCGATGCAT
7472834 GGGTAGTGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
44 11 0.21
45 40 0.77
46 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (45 bp):
GTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGCAATTG
Found at i:7472885 original size:20 final size:20
Alignment explanation
Indices: 7472860--7472897 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7472850 CACATGTTAA
7472860 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
7472880 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
7472898 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:7473212 original size:29 final size:30
Alignment explanation
Indices: 7473143--7473201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7473133 CAATTTAAGG
7473143 CAAAATGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
* *
7473173 CAAAATATTTTTGGACTT-AATTGAGTTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
7473202 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:7475409 original size:23 final size:23
Alignment explanation
Indices: 7475389--7475473 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
7475379 GACATTTTAT
* *
7475389 ATGGCACTTCGGTACAATTTTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
7475412 ATGGCACTTTGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
7475435 GTGGCACTTCGGTGCAATTCTAT
1 ATGGCACTTCGGTGCAATTCTAC
*
7475458 GTGGCACTTCGGTGCA
1 ATGGCACTTCGGTGCA
7475474 TTTATACGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:7475442 original size:46 final size:46
Alignment explanation
Indices: 7475390--7475483 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
7475380 ACATTTTATA
* * *
7475390 TGGCACTTCGGTACAATTTTACATGGCACTTTGGTGCAATTCTACG
1 TGGCACTTCGGTACAATTCTACATGGCACTTCGGTGCAATTATACG
* ** *
7475436 TGGCACTTCGGTGCAATTCTATGTGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTACAATTCTACATGGCACTTCGGTGCAATTATACG
7475482 TG
1 TG
7475484 TTGTAGTGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (46 bp):
TGGCACTTCGGTACAATTCTACATGGCACTTCGGTGCAATTATACG
Found at i:7478891 original size:45 final size:44
Alignment explanation
Indices: 7478829--7478930 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 44
7478819 TGCACAGGAA
* * *
7478829 GTGCATTGATGCACCCCTTAAAATGGAAACATCGAATGCAATTG
1 GTGCATCGATGCACCCCTTAAAATGAAAACATCGAAGGCAATTG
* * *
7478873 GTGCATCGATGTATCCCCTTAAAATGAAAACATCGAAGGTAATTT
1 GTGCATCGATGCA-CCCCTTAAAATGAAAACATCGAAGGCAATTG
*
7478918 GTGTATCGATGCA
1 GTGCATCGATGCA
7478931 TGGGTAGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 11 0.22
45 38 0.78
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GTGCATCGATGCACCCCTTAAAATGAAAACATCGAAGGCAATTG
Found at i:7478983 original size:20 final size:20
Alignment explanation
Indices: 7478938--7479015 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 20
7478928 GCATGGGTAG
7478938 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
7478962 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
7478982 TGCATCGATGCACTATAGAA
1 TGCATCGATGCACTGTAGAA
*
7479002 TGCATCGATACACT
1 TGCATCGATGCACT
7479016 TCAAGGGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 36 0.69
22 1 0.02
23 2 0.04
24 13 0.25
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:7481641 original size:23 final size:23
Alignment explanation
Indices: 7481573--7481633 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
7481563 ACATTTTATA
* *
7481573 TGGCACTTCAGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
7481596 TGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
7481619 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
7481634 TTTATACGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:7490105 original size:18 final size:18
Alignment explanation
Indices: 7490082--7490120 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
7490072 CCCATTCATG
7490082 TTTTCTACAGTTGTTTGA
1 TTTTCTACAGTTGTTTGA
7490100 TTTTCTACAGTTGTTTGA
1 TTTTCTACAGTTGTTTGA
7490118 TTT
1 TTT
7490121 GTGAACTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (18 bp):
TTTTCTACAGTTGTTTGA
Found at i:7505454 original size:23 final size:22
Alignment explanation
Indices: 7505428--7505476 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
7505418 AAATTTCAAA
7505428 TTATTATATAATT-TAGATATTTT
1 TTATTATAT-ATTATA-ATATTTT
*
