Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 24 of 143
Found at i:7157471 original size:14 final size:15
Alignment explanation
Indices: 7157441--7157473 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7157431 ATAACCTATA
7157441 ATTATCTCAAATAAT
1 ATTATCTCAAATAAT
*
7157456 ATTATCT-AAATTAT
1 ATTATCTCAAATAAT
7157470 ATTA
1 ATTA
7157474 AATTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATCTCAAATAAT
Found at i:7161701 original size:14 final size:16
Alignment explanation
Indices: 7161684--7161720 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
7161674 TTTTTTATGT
7161684 TTTAAAATCT-AAA-A
1 TTTAAAATCTCAAATA
*
7161698 TTTAAAATTTCAAATA
1 TTTAAAATCTCAAATA
7161714 TTTAAAA
1 TTTAAAA
7161721 AGAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAATCTCAAATA
Found at i:7165705 original size:16 final size:16
Alignment explanation
Indices: 7165684--7165714 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7165674 CTCAATGAAA
7165684 TTTAATTATTTTTATT
1 TTTAATTATTTTTATT
*
7165700 TTTAATTTTTTTTAT
1 TTTAATTATTTTTAT
7165715 CAAATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTAATTATTTTTATT
Found at i:7168783 original size:30 final size:30
Alignment explanation
Indices: 7168739--7168893 Score: 112
Period size: 30 Copynumber: 5.2 Consensus size: 30
7168729 CAAACTCTTC
7168739 AAAA-TACCATTTTTAACCTCGATTTCATCG
1 AAAATTACCA-TTTTAACCTCGATTTCATCG
* *
7168769 AAAATTACCATTTTACCCCCGAACTTTC--C-
1 AAAATTACCATTTTAACCTCG-A-TTTCATCG
* *
7168798 AAAATT-CTATTTTTAACCCCGATTTCATCG
1 AAAATTACCA-TTTTAACCTCGATTTCATCG
* * *
7168828 AAAATTACCATTTCACCCTCGAACTTT--T-T
1 AAAATTACCATTTTAACCTCG-A-TTTCATCG
*
7168857 AAAATT-CCATTTTGAACCTCGATTTCACCG
1 AAAATTACCATTTT-AACCTCGATTTCATCG
7168887 AAAATTA
1 AAAATTA
7168894 AAGTTTTACC
Statistics
Matches: 97, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
27 7 0.07
28 10 0.10
29 29 0.30
30 35 0.36
31 9 0.09
32 7 0.07
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTAACCTCGATTTCATCG
Found at i:7168801 original size:59 final size:59
Alignment explanation
Indices: 7168709--7168928 Score: 273
Period size: 59 Copynumber: 3.7 Consensus size: 59
7168699 GAACTGTCTA
* *
7168709 GAAAATTACCATTTTACCCCCAAACTCTT-CAAAATACCATTTTTAACCTCGATTTCATC
1 GAAAATTACCATTTTACCCCCGAACT-TTCCAAAATTCCATTTTTAACCTCGATTTCATC
* *
7168768 GAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCCCGATTTCATC
1 GAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC
* * ** * *
7168827 GAAAATTACCATTTCACCCTCGAACTTTTTAAAATTCCATTTTGAACCTCGATTTCACC
1 GAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC
* * * * *
7168886 GAAAATTA-AAGTTTTACCCTCGAACCTTCTAAAATCCCATTTT
1 GAAAATTACCA-TTTTACCCCCGAACTTTCCAAAATTCCATTTT
7168929 AACTCTAAAT
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
58 3 0.02
59 139 0.98
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (59 bp):
GAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATC
Found at i:7168845 original size:29 final size:29
Alignment explanation
Indices: 7168750--7168845 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
7168740 AAATACCATT
*
7168750 TTTAACCTCGATTTCATCGAAAATTACCA
1 TTTAACCCCGATTTCATCGAAAATTACCA
* *
7168779 TTTTACCCCCGAACTTTC--C-AAAATT-CTA
1 -TTTAACCCCG-A-TTTCATCGAAAATTACCA
7168807 TTTTTAACCCCGATTTCATCGAAAATTACCA
1 --TTTAACCCCGATTTCATCGAAAATTACCA
*
7168838 TTTCACCC
1 TTTAACCC
7168846 TCGAACTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
27 4 0.08
28 3 0.06
29 24 0.45
30 15 0.28
31 3 0.06
32 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.35
Consensus pattern (29 bp):
TTTAACCCCGATTTCATCGAAAATTACCA
Found at i:7175421 original size:25 final size:28
Alignment explanation
Indices: 7175370--7175421 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
7175360 TTTCAATTCC
*
7175370 AAATAAATTATTTGCTTGTAACACATAA
1 AAATAAATCATTTGCTTGTAACACATAA
7175398 AAATAAATCA-TT-CTTG-AACACATA
1 AAATAAATCATTTGCTTGTAACACATA
7175422 CACCCATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 2 0.09
28 9 0.39
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (28 bp):
AAATAAATCATTTGCTTGTAACACATAA
Found at i:7179987 original size:76 final size:76
Alignment explanation
Indices: 7179807--7180943 Score: 1720
Period size: 76 Copynumber: 14.7 Consensus size: 76
7179797 TCAATCAAAC
* *
7179807 ATCATCTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTTTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTC--TGAAATTG
7179872 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
*
7179885 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCCTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7179950 GTAAGAGCAAG
66 GTAAGAGCAAG
7179961 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180026 GTAAGAGCAAG
66 GTAAGAGCAAG
*
7180037 ATAATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180102 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
7180113 ATCATTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTGTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180178 GTAAGAGCAAG
66 GTAAGAGCAAG
7180189 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180254 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
7180265 ACCATTTCCTATCCTTTTGAAATTGAAATAGAGTTGGATAACAAGTCTTTGTCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180330 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
7180341 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTGTATCTCTGAAATTAAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180406 GTAAGAGCAAG
66 GTAAGAGCAAG
*
7180417 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
7180482 GTAAGAGTAAG
66 GTAAGAGCAAG
* * *
7180493 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
7180558 GTAATAGCAAG
66 GTAAGAGCAAG
7180569 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
7180634 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
7180645 ATCTTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
7180710 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
** ** * *
7180723 A-CAGAGCATCAACATAATTTCCTATCCTCTTGAAGTTGAAGTAGAGTTGAATAACAAGTCTTTA
1 ATC--A-TTTC--C-T-A--TCC--T-CT-TGAAAT-TGAAGTAGAGTTGGATAACAAGTCTTTA
7180787 TCTCTGAAATTGAAGTAAGAGCAAG
52 TCTCTGAAATTGAAGTAAGAGCAAG
* * *
7180812 ATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATA-AAGTCTTTATCTCTGAAATTGA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATA-ACAAGTCTTTATCTCTGAAATTGA
7180876 AGTAAGAGCAAG
65 AGTAAGAGCAAG
* * * *
7180888 ATCATCTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGACTTTATCTCT
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
7180944 CTGAAGCTAT
Statistics
Matches: 966, Mismatches: 74, Indels: 40
0.89 0.07 0.04
Matches are distributed among these distances:
76 808 0.84
77 5 0.01
78 80 0.08
79 1 0.00
80 2 0.00
81 3 0.00
82 1 0.00
83 2 0.00
84 2 0.00
85 1 0.00
86 3 0.00
87 2 0.00
88 2 0.00
89 28 0.03
90 3 0.00
91 23 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:7180833 original size:38 final size:38
Alignment explanation
Indices: 7180791--7180921 Score: 146
Period size: 38 Copynumber: 3.5 Consensus size: 38
7180781 TCTTTATCTC
*
7180791 TGAAATTGAAGTAAGAGCAAGATTATTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATTATCTCCTATCCTCT
** *
7180829 TGAAATTGAAGTAA-AGCTGGATATAAAGTCT-TTAT-CTC-
1 TGAAATTGAAGTAAGAGCAAGAT-T--A-TCTCCTATCCTCT
*
7180867 TGAAATTGAAGTAAGAGCAAGATCATCTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATTATCTCCTATCCTCT
7180905 TGAAATTGAAGT-AGAGC
1 TGAAATTGAAGTAAGAGC
7180922 TGGATATCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
35 3 0.04
36 4 0.05
37 14 0.18
38 41 0.53
39 9 0.12
40 4 0.05
41 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (38 bp):
TGAAATTGAAGTAAGAGCAAGATTATCTCCTATCCTCT
Found at i:7180848 original size:167 final size:165
Alignment explanation
Indices: 7180572--7180888 Score: 564
Period size: 167 Copynumber: 1.9 Consensus size: 165
7180562 TAGCAAGATC
*
7180572 ATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTA
1 ATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAAGTA
*
7180637 AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATCAAGTCTTTATCTCTC
66 AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATAAAGTCTTTA--TCTC
7180702 TGAAATTGAAGTAAGAGCAAGACAGAGCATCAACATA
129 TGAAATTGAAGTAAGAGCAAGACAGAGCATCAACATA
*
7180739 ATTTCCTATCCTCTTGAAGTTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAAGTA
1 ATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAAGTA
*
7180804 AGAGCAAGAT-TATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATAAAGTCTTTATCTCT
66 AGAGCAAGATCT-TTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATAAAGTCTTTATCTCT
7180868 GAAATTGAAGTAAGAGCAAGA
130 GAAATTGAAGTAAGAGCAAGA
7180889 TCATCTCCTA
Statistics
Matches: 145, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
165 26 0.18
166 1 0.01
167 118 0.81
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (165 bp):
ATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGAATAACAAGTCTTTATCTCTGAAATTGAAGTA
AGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAATAAAGCTGGATATAAAGTCTTTATCTCTG
AAATTGAAGTAAGAGCAAGACAGAGCATCAACATA
Found at i:7183237 original size:29 final size:29
Alignment explanation
Indices: 7183145--7183355 Score: 105
Period size: 29 Copynumber: 7.2 Consensus size: 29
7183135 AACTGTCCAG
** *
7183145 AAAATTACCATTTTACCCCTAAACTCT-C
1 AAAATTACCATTTTACCCCCGAACTTTCC
* * *
7183173 AAAAATACCATTTTTAACCTCG-A-TTTCAC
1 AAAATTACCA-TTTTACCCCCGAACTTTC-C
*
7183202 TGAAAATTACCAGTTTACCCCCGAACTTTCC
1 --AAAATTACCATTTTACCCCCGAACTTTCC
* * * *
7183233 AAAATT-CTATTTTTAACCCC-AATTTTATCA
1 AAAATTACCA-TTTTACCCCCGAA-CTT-TCC
***
7183263 AAAATTACCATTTTACCCTTAAACTTTCC
1 AAAATTACCATTTTACCCCCGAACTTTCC
*
7183292 AAAATT-CCATTTTAAACCCCG-A-TTTCACC
1 AAAATTACCATTTT-ACCCCCGAACTTT--CC
* * *
7183321 GAAAATTATCATTTTACCCTCGAACCTTCC
1 -AAAATTACCATTTTACCCCCGAACTTTCC
7183351 AAAAT
1 AAAAT
7183356 CCCGTTTTAA
Statistics
Matches: 135, Mismatches: 29, Indels: 37
0.67 0.14 0.18
Matches are distributed among these distances:
27 5 0.04
28 22 0.16
29 42 0.31
30 38 0.28
31 22 0.16
32 6 0.04
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAACTTTCC
Found at i:7183237 original size:59 final size:59
Alignment explanation
Indices: 7183144--7183355 Score: 237
Period size: 59 Copynumber: 3.6 Consensus size: 59
7183134 GAACTGTCCA
* * * * *
7183144 GAAAATTACCATTTTACCCCTAAACTCTCAAAAATACCATTTTTAACCTCGATTTCACT
1 GAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
* * * * *
7183203 GAAAATTACCAGTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCCCAATTTTA-T
1 GAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
* ** * *
7183261 CAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTAAACCCCGATTTCACC
1 -GAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
* * * *
7183321 GAAAATTATCATTTTACCCTCGAACCTTCCAAAAT
1 GAAAATTACCATTTTACCCCCAAACTTTCCAAAAT
7183356 CCCGTTTTAA
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.01
59 125 0.99
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (59 bp):
GAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
Found at i:7183375 original size:118 final size:117
Alignment explanation
Indices: 7183140--7183392 Score: 312
Period size: 118 Copynumber: 2.2 Consensus size: 117
7183130 CTCTGAACTG
* * *
7183140 TCCAGAAAATTACCATTTTACCCCTAAACTCTCAAAAATACCATTTTTAACCTCGATTTCACTGA
1 TCCA-AAAATTACCATTTTACCCCTAAACTCTCAAAAATACCATTTTAAACCCCGATTTCACCGA
* * * *
7183205 AAATTACCAGTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCCCAATTT
65 AAATTACCAGTTTACCCCCGAACCTTCCAAAATTCCAGTTTTAACCCAAATTT
* * * * *
7183258 TATCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTAAACCCCGATTTCACCGA
1 T-CCAAAAATTACCATTTTACCCCTAAACTCTCAAAAATACCATTTTAAACCCCGATTTCACCGA
* * * *
7183323 AAATTATCATTTTACCCTCGAACCTTCCAAAA-TCCCGTTTTAACTCCAAATTT
65 AAATTACCAGTTTACCCCCGAACCTTCCAAAATTCCAGTTTTAAC-CCAAATTT
*
7183376 TCCTAAAATTA-CATTTT
1 TCCAAAAATTACCATTTT
7183393 TGCCCCCGGG
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
116 6 0.05
117 17 0.15
118 90 0.78
119 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (117 bp):
TCCAAAAATTACCATTTTACCCCTAAACTCTCAAAAATACCATTTTAAACCCCGATTTCACCGAA
AATTACCAGTTTACCCCCGAACCTTCCAAAATTCCAGTTTTAACCCAAATTT
Found at i:7192142 original size:18 final size:19
Alignment explanation
Indices: 7192104--7192142 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7192094 GTGACCCCTA
* *
7192104 TTTTGAAAATTTTCCTTAT
1 TTTTGAAAAGTTTCCTAAT
7192123 TTTTGAAAAGTTTCC-AAT
1 TTTTGAAAAGTTTCCTAAT
7192141 TT
1 TT
7192143 AGTCCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTGAAAAGTTTCCTAAT
Found at i:7207552 original size:16 final size:16
Alignment explanation
Indices: 7207531--7207561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7207521 CTTTGTATTA
*
7207531 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
7207547 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
7207562 ATATTCATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:7208600 original size:81 final size:81
Alignment explanation
Indices: 7208458--7208620 Score: 202
Period size: 81 Copynumber: 2.0 Consensus size: 81
7208448 TTAATTTTAA
* * **
7208458 CACTCAACCAATACTTTATCATGAAATATTTTATATATTTTATTAACTTTATAAATCGTATATCT
1 CACTCAACCAATACATTATCATGAAATATTTTATACATCGTATTAACTTTATAAATCGTATATCT
*
7208523 ATATTAGTATTTAAAC
66 ATACTAGTATTTAAAC
* * * ** *
7208539 CACTCAACCAATACATTATCATGAAATGTTTTGTGCATCGTA-TAACCTTTATTGATTGTATATC
1 CACTCAACCAATACATTATCATGAAATATTTTATACATCGTATTAA-CTTTATAAATCGTATATC
*
7208603 TATACTATTATTTAAAC
65 TATACTAGTATTTAAAC
7208620 C
1 C
7208621 CCTAACTGAG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
80 3 0.04
81 66 0.96
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (81 bp):
CACTCAACCAATACATTATCATGAAATATTTTATACATCGTATTAACTTTATAAATCGTATATCT
ATACTAGTATTTAAAC
Found at i:7211852 original size:40 final size:42
Alignment explanation
Indices: 7211775--7211862 Score: 101
Period size: 41 Copynumber: 2.1 Consensus size: 42
7211765 TAAATTTTAA
*
7211775 AATTAAAAATATATATAAATTATTTTAAAATTGTT-AAAATT
1 AATTAAAAATATATACAAATTATTTTAAAATTGTTAAAAATT
* ** *
7211816 ATTTAAAAAGTATA-ACAAA-TATTTTTTAATTTTTAAAAATT
1 AATTAAAAA-TATATACAAATTATTTTAAAATTGTTAAAAATT
7211857 AATTAA
1 AATTAA
7211863 TTGTTAACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 12 0.31
41 23 0.59
42 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (42 bp):
AATTAAAAATATATACAAATTATTTTAAAATTGTTAAAAATT
Found at i:7216733 original size:34 final size:34
Alignment explanation
Indices: 7216690--7216763 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
7216680 TGTTACTCTA
7216690 TGTTATGGAAATGGTATGATTGCGTTCTGTGTTG
1 TGTTATGGAAATGGTATGATTGCGTTCTGTGTTG
* *
7216724 TGTTATGGAAATGGTTTGATTGTGTTCTGTGTTG
1 TGTTATGGAAATGGTATGATTGCGTTCTGTGTTG
7216758 TGTTAT
1 TGTTAT
7216764 TGCATATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (34 bp):
TGTTATGGAAATGGTATGATTGCGTTCTGTGTTG
Found at i:7217051 original size:34 final size:34
Alignment explanation
Indices: 7217008--7217083 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
7216998 GATGTTACTC
7217008 TGTGTTATGGAAATGGTATGATTACGTTCTGTGT
1 TGTGTTATGGAAATGGTATGATTACGTTCTGTGT
* * *
7217042 TGTGTTATGGAAATTGTATGATTGCGTTTTGTGT
1 TGTGTTATGGAAATGGTATGATTACGTTCTGTGT
*
7217076 TGTATTAT
1 TGTGTTAT
7217084 TGCATATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.28, T:0.49
Consensus pattern (34 bp):
TGTGTTATGGAAATGGTATGATTACGTTCTGTGT
Found at i:7217121 original size:320 final size:320
Alignment explanation
Indices: 7216532--7217172 Score: 1129
Period size: 320 Copynumber: 2.0 Consensus size: 320
7216522 TTAGACTCAG
* *
7216532 TGCTAGATCTGTGCGTGGGAAACGACTTCCTCGTTATTAGAGCTTCAGCCTTATCAAGGTGTGTT
1 TGCTAGATCTGTGCGTGGGAAACGACCTCCTCGTCATTAGAGCTTCAGCCTTATCAAGGTGTGTT
7216597 TCTGACTGTATTACATCCTTTAATGTGATTACGTTTTGTAATGTGTTATCATGTGATGATTCTGA
66 TCTGACTGTATTACATCCTTTAATGTGATTACGTTTTGTAATGTGTTATCATGTGATGATTCTGA
*
7216662 GATATGATATCAATATAATGTTACTCTATGTTATGGAAATGGTATGATTGCGTTCTGTGTTGTGT
131 GATATGATATCAATATAATGTTACTCTATGTTATGGAAATGGTATGATTACGTTCTGTGTTGTGT
* * *
7216727 TATGGAAATGGTTTGATTGTGTTCTGTGTTGTGTTATTGCATATTGATACCATCATTCATGCCTA
196 TATGGAAATGGTATGATTGCGTTCTGTGTTGTATTATTGCATATTGATACCATCATTCATGCCTA
* *
7216792 TTTGAAAATTGGATAATTTATTATAATATGATTAAAATACTGTGAACTCTTATATATATA
261 TTCGAAAATTGGATAATTTATTATAATATGATTAAAATACTGTGAACTCTCATATATATA
* *
7216852 TGCTAGATCTGTGCGTGGGAGACGACCTCCTCGTCATTAGAGCTTCAGCCTTATCGAGGTGTGTT
1 TGCTAGATCTGTGCGTGGGAAACGACCTCCTCGTCATTAGAGCTTCAGCCTTATCAAGGTGTGTT
**
7216917 TCTGACTGTATTACATCCTTTTGTGTGATTACGTTTTGTAATGTGTTATCATGTGATGATTCTGA
66 TCTGACTGTATTACATCCTTTAATGTGATTACGTTTTGTAATGTGTTATCATGTGATGATTCTGA
* *
7216982 GATATGATATCAATATGATGTTACTCTGTGTTATGGAAATGGTATGATTACGTTCTGTGTTGTGT
131 GATATGATATCAATATAATGTTACTCTATGTTATGGAAATGGTATGATTACGTTCTGTGTTGTGT
* * *
7217047 TATGGAAATTGTATGATTGCGTTTTGTGTTGTATTATTGCATATTGATACCGTCATTCATGCCTA
196 TATGGAAATGGTATGATTGCGTTCTGTGTTGTATTATTGCATATTGATACCATCATTCATGCCTA
7217112 TTCGAAAATTGGATAATTTATTATAATATGATTAAAATACTGTGAACTCTCATATATATA
261 TTCGAAAATTGGATAATTTATTATAATATGATTAAAATACTGTGAACTCTCATATATATA
7217172 T
1 T
7217173 ATTATCATAA
Statistics
Matches: 304, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
320 304 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (320 bp):
TGCTAGATCTGTGCGTGGGAAACGACCTCCTCGTCATTAGAGCTTCAGCCTTATCAAGGTGTGTT
TCTGACTGTATTACATCCTTTAATGTGATTACGTTTTGTAATGTGTTATCATGTGATGATTCTGA
GATATGATATCAATATAATGTTACTCTATGTTATGGAAATGGTATGATTACGTTCTGTGTTGTGT
TATGGAAATGGTATGATTGCGTTCTGTGTTGTATTATTGCATATTGATACCATCATTCATGCCTA
TTCGAAAATTGGATAATTTATTATAATATGATTAAAATACTGTGAACTCTCATATATATA
Found at i:7222450 original size:2 final size:2
Alignment explanation
Indices: 7222445--7222484 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7222435 TAATCTTTAA
7222445 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
7222485 TAATATAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7224995 original size:20 final size:19
Alignment explanation
Indices: 7224956--7225005 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
7224946 AATACTAGTA
7224956 TTTTA-ATTTTTTTTATAT
1 TTTTATATTTTTTTTATAT
7224974 TTTTATATTGTTTTTGTA-AT
1 TTTTATATT-TTTTT-TATAT
*
7224994 TTTTCTATTTTT
1 TTTTATATTTTT
7225006 AATAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 15 0.54
21 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTATATTTTTTTTATAT
Found at i:7231909 original size:31 final size:31
Alignment explanation
Indices: 7231873--7231933 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
7231863 AACAGTTTAG
7231873 TGACTTAAATAAAAACTTTCGAATAATTCAT
1 TGACTTAAATAAAAACTTTCGAATAATTCAT
* * *
7231904 TGACTTAAATTAAAACTTTTGAATAGTTCA
1 TGACTTAAATAAAAACTTTCGAATAATTCA
7231934 ATAATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAATTCAT
Found at i:7232126 original size:16 final size:16
Alignment explanation
Indices: 7232096--7232125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7232086 GAGTTTAATT
7232096 AATTAATTTGATTTTG
1 AATTAATTTGATTTTG
7232112 AATTAATTT-ATTTT
1 AATTAATTTGATTTT
7232126 TTTATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
AATTAATTTGATTTTG
Found at i:7236858 original size:13 final size:13
Alignment explanation
Indices: 7236840--7236866 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7236830 ATATATGCGA
7236840 TCTAAATTTAATT
1 TCTAAATTTAATT
7236853 TCTAAATTTAATT
1 TCTAAATTTAATT
7236866 T
1 T
7236867 TTAAGGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTAAATTTAATT
Found at i:7237483 original size:2 final size:2
Alignment explanation
Indices: 7237476--7237515 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7237466 GCTGTTCATT
*
7237476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7237516 AATAGTAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7244325 original size:34 final size:33
Alignment explanation
Indices: 7244302--7244370 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 33
7244292 TATTTTTAAA
7244302 TAAGTTTGAATTTACTTTAAATTTAAATTCATTT
1 TAAGTTTGAATTTACTTTAAATTTAAATT-ATTT
*
7244336 TGAGTTTGAATTTACTTTAAATTTAAATTTATTT
1 TAAGTTTGAATTTACTTTAAATTTAAA-TTATTT
7244370 T
1 T
7244371 CAATTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (33 bp):
TAAGTTTGAATTTACTTTAAATTTAAATTATTT
Found at i:7244347 original size:17 final size:17
Alignment explanation
Indices: 7244302--7244355 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
7244292 TATTTTTAAA
*
7244302 TAAGTTTGAATTTACTT
1 TAAGTTTGAATTCACTT
* * *
7244319 TAAATTTAAATTCATTT
1 TAAGTTTGAATTCACTT
* *
7244336 TGAGTTTGAATTTACTT
1 TAAGTTTGAATTCACTT
7244353 TAA
1 TAA
7244356 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (17 bp):
TAAGTTTGAATTCACTT
Found at i:7244364 original size:17 final size:17
Alignment explanation
Indices: 7244310--7244381 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
7244300 AATAAGTTTG
7244310 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
* * * * *
7244327 AATTCATTTTGAGTTTG
1 AATTTACTTTAAATTTA
7244344 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
* * *
7244361 AATTTATTTTCAATTAA
1 AATTTACTTTAAATTTA
7244378 AATT
1 AATT
7244382 AATTAAAAAG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTACTTTAAATTTA
Found at i:7246088 original size:29 final size:29
Alignment explanation
Indices: 7246050--7246157 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
7246040 TATAAAATTG
* *
7246050 ACCCTAAAACTTCCAAAAATTATATTTTT
1 ACCCTCAAACTTCCAAAAATTACATTTTT
** *
7246079 ACCCTCAAACTTCCAAAAATCCCATTTTG
1 ACCCTCAAACTTCCAAAAATTACATTTTT
*
7246108 ACCC-CAAAACTTCCAAAAATTACAATTTT
1 ACCCTC-AAACTTCCAAAAATTACATTTTT
*
7246137 ACGCCCCCAAACTTCCAAAAA
1 A--CCCTCAAACTTCCAAAAA
7246158 AATCCATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
28 1 0.02
29 48 0.73
31 16 0.24
32 1 0.02
ACGTcount: A:0.41, C:0.31, G:0.02, T:0.27
Consensus pattern (29 bp):
ACCCTCAAACTTCCAAAAATTACATTTTT
Found at i:7246167 original size:31 final size:30
Alignment explanation
Indices: 7246047--7246173 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 30
7246037 AATTATAAAA
** * *
7246047 TTGACCCTAAAACTTCCAAAAATTA-TATT
1 TTGACCCCCAAACTTCCAAAAAATACCATT
* * *
7246076 TTTACCCTCAAACTTCC-AAAAATCCCATT
1 TTGACCCCCAAACTTCCAAAAAATACCATT
* * *
7246105 TTGACCCCAAAACTTCCAAAAATTACAATT
1 TTGACCCCCAAACTTCCAAAAAATACCATT
7246135 TT-ACGCCCCCAAACTTCCAAAAAA-ATCCATTT
1 TTGA--CCCCCAAACTTCCAAAAAATA-CCA-TT
7246167 TTGACCC
1 TTGACCC
7246174 AATTTTTTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
28 5 0.06
29 33 0.43
30 12 0.16
31 22 0.29
32 4 0.05
33 1 0.01
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.29
Consensus pattern (30 bp):
TTGACCCCCAAACTTCCAAAAAATACCATT
Found at i:7249679 original size:19 final size:20
Alignment explanation
Indices: 7249655--7249692 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7249645 ATCGAAGAGA
7249655 AATCA-GGGAACAAAAGTAT
1 AATCAGGGGAACAAAAGTAT
*
7249674 AATCAGGGGCACAAAAGTA
1 AATCAGGGGAACAAAAGTA
7249693 CAACCAAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (20 bp):
AATCAGGGGAACAAAAGTAT
Found at i:7249828 original size:40 final size:40
Alignment explanation
Indices: 7249781--7249911 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
7249771 AGGAGCACTG
*
7249781 TAGTGCTATTAGGAGTACGAATGTACTGTCAAGAGCACCA
1 TAGTGCTATTAGGAGTACGAAAGTACTGTCAAGAGCACCA
* * * * *
7249821 TAGTGCTATCATGAGTACGAAAGTTCTGTC-AGAAGAACCG
1 TAGTGCTATTAGGAGTACGAAAGTACTGTCAAG-AGCACCA
* * * *
7249861 TAGTGCTATTAGGAGTATGAAAGTATTGTCAGGAGCATCA
1 TAGTGCTATTAGGAGTACGAAAGTACTGTCAAGAGCACCA
7249901 TAGTGCTATTA
1 TAGTGCTATTA
7249912 AGAGCACCGT
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.03
40 71 0.96
41 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (40 bp):
TAGTGCTATTAGGAGTACGAAAGTACTGTCAAGAGCACCA
Found at i:7249924 original size:20 final size:20
Alignment explanation
Indices: 7249901--7249938 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7249891 AGGAGCATCA
*
7249901 TAGTGCTATTAAGAGCACCG
1 TAGTGATATTAAGAGCACCG
*
7249921 TAGTGATATTAGGAGCAC
1 TAGTGATATTAAGAGCAC
7249939 TTATTCAAGA
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:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (20 bp):
TAGTGATATTAAGAGCACCG
Found at i:7253313 original size:112 final size:112
Alignment explanation
Indices: 7253111--7253335 Score: 319
Period size: 112 Copynumber: 2.0 Consensus size: 112
7253101 TCGTTAGCGA
* *
7253111 ACAGTTATATGTACAGACACCGTATCGATGGCTAAGGTACTGCATATGTTGCGAGTCCTCAGTAG
1 ACAGTTATATGTACAGACACCGTATCAATGGCTAAGGTACTGCATACGTTGCGAGTCCTCAGTAG
* *
7253176 CTTAGTGTGAGCAGTATCGTATACTGGTAACAGAAATGACATTGGTC
66 CTTAGTATGAGCAGCATCGTATACTGGTAACAGAAATGACATTGGTC
** * * *
7253223 ACAGTTATATGTACCTATACCGTATTAATGGCTGAGGTA-TCGCATACGTTGCGAGTCCTCA-TC
1 ACAGTTATATGTACAGACACCGTATCAATGGCTAAGGTACT-GCATACGTTGCGAGTCCTCAGT-
* *
7253286 ATCTTAGTATGAGCAGCATCGTGTACTGGTAACAGAAATGACATTGGTC
64 AGCTTAGTATGAGCAGCATCGTATACTGGTAACAGAAATGACATTGGTC
7253335 A
1 A
7253336 AAAGGGACGA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
111 2 0.02
112 98 0.98
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (112 bp):
ACAGTTATATGTACAGACACCGTATCAATGGCTAAGGTACTGCATACGTTGCGAGTCCTCAGTAG
CTTAGTATGAGCAGCATCGTATACTGGTAACAGAAATGACATTGGTC
Found at i:7254659 original size:25 final size:25
Alignment explanation
Indices: 7254631--7254694 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
7254621 GAGAAATAAT
*
7254631 TTTCCAGTTAAACTCTATTTATTTG
1 TTTCCAATTAAACTCTATTTATTTG
*
7254656 TTT-CAATTAAACTCTGTTTATTTG
1 TTTCCAATTAAACTCTATTTATTTG
*
7254680 TTT-CAATCAAACTCT
1 TTTCCAATTAAACTCT
7254695 TATTAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 33 0.92
25 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (25 bp):
TTTCCAATTAAACTCTATTTATTTG
Found at i:7254689 original size:28 final size:24
Alignment explanation
Indices: 7254638--7254694 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
7254628 AATTTTCCAG
7254638 TTAAACTCTATTTATTTGTTTCAA
1 TTAAACTCTATTTATTTGTTTCAA
*
7254662 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTATTTATTTGTTTCAA
*
7254686 TCAAACTCT
1 TTAAACTCT
7254695 TATTAGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (24 bp):
TTAAACTCTATTTATTTGTTTCAA
Found at i:7258385 original size:13 final size:13
Alignment explanation
Indices: 7258367--7258392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7258357 GGCTTCATTT
7258367 TATTTTTTTTATA
1 TATTTTTTTTATA
7258380 TATTTTTTTTATA
1 TATTTTTTTTATA
7258393 AAAATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTTTATA
Found at i:7270103 original size:96 final size:95
Alignment explanation
Indices: 7269907--7270112 Score: 222
Period size: 96 Copynumber: 2.2 Consensus size: 95
7269897 TTATTTATTT
** *
7269907 ATTTATTTATTATTTTTTAAAAATTTAATTTTTTTTTGTGGTTCCATATAATATGGCACCACCAC
1 ATTTATTTATTATTTTTTAAAAATTTAATTTTTTTAGGTGGTTCCATATAATATGACACCACCAC
* *
7269972 TTCTTCAACTAATCTCAGCTTTTTTTAATG
66 TTCTTCAACAAATCTCAGCTTTTTTTAATC
* *
7270002 ATTTA-TTATTTATTTTTTTAAAATTTAAATTTTTTTAGGTGGTTTCATATTAA-ATGACACCAC
1 ATTTATTTA-TTATTTTTTAAAAATTT-AATTTTTTTAGGTGGTTCCATA-TAATATGACACCAC
* * * **
7270065 TACTTCTTTAA-AACATGTCA-CTTTTTCTTTTTC
63 CACTTCTTCAACAA-ATCTCAGCTTTTT-TTAATC
*
7270098 TTTTATTTATTATTT
1 ATTTATTTATTATTT
7270113 ATTTGTTATT
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
94 3 0.03
95 28 0.30
96 55 0.60
97 6 0.07
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (95 bp):
ATTTATTTATTATTTTTTAAAAATTTAATTTTTTTAGGTGGTTCCATATAATATGACACCACCAC
TTCTTCAACAAATCTCAGCTTTTTTTAATC
Found at i:7270257 original size:27 final size:27
Alignment explanation
Indices: 7270227--7270283 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
7270217 AAAGGGAAAG
7270227 TAAAAACTTATATTAAAAAATCAAAAC
1 TAAAAACTTATATTAAAAAATCAAAAC
7270254 TAAAAACTTATATTAAAAAATCAAAAC
1 TAAAAACTTATATTAAAAAATCAAAAC
7270281 TAA
1 TAA
7270284 CACATTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (27 bp):
TAAAAACTTATATTAAAAAATCAAAAC
Found at i:7270822 original size:13 final size:13
Alignment explanation
Indices: 7270804--7270842 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
7270794 AAAAAAATAA
7270804 ATAATAATAAAAT
1 ATAATAATAAAAT
7270817 ATAATAATAAAAT
1 ATAATAATAAAAT
7270830 -TAAATAATGAAAA
1 AT-AATAAT-AAAA
7270843 GAAAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 19 0.79
14 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
ATAATAATAAAAT
Found at i:7270836 original size:16 final size:15
Alignment explanation
Indices: 7270797--7270837 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
7270787 TAGTTTCAAA
7270797 AAAATAAATAATAAT
1 AAAATAAATAATAAT
7270812 AAAAT--ATAATAAT
1 AAAATAAATAATAAT
7270825 AAAATTAAATAAT
1 AAAA-TAAATAAT
7270838 GAAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 1 0.04
15 5 0.22
16 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:7272636 original size:5 final size:6
Alignment explanation
Indices: 7272622--7272646 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7272612 TTTAATGATT
7272622 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
7272647 TTGAATTGCG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7273274 original size:19 final size:18
Alignment explanation
Indices: 7273230--7273270 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7273220 CGTTTTAAAA
* *
7273230 AATTAAAATATACTTGAT
1 AATTTAAATATACTTGAC
7273248 AATTTAAATATACTTGAC
1 AATTTAAATATACTTGAC
7273266 AATTT
1 AATTT
7273271 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (18 bp):
AATTTAAATATACTTGAC
Found at i:7273309 original size:18 final size:18
Alignment explanation
Indices: 7273285--7273327 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
7273275 ATTAAAATAT
7273285 ATAAAATATATT-TTAAA
1 ATAAAATATATTATTAAA
7273302 ATTAAAATATATTAGTTAAA
1 A-TAAAATATATTA-TTAAA
7273322 ATAAAA
1 ATAAAA
7273328 AAAAGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 5 0.22
20 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAAAATATATTATTAAA
Found at i:7273328 original size:20 final size:18
Alignment explanation
Indices: 7273287--7273328 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
7273277 TAAAATATAT
*
7273287 AAAATATATTTTAAAATT
1 AAAATATATTTTAAAATA
7273305 AAAATATATTAGTTAAAATA
1 AAAATATATT--TTAAAATA
7273325 AAAA
1 AAAA
7273329 AAAGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATATATTTTAAAATA
Found at i:7280369 original size:26 final size:25
Alignment explanation
Indices: 7280319--7280371 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
7280309 AACAATTTGA
* *
7280319 AAATAAATTAAAAATATGTACACTT
1 AAATAAATTAAAAAGATGCACACTT
7280344 AAATAACATTAAAATAGATGCA-ACTT
1 AAATAA-ATTAAAA-AGATGCACACTT
7280370 AA
1 AA
7280372 GAAGCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 13 0.54
27 5 0.21
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATAAATTAAAAAGATGCACACTT
Found at i:7280514 original size:21 final size:21
Alignment explanation
Indices: 7280469--7280530 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
7280459 AAATGGTAGC
*
7280469 AAAATAGTGAA-AAAA-AACAA
1 AAAATAGT-AAGAAAACAATAA
* *
7280489 GAAAATAGTAATATAACAATAA
1 -AAAATAGTAAGAAAACAATAA
7280511 AAAATAGTAAGAAAACAATA
1 AAAATAGTAAGAAAACAATA
7280531 GCACTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.83
22 4 0.11
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.16
Consensus pattern (21 bp):
AAAATAGTAAGAAAACAATAA
Found at i:7285539 original size:4 final size:4
Alignment explanation
Indices: 7285530--7285556 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7285520 CATGCTTGTT
7285530 TACA TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TAC
7285557 GTACGTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:7287128 original size:2 final size:2
Alignment explanation
Indices: 7287121--7287166 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7287111 AAACTGATAT
7287121 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7287163 GA GA
1 GA GA
7287167 TGGAGAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7288054 original size:2 final size:2
Alignment explanation
Indices: 7288047--7288084 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7288037 TTAATTTAAG
7288047 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
7288085 GAGAATAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7289434 original size:2 final size:2
Alignment explanation
Indices: 7289427--7289456 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7289417 TTTAGGACTA
7289427 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
7289457 CGTTTCTTTA
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:7293270 original size:3 final size:3
Alignment explanation
Indices: 7293262--7293291 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7293252 ATCACAGCCC
7293262 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7293292 TACTAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7304078 original size:3 final size:3
Alignment explanation
Indices: 7304070--7304098 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7304060 ATTAATGCTT
7304070 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7304099 TAAACAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7305040 original size:4 final size:4
Alignment explanation
Indices: 7305031--7305095 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
7305021 TGTTGAATAC
7305031 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA
7305079 GATA GATA GATA GATA G
1 GATA GATA GATA GATA G
7305096 CTACTTATCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (4 bp):
GATA
Found at i:7305658 original size:4 final size:4
Alignment explanation
Indices: 7305649--7305678 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7305639 CCCACCATTT
*
7305649 AATA AATA AATG AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
7305679 AGTCGGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:7316006 original size:2 final size:2
Alignment explanation
Indices: 7315999--7316023 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7315989 CAATACAGTT
7315999 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 T
7316024 TAAAGCAATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7319119 original size:27 final size:28
Alignment explanation
Indices: 7319056--7319148 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 28
7319046 CTATGAATCC
*
7319056 AAACCCTAAACC-CAAACATCAAATCAT
1 AAACCCTAAACCTTAAACATCAAATCAT
* * *
7319083 AAGCCTTAAACCTTAAACATCAAA-CTT
1 AAACCCTAAACCTTAAACATCAAATCAT
*
7319110 AAACCCTAAACCTTAAATCCT-AAATCAT
1 AAACCCTAAACCTTAAA-CATCAAATCAT
* *
7319138 AGACCTTAAAC
1 AAACCCTAAAC
7319149 TTTGAATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 30 0.57
28 23 0.43
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (28 bp):
AAACCCTAAACCTTAAACATCAAATCAT
Found at i:7319177 original size:20 final size:21
Alignment explanation
Indices: 7319152--7319190 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7319142 CTTAAACTTT
*
7319152 GAATTT-AGGTTCAAGGTTTA
1 GAATTTAAGATTCAAGGTTTA
7319172 GAATTTAAGATTCAAGGTT
1 GAATTTAAGATTCAAGGTT
7319191 CGAGTTTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (21 bp):
GAATTTAAGATTCAAGGTTTA
Found at i:7326198 original size:194 final size:195
Alignment explanation
Indices: 7325751--7326198 Score: 530
Period size: 195 Copynumber: 2.3 Consensus size: 195
7325741 GAAACCGATG
* * *
7325751 CGATGGCTGGAGTACTGCATATGTTGCGAGTCCTCAACAGCTCGTGTGAGTAGCATCGTGAATCG
1 CGATGGCTGGGGTACTGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAATCG
* * *
7325816 GAAAGATGAGAAATGAATCCAAGAATGAATTACAAGCCTTACAATGGTTGGGATTTATGCATAAG
66 GAAAGATGAGAAATGAATCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATTTATGCATAAG
* * * * **
7325881 TGCATATTCTTGACAGCTAATGTGAGCAGCATCGTTAGGGGATAGTTATATGCACAAATATTGTA
131 TGCATATTCTCGACAGCTAATGTGAGCAGCATCATTAAGGGATAGTTATA-GCACAAACATCATA
7325946 T
195 T
* * * * *
7325947 CGATGGCTGAGCTACTGCATTTGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
1 CGATGGCTGGGGTACTGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAATCG
* * * * * *
7326012 GAAA-A-GAGATATGAAATTCTAA-AATGGATTACAGGCCCTACGATGGCTGAGATTTATGCTTG
66 GAAAGATGAGAAATG-AA-TCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATTTATGCAT-
** * *
7326074 AA-TGCATATTCTCGACAGCTCGTGTGAGCAGCATTATTAAGGGATAGTT-TA-CAAGCAGACAT
128 AAGTGCATATTCTCGACAGCTAATGTGAGCAGCATCATTAAGGGATAGTTATAGC-A-CAAACAT
7326136 CATAT
191 CATAT
* * *
7326141 CGATGGCTGGGGTACTGCATATATTACGAGTCTTCGACAGCTTGTGTGAGTAGCATCG
1 CGATGGCTGGGGTACTGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGTAGCATCG
7326199 GGTACTGATA
Statistics
Matches: 213, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
192 1 0.00
193 1 0.00
194 68 0.32
195 76 0.36
196 67 0.31
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (195 bp):
CGATGGCTGGGGTACTGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAATCG
GAAAGATGAGAAATGAATCCAAGAATGAATTACAAGCCCTACAATGGCTGAGATTTATGCATAAG
TGCATATTCTCGACAGCTAATGTGAGCAGCATCATTAAGGGATAGTTATAGCACAAACATCATAT
Found at i:7330202 original size:28 final size:28
Alignment explanation
Indices: 7330169--7330225 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7330159 ACATTGTCCC
*
7330169 TCCTGTCACAAAGGGCAAATCTTGTGGA
1 TCCTGTCACAAAGAGCAAATCTTGTGGA
7330197 TCCTGTCACAAAGAGCAAATCTTGTGGA
1 TCCTGTCACAAAGAGCAAATCTTGTGGA
7330225 T
1 T
7330226 GAACTTTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
TCCTGTCACAAAGAGCAAATCTTGTGGA
Found at i:7334617 original size:22 final size:22
Alignment explanation
Indices: 7334589--7334631 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7334579 CTAAAGAGTA
*
7334589 TTACAAGGGCATCGAAGTGCAT
1 TTACAAGGGCACCGAAGTGCAT
*
7334611 TTACAAGGGCACCGTAGTGCA
1 TTACAAGGGCACCGAAGTGCA
7334632 AACCGGGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (22 bp):
TTACAAGGGCACCGAAGTGCAT
Found at i:7334670 original size:21 final size:21
Alignment explanation
Indices: 7334591--7334744 Score: 114
Period size: 21 Copynumber: 7.3 Consensus size: 21
7334581 AAAGAGTATT
* **
7334591 ACAAGGGCATCGAAGTGCATTT
1 ACAAGGGCACCGAAGTGCA-AG
*
7334613 ACAAGGGCACCGTAGTGCAA-
1 ACAAGGGCACCGAAGTGCAAG
** *
7334633 ACCGGGGCACCAAAGTGCAAG
1 ACAAGGGCACCGAAGTGCAAG
* *
7334654 ACAAGGGCATCGTAGTGCAAG
1 ACAAGGGCACCGAAGTGCAAG
* * *
7334675 AC-AGAGGCATCGTAGTGCAAT
1 ACAAG-GGCACCGAAGTGCAAG
* * *
7334696 ATAGGGGCACCAAAGTGCAAG
1 ACAAGGGCACCGAAGTGCAAG
* * *
7334717 ATAGGGGCACCGAAGTGCAAT
1 ACAAGGGCACCGAAGTGCAAG
7334738 ACAAGGG
1 ACAAGGG
7334745 TATTTCCACA
Statistics
Matches: 106, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
20 18 0.17
21 70 0.66
22 18 0.17
ACGTcount: A:0.34, C:0.21, G:0.32, T:0.13
Consensus pattern (21 bp):
ACAAGGGCACCGAAGTGCAAG
Found at i:7334692 original size:42 final size:42
Alignment explanation
Indices: 7334595--7334744 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 42
7334585 AGTATTACAA
* * *
7334595 GGGCATCGAAGTGCATTTACAAGGGCACCGTAGTGCAA-ACCG
1 GGGCACCGAAGTGCA-ATACAAGGGCACCGTAGTGCAAGACAG
* * *
7334637 GGGCACCAAAGTGCAAGACAAGGGCATCGTAGTGCAAGACAG
1 GGGCACCGAAGTGCAATACAAGGGCACCGTAGTGCAAGACAG
* * * * * ** *
7334679 AGGCATCGTAGTGCAATATAGGGGCACCAAAGTGCAAGATAG
1 GGGCACCGAAGTGCAATACAAGGGCACCGTAGTGCAAGACAG
7334721 GGGCACCGAAGTGCAATACAAGGG
1 GGGCACCGAAGTGCAATACAAGGG
7334745 TATTTCCACA
Statistics
Matches: 85, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 19 0.22
42 66 0.78
ACGTcount: A:0.33, C:0.21, G:0.33, T:0.13
Consensus pattern (42 bp):
GGGCACCGAAGTGCAATACAAGGGCACCGTAGTGCAAGACAG
Found at i:7334703 original size:63 final size:62
Alignment explanation
Indices: 7334591--7334744 Score: 184
Period size: 63 Copynumber: 2.5 Consensus size: 62
7334581 AAAGAGTATT
** *
7334591 ACAAGGGCATCGAAGTGCATTTACAAGGGCACCGTAGTGCAAACCGGGGCACCAAAGTGCAAG
1 ACAAGGGCATCGAAGTGCA-AGACAAGGGCACCGTAGTGCAAACAGGGGCACCAAAGTGCAAG
* * *
7334654 ACAAGGGCATCGTAGTGCAAGAC-AGAGGCATCGTAGTGCAATATAGGGGCACCAAAGTGCAAG
1 ACAAGGGCATCGAAGTGCAAGACAAG-GGCACCGTAGTGCAA-ACAGGGGCACCAAAGTGCAAG
* * * *
7334717 ATAGGGGCACCGAAGTGCAATACAAGGG
1 ACAAGGGCATCGAAGTGCAAGACAAGGG
7334745 TATTTCCACA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
61 2 0.03
62 16 0.21
63 57 0.74
64 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.32, T:0.13
Consensus pattern (62 bp):
ACAAGGGCATCGAAGTGCAAGACAAGGGCACCGTAGTGCAAACAGGGGCACCAAAGTGCAAG
Found at i:7336099 original size:44 final size:45
Alignment explanation
Indices: 7336022--7336125 Score: 103
Period size: 45 Copynumber: 2.4 Consensus size: 45
7336012 CTTATTTTCA
*
7336022 TTTTCATTTC-C-ATTTTGAGAAACCTACATTCATT-TCCAA-AT
1 TTTTCATTTCTCTATTTTGAAAAACCTACATTCATTCTCCAATAT
**
7336063 TATTTCATTTCTCTATTTTGAAAAAACCATA-A-TCATTCTTGAATAT
1 T-TTTCATTTCTCTATTTTG-AAAAACC-TACATTCATTCTCCAATAT
*
7336109 TTTCCATTTCTCTATTT
1 TTTTCATTTCTCTATTT
7336126 CTATCCATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.02
42 9 0.17
43 1 0.02
44 11 0.21
45 25 0.48
46 5 0.10
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.48
Consensus pattern (45 bp):
TTTTCATTTCTCTATTTTGAAAAACCTACATTCATTCTCCAATAT
Found at i:7339583 original size:132 final size:132
Alignment explanation
Indices: 7339345--7339596 Score: 335
Period size: 132 Copynumber: 1.9 Consensus size: 132
7339335 GAAATGGGTC
* * * *
7339345 TGCTCACACGAGCTATGGGTCGAGTAGTTAGGCTACACGATGCTGCTCACACGAGTTGTGGATAA
1 TGCTCACACGAGCTATGGGTCGAGTAGTTAGGCTACACAATGCTGCTCACACGAGCTATGGAGAA
** * * * *
7339410 TCCGTAATAAATATTGAATCTCAACCATCGGTAGAATATCTAAGACTAGCACCCATATAGCATGT
66 TCCACAATAAATATCGAATCTCAACCATCGGTAGAACATCTAAGACCAACACCCATATAGCATGT
7339475 AA
131 AA
* * *
7339477 TGCTCACACGAGCTGTGGGTCGAG-ATGTTAGGCTATACAATGTTGCTCACACGAGCTATGGAGA
1 TGCTCACACGAGCTATGGGTCGAGTA-GTTAGGCTACACAATGCTGCTCACACGAGCTATGGAGA
* * * *
7339541 ATCCACAATAAATGTCGGATCTCAGCCATCTGTAGAACATCTAAGACCAACACCCA
65 ATCCACAATAAATATCGAATCTCAACCATCGGTAGAACATCTAAGACCAACACCCA
7339597 CATAATCTGT
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 1 0.01
132 101 0.99
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (132 bp):
TGCTCACACGAGCTATGGGTCGAGTAGTTAGGCTACACAATGCTGCTCACACGAGCTATGGAGAA
TCCACAATAAATATCGAATCTCAACCATCGGTAGAACATCTAAGACCAACACCCATATAGCATGT
AA
Found at i:7345222 original size:26 final size:25
Alignment explanation
Indices: 7345170--7345230 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 25
7345160 CCAATTTATG
*
7345170 TAAATAAGTTAAACAAAATCATAATA
1 TAAATAA-TGAAACAAAATCATAATA
*
7345196 TCAAATAATGAAACAAAA-CTATTATA
1 T-AAATAATGAAACAAAATC-ATAATA
7345222 TATAATAAT
1 TA-AATAAT
7345231 TTTATAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 2 0.07
26 22 0.73
27 6 0.20
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (25 bp):
TAAATAATGAAACAAAATCATAATA
Found at i:7347978 original size:23 final size:24
Alignment explanation
Indices: 7347941--7348000 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
7347931 CACTAATAAG
* *
7347941 AATTTGACTCAAACAAATAAA-AA
1 AATTTAACTGAAACAAATAAACAA
* *
7347964 AGTTTAATTGAAACAAATAAACAA
1 AATTTAACTGAAACAAATAAACAA
7347988 AATTTAACTGAAA
1 AATTTAACTGAAA
7348001 AATTATTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (24 bp):
AATTTAACTGAAACAAATAAACAA
Found at i:7348526 original size:29 final size:31
Alignment explanation
Indices: 7348485--7348546 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
7348475 TGATAAAAGT
*
7348485 AAAATTTCAATTTGA-CCCCTGAAAATGATA
1 AAAATTTCAATTTGATCCCCTAAAAATGATA
* * *
7348515 AAAATTT-GATTTGATCCTCTAAAAATTATA
1 AAAATTTCAATTTGATCCCCTAAAAATGATA
7348545 AA
1 AA
7348547 GATATAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (31 bp):
AAAATTTCAATTTGATCCCCTAAAAATGATA
Found at i:7351922 original size:19 final size:19
Alignment explanation
Indices: 7351900--7351937 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7351890 CACTGTCACC
*
7351900 CACCATAATCAAATTTGTT
1 CACCATAATAAAATTTGTT
*
7351919 CACCTTAATAAAATTTGTT
1 CACCATAATAAAATTTGTT
7351938 ATTAACTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (19 bp):
CACCATAATAAAATTTGTT
Found at i:7358876 original size:24 final size:24
Alignment explanation
Indices: 7358825--7358876 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7358815 CATGCTTATA
* *
7358825 TATTGCATACAAAATAATTATATT
1 TATTGAATACAAAATAATTATATG
*
7358849 TATTGAATATAAAATAAATTA-ATG
1 TATTGAATACAAAAT-AATTATATG
7358873 TATT
1 TATT
7358877 TATTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
TATTGAATACAAAATAATTATATG
Found at i:7359951 original size:17 final size:17
Alignment explanation
Indices: 7359882--7359952 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
7359872 TTTGAATCTT
* *
7359882 AATTCATTTTAATTTTA
1 AATTTATTTTAAATTTA
*
7359899 AATTTATTATAAATTTA
1 AATTTATTTTAAATTTA
** ** *
7359916 AGCTTA-TTTGGAGTTA
1 AATTTATTTTAAATTTA
7359932 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
7359949 AATT
1 AATT
7359953 GAAATAAAAA
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
16 10 0.26
17 29 0.74
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:7363465 original size:19 final size:18
Alignment explanation
Indices: 7363438--7363476 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7363428 TTAATTCACC
*
7363438 TTTATTTTAAATAATATTT
1 TTTAATTTAAAT-ATATTT
*
7363457 TTTAATTTATATATATTT
1 TTTAATTTAAATATATTT
7363475 TT
1 TT
7363477 GGTAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATTTAAATATATTT
Found at i:7375368 original size:15 final size:16
Alignment explanation
Indices: 7375329--7375368 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7375319 AATTGGTCCA
7375329 CATATTTTTTCATTTT
1 CATATTTTTTCATTTT
7375345 CAT-TTTTTTC-TTTT
1 CATATTTTTTCATTTT
7375359 -ATATTCTTTT
1 CATATT-TTTT
7375369 AACTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.09
14 6 0.27
15 11 0.50
16 3 0.14
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
CATATTTTTTCATTTT
Found at i:7377534 original size:14 final size:13
Alignment explanation
Indices: 7377505--7377540 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
7377495 AATATTTGAC
*
7377505 ATATAAATATTAT
1 ATATAAAAATTAT
7377518 ATATAAAAATATAT
1 ATATAAAAAT-TAT
7377532 ATATAAAAA
1 ATATAAAAA
7377541 AATTAGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAAAATTAT
Found at i:7377536 original size:16 final size:15
Alignment explanation
Indices: 7377509--7377543 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
7377499 TTTGACATAT
*
7377509 AAATATTATATATAA
1 AAATATTATATAAAA
7377524 AAATATATATATAAAA
1 AAATAT-TATATAAAA
7377540 AAAT
1 AAAT
7377544 TAGTTGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATTATATAAAA
Found at i:7379732 original size:13 final size:13
Alignment explanation
Indices: 7379714--7379769 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
7379704 ATGTGAAGAA
7379714 TATTATTTAAAAT
1 TATTATTTAAAAT
7379727 TATTATTTTTAAAATT
1 TATTA--TTTAAAA-T
7379743 TATTA-TTAAAA-
1 TATTATTTAAAAT
*
7379754 TATAATTTAAATAT
1 TATTATTTAAA-AT
7379768 TA
1 TA
7379770 AATAATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 12 0.33
14 2 0.06
15 7 0.19
16 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:7379745 original size:16 final size:16
Alignment explanation
Indices: 7379714--7379750 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
7379704 ATGTGAAGAA
7379714 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
7379730 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
7379746 TATTA
1 TATTA
7379751 AAATATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:7383665 original size:18 final size:17
Alignment explanation
Indices: 7383608--7383684 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
7383598 AATAAAGATA
*
7383608 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTATAAATT
*
7383625 TAAATTTATTATGAATT
1 TAAATTTATTATAAATT
7383642 TAAATTTGCATTA-AAATT
1 TAAATTT--ATTATAAATT
*
7383660 TGAATTTATTATAAATT
1 TAAATTTATTATAAATT
7383677 TAAATTTA
1 TAAATTTA
7383685 AAACTAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.18
17 28 0.55
18 10 0.20
19 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTATAAATT
Found at i:7383745 original size:46 final size:46
Alignment explanation
Indices: 7383692--7383783 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
7383682 TTAAAACTAA
* *
7383692 ATTAAATGTCCAAAGTCCATTTACAAGCTCGATTGGGCCAAATTTG
1 ATTAAATGTCCAAAGTCCATTTACAAGCCCAATTGGGCCAAATTTG
*
7383738 ATTAAATGTCCAAAGTCCATTTACAAGCCCAATTGGGCTAAATTTG
1 ATTAAATGTCCAAAGTCCATTTACAAGCCCAATTGGGCCAAATTTG
7383784 GCTAGCCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (46 bp):
ATTAAATGTCCAAAGTCCATTTACAAGCCCAATTGGGCCAAATTTG
Found at i:7396533 original size:200 final size:200
Alignment explanation
Indices: 7396181--7396786 Score: 924
Period size: 200 Copynumber: 3.0 Consensus size: 200
7396171 CTTCTTGACG
*
7396181 AGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAACTTCCTGAT
1 AGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGAT
* *
7396246 GAGACACTGAGAAGCAGGACGAAACAATAAAACGGTTAGCTTTCTGATGAGACACAGAGAAGTGG
66 GAGACACTGAGAAGCAGGTCGAAACAATAAAACGGTTAGCTTCCTGATGAGACACAGAGAAGTGG
* *
7396311 ACCAAATTTATCTTCTTGAGGAGATCCAGAGAAGCAAATTAAAACAACCGATGCGGTCATCTTCC
131 ACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAACCGATGCGGTCATCTTCC
7396376 TGATA
196 TGATA
* *
7396381 AGATACAGAGAAGAATACCAACTCAACACTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTAAT
1 AGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGAT
* *
7396446 GAGACACTGAGAAGCAGGTCGAAACAATAAAACGATTAGCTTCCTGATGAGACAAAGAGAAGTGG
66 GAGACACTGAGAAGCAGGTCGAAACAATAAAACGGTTAGCTTCCTGATGAGACACAGAGAAGTGG
* * *
7396511 ACCAAATTTGTCTTCCTGAGGAGATTCAGAGAAGCAAATTAAACCAACCGAGGCGGTCATCTTCC
131 ACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAACCGATGCGGTCATCTTCC
* *
7396576 TAATG
196 TGATA
* * * * * *
7396581 AGATACAGAGAAGAATATCAACTCAATGCTCAACGTGAGCAAATCTTCGAACCTAGCTTCTTGAT
1 AGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGAT
* * * *
7396646 AAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAGCTTCTTGATGAGACACAGAGAAGTAG
66 GAGACACTGAGAAGCAGGTCGAAACAATAAAACGGTTAGCTTCCTGATGAGACACAGAGAAGTGG
* * * **
7396711 ACCAAATTTGTCTTCCTGAGGAGATTCTAGAGAATCGAATTAAAACAAATGATTGCGGTCATCTT
131 ACCAAATTTGTCTTCCTGAGGAGA-TCCAGAGAAGCAAATTAAAACAACCGA-TGCGGTCATCTT
7396776 CCTGATGA
194 CCTGAT-A
7396784 AGA
1 AGA
7396787 GACATAGAGA
Statistics
Matches: 365, Mismatches: 38, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
200 326 0.89
201 20 0.05
202 16 0.04
203 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (200 bp):
AGATACAGAGAAGAATACCAACTCAACGCTCAATGCGAGCAAATCTTCGAACCCAGCTTCCTGAT
GAGACACTGAGAAGCAGGTCGAAACAATAAAACGGTTAGCTTCCTGATGAGACACAGAGAAGTGG
ACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAACCGATGCGGTCATCTTCC
TGATA
Found at i:7397025 original size:291 final size:290
Alignment explanation
Indices: 7396494--7397073 Score: 876
Period size: 291 Copynumber: 2.0 Consensus size: 290
7396484 GCTTCCTGAT
* * * *
7396494 GAGACAAAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATTCAGAGAAGCAAATTAAACCAAC
1 GAGACAAAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCAAATGAAACCAAC
* * * *
7396559 CGAGGCGGTCATCTTCCTAATGAGATACAGAGAAGAATATCAACTCAATGCTCAACGTGAGCAAA
66 CGAGGCGGTCATCTTCCTAATAAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAA
*
7396624 TCTTCGAACCTAGCTTCTTGATAAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAGCTTC
131 TCTTCGAACCTAGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAGCTTC
* * * * *
7396689 TTGATGAGACACAGAGAAGTAGACCAAATTTGTCTTCCTGAGGAGATTCTAGAGAATCGAATTAA
196 CTGATGAGACACAGAGAAGTAGACCAAATTCGTCTCCCTGAGGAGA-TCCAGAGAAGCGAATTAA
*
7396754 AACAAATGATTGCGGTCATCTTCCTGATGAA
260 AACAAATGATTGAGGTCATCTTCCTGATGAA
*
7396785 GAGACATAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCAAATCGAAA-CAA
1 GAGACAAAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCAAAT-GAAACCAA
* * * *
7396849 GCGAGGCGGTCATCTTCTTGATAAGATACAGAGAGGAATACCAACTCAACGCTCAACGCGAGCAA
65 CCGAGGCGGTCATCTTCCTAATAAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAA
* * * * *
7396914 ATCTTCGAACCTAGCTTCCTGATGAGATACTGAGACGTAGGTCGAAGCAATAAAAAGGTTAGCTT
130 ATCTTCGAACCTAGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAGCTT
7396979 CCTGATGAGACACAGAGAAGT-GAACCAAATTCGTCTCCCTGAGGAGATCCAGAGAAGCGAATTA
195 CCTGATGAGACACAGAGAAGTAG-ACCAAATTCGTCTCCCTGAGGAGATCCAGAGAAGCGAATTA
* *
7397043 AAATAAATGATTGATGTCATCTTCCTGATGA
259 AAACAAATGATTGAGGTCATCTTCCTGATGA
7397074 GACGCAGAGA
Statistics
Matches: 260, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
290 44 0.17
291 213 0.82
292 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (290 bp):
GAGACAAAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAAGCAAATGAAACCAAC
CGAGGCGGTCATCTTCCTAATAAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAA
TCTTCGAACCTAGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAGCTTC
CTGATGAGACACAGAGAAGTAGACCAAATTCGTCTCCCTGAGGAGATCCAGAGAAGCGAATTAAA
ACAAATGATTGAGGTCATCTTCCTGATGAA
Found at i:7397477 original size:18 final size:17
Alignment explanation
Indices: 7397463--7397496 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7397453 ATGAATTTGC
7397463 ATTA-AAATTTGAATTT
1 ATTATAAATTTGAATTT
*
7397479 ATTATAAATTTAAATTT
1 ATTATAAATTTGAATTT
7397496 A
1 A
7397497 AAACTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTATAAATTTGAATTT
Found at i:7397506 original size:29 final size:28
Alignment explanation
Indices: 7397424--7397506 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
7397414 CCAATAAAAA
* *
7397424 TATAAATTTAGTTTTAAATTAAATTTAT
1 TATAAATTTAATTTAAAATTAAATTTAT
* * *
7397452 TATGAATTTGCA-TTAAAATTTGAATTTAT
1 TATAAATTT-AATTTAAAA-TTAAATTTAT
*
7397481 TATAAATTTAAATTTAAAACTAAATT
1 TATAAATTT-AATTTAAAATTAAATT
7397507 AAATGTCAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
28 13 0.31
29 23 0.55
30 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (28 bp):
TATAAATTTAATTTAAAATTAAATTTAT
Found at i:7405564 original size:21 final size:21
Alignment explanation
Indices: 7405540--7405583 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7405530 ACCGGTACCT
*
7405540 GTACTAGTTCTACCAATACAA
1 GTACGAGTTCTACCAATACAA
* *
7405561 GTACGATTTCTACCTATACAA
1 GTACGAGTTCTACCAATACAA
7405582 GT
1 GT
7405584 CATGCAACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (21 bp):
GTACGAGTTCTACCAATACAA
Found at i:7407956 original size:20 final size:20
Alignment explanation
Indices: 7407931--7407975 Score: 76
Period size: 18 Copynumber: 2.4 Consensus size: 20
7407921 ACATATTTTA
7407931 ATTTTAAAATTGTCAAGTAT
1 ATTTTAAAATTGTCAAGTAT
7407951 ATTTT--AATTGTCAAGTAT
1 ATTTTAAAATTGTCAAGTAT
7407969 ATTTTAA
1 ATTTTAA
7407976 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 18 0.78
20 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (20 bp):
ATTTTAAAATTGTCAAGTAT
Found at i:7407961 original size:18 final size:18
Alignment explanation
Indices: 7407938--7407977 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
7407928 TTAATTTTAA
7407938 AATTGTCAAGTATATTTT
1 AATTGTCAAGTATATTTT
7407956 AATTGTCAAGTATATTTT
1 AATTGTCAAGTATATTTT
7407974 AATT
1 AATT
7407978 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (18 bp):
AATTGTCAAGTATATTTT
Found at i:7410588 original size:24 final size:24
Alignment explanation
Indices: 7410555--7410603 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
7410545 AATACGAAAT
7410555 AGATCAATTACA-A-ACACAAACAC
1 AGATCAATTACAGATACA-AAACAC
7410578 AGATACAATTACAGATACAAAACAC
1 AGAT-CAATTACAGATACAAAACAC
7410603 A
1 A
7410604 TCAGTTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 8 0.35
26 3 0.13
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.14
Consensus pattern (24 bp):
AGATCAATTACAGATACAAAACAC
Found at i:7415496 original size:31 final size:31
Alignment explanation
Indices: 7415461--7415599 Score: 126
Period size: 31 Copynumber: 4.5 Consensus size: 31
7415451 TTAATATAAC
7415461 ATTTGATACCTAAACTTGACATTTTTTTCTA
1 ATTTGATACCTAAACTTGACATTTTTTTCTA
* * *
7415492 ATTTGATACTTAAACTT---TTTTTTTGTCCA
1 ATTTGATACCTAAACTTGACATTTTTT-TCTA
*
7415521 ATTTGATA-CTCAAACTTGACATATTTTTCTA
1 ATTTGATACCT-AAACTTGACATTTTTTTCTA
* * * **
7415552 ATTTGGTGCCTAAACTTGGCACTTTTTTTAAA
1 ATTTGATACCTAAACTTGACA-TTTTTTTCTA
*
7415584 ATTAG-TACCTAAACTT
1 ATTTGATACCTAAACTT
7415600 TTTGGGATCC
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
28 7 0.08
29 17 0.20
31 44 0.51
32 18 0.21
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (31 bp):
ATTTGATACCTAAACTTGACATTTTTTTCTA
Found at i:7415524 original size:29 final size:28
Alignment explanation
Indices: 7415482--7415537 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
7415472 AAACTTGACA
* *
7415482 TTTTTTTCTAATTTGATACTTAAACTTT
1 TTTTTTTCCAATTTGATACTCAAACTTT
7415510 TTTTTTGTCCAATTTGATACTCAAACTT
1 TTTTTT-TCCAATTTGATACTCAAACTT
7415538 GACATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTTTTTCCAATTTGATACTCAAACTTT
Found at i:7415711 original size:61 final size:58
Alignment