7505451 TTATTTTATATTAATAATATTTT
1 TTATTATATATT-ATAATATTTT
7505474 TTA
1 TTA
7505477 CCTCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 18 0.78
24 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTATATATTATAATATTTT
Found at i:7508115 original size:185 final size:184
Alignment explanation
Indices: 7507786--7508174 Score: 613
Period size: 185 Copynumber: 2.1 Consensus size: 184
7507776 TTTTCTAATT
* * * *
7507786 TATATAA-AAATTAAATGTTTTTAAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTAAATTAAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
7507850 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
66 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
*
7507915 GGATATTAAATTATTAATT-GAGTTTTAAATGGTTTGGGA-TTAACCCATATGTTA
131 GGATATTAAATTATTAATTAG-GTTTTAAATGGTTT-GGACTGAACCCATATGTTA
* *
7507969 TATATAATATGTTTAATATTTTTTAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTAAATTAAAAAAA-AGTTTATAATTAATTTAAATAATATATAA
* * *
7508034 TTATAAAATAAAAATTTTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
65 TTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
* **
7508099 TGGATCTTAAATTATTAATTAGGTTTTAAATGGTTTGGACTGAGTCCATATGTTA
130 TGGATATTAAATTATTAATTAGGTTTTAAATGGTTTGGACTGAACCCATATGTTA
7508154 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
7508175 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
183 7 0.04
184 24 0.13
185 156 0.83
186 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTAAATTAAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
GGATATTAAATTATTAATTAGGTTTTAAATGGTTTGGACTGAACCCATATGTTA
Found at i:7511701 original size:30 final size:30
Alignment explanation
Indices: 7511665--7511725 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
7511655 GACAAGCTCA
7511665 TGCGCCATAAGAGGCTCTCAATAATGTCTT
1 TGCGCCATAAGAGGCTCTCAATAATGTCTT
7511695 TGCGCCATAAGAGGCTCTCAATAATGTCTT
1 TGCGCCATAAGAGGCTCTCAATAATGTCTT
7511725 T
1 T
7511726 TCCAGGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (30 bp):
TGCGCCATAAGAGGCTCTCAATAATGTCTT
Found at i:7513235 original size:21 final size:21
Alignment explanation
Indices: 7513209--7513253 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7513199 GATTTCTGGG
* *
7513209 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
7513230 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
7513251 CAA
1 CAA
7513254 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:7514156 original size:31 final size:31
Alignment explanation
Indices: 7514118--7514240 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
7514108 GGGTCGAGGG
7514118 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
7514149 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
7514180 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
7514211 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
7514241 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
31 84 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:7517225 original size:21 final size:21
Alignment explanation
Indices: 7517199--7517243 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7517189 GATTTCTGGG
* *
7517199 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
7517220 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
7517241 CAA
1 CAA
7517244 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:7518148 original size:31 final size:31
Alignment explanation
Indices: 7518110--7518232 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
7518100 GGGTCGAGGG
7518110 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
7518141 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
7518172 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
7518203 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
7518233 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
31 84 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:7532216 original size:21 final size:21
Alignment explanation
Indices: 7532178--7532217 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7532168 TATATATGGA
*
7532178 TAAATCATAAATAGTATAATT
1 TAAATCATAAATAATATAATT
7532199 TAAATCA-AAATAAATATAA
1 TAAATCATAAAT-AATATAA
7532218 ACTTGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAATCATAAATAATATAATT
Found at i:7532763 original size:22 final size:22
Alignment explanation
Indices: 7532739--7532798 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
7532729 TCTTATAACT
* * *
7532739 TTTTAGAAATTTTAATA-ATTA
1 TTTTATAAAATTTAAAAGATTA
7532760 TTTTATAAAATTTAAAAGATTA
1 TTTTATAAAATTTAAAAGATTA
*
7532782 TTTTATAACATTTAAAA
1 TTTTATAAAATTTAAAA
7532799 TAACATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
TTTTATAAAATTTAAAAGATTA
Found at i:7532806 original size:22 final size:22
Alignment explanation
Indices: 7532759--7532812 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
7532749 TTTAATAATT
* **
7532759 ATTTTATAAAATTTAAAAGATT
1 ATTTTATAACATTTAAAAGAAC
*
7532781 ATTTTATAACATTTAAAATAAC
1 ATTTTATAACATTTAAAAGAAC
7532803 ATTTTATAAC
1 ATTTTATAAC
7532813 CTACGGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTATAACATTTAAAAGAAC
Found at i:7534043 original size:31 final size:31
Alignment explanation
Indices: 7533993--7534073 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
7533983 ACTGATAAAA
* *
7533993 TTAATGATTAATTTGTAAC-AATTCAATA-GTT
1 TTAATGATTATTTTATAACAAATT-AATACG-T
* *
7534024 TTAATGATCATTTTATAACAAATTGATACGT
1 TTAATGATTATTTTATAACAAATTAATACGT
7534055 TTAATGATTATTTTATAAC
1 TTAATGATTATTTTATAAC
7534074 TTCTAAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 38 0.88
32 5 0.12
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (31 bp):
TTAATGATTATTTTATAACAAATTAATACGT
Found at i:7536198 original size:2 final size:2
Alignment explanation
Indices: 7536191--7536272 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
7536181 ATCCTAACTC
7536191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7536233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7536273 TGAAAAGGGA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7536697 original size:14 final size:15
Alignment explanation
Indices: 7536678--7536710 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7536668 AAACCTTGAC
7536678 TTAG-AACCCTCGAT
1 TTAGAAACCCTCGAT
7536692 TTAGAAAACCCTCGAT
1 TTAG-AAACCCTCGAT
7536708 TTA
1 TTA
7536711 AGGTTTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
16 13 0.76
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (15 bp):
TTAGAAACCCTCGAT
Found at i:7536904 original size:26 final size:26
Alignment explanation
Indices: 7536875--7536947 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
7536865 TTGGTTACCC
7536875 AAAATTTTATAAATTCATCTCCCTTT
1 AAAATTTTATAAATTCATCTCCCTTT
*
7536901 AAAATTTTATAAATTCATCTCGCTTT
1 AAAATTTTATAAATTCATCTCCCTTT
* *
7536927 AAAATTTTATAAGTTCGTCTC
1 AAAATTTTATAAATTCATCTC
7536948 AACATAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAATTTTATAAATTCATCTCCCTTT
Found at i:7536955 original size:26 final size:26
Alignment explanation
Indices: 7536875--7536957 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
7536865 TTGGTTACCC
* *
7536875 AAAATTTTATAAATTCATCTCCCTTT
1 AAAATTTTATAAATTCATCTCACTAT
* *
7536901 AAAATTTTATAAATTCATCTCGCTTT
1 AAAATTTTATAAATTCATCTCACTAT
* *
7536927 AAAATTTTATAAGTTCGTCTCAAC-AT
1 AAAATTTTATAAATTCATCTC-ACTAT
7536953 AAAAT
1 AAAAT
7536958 CACTTGTCCG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 50 0.98
27 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.42
Consensus pattern (26 bp):
AAAATTTTATAAATTCATCTCACTAT
Found at i:7537114 original size:44 final size:44
Alignment explanation
Indices: 7537026--7537114 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
7537016 TGTGTATGTA
* * *
7537026 AAATATATGTATGTGGTTAATAAATTAAGAAATTTATCTAACAT
1 AAATATATGTACGTGGTTAATAAATTAAAAAATTTATATAACAT
* * *
7537070 AAATATATGTACGTTGTTAATAAATTAAAAAATTTCTATTACAT
1 AAATATATGTACGTGGTTAATAAATTAAAAAATTTATATAACAT
7537114 A
1 A
7537115 TACTATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (44 bp):
AAATATATGTACGTGGTTAATAAATTAAAAAATTTATATAACAT
Found at i:7540934 original size:48 final size:48
Alignment explanation
Indices: 7540859--7540956 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
7540849 TATTCTGTCT
*
7540859 TTGGCCCTGATGTCAATGGCTCAGCTAATGAAAGTGTCAAAGCTAATG
1 TTGGCCCTGATGTCAATGGCTCAGCTAATGAAAGTGTCAAAGCCAATG
** *
7540907 TTGGCCCTGATGTCAATGGCTTGGCTAATGAAAGTGTCGAAGCCAATG
1 TTGGCCCTGATGTCAATGGCTCAGCTAATGAAAGTGTCAAAGCCAATG
7540955 TT
1 TT
7540957 CTCGATTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TTGGCCCTGATGTCAATGGCTCAGCTAATGAAAGTGTCAAAGCCAATG
Done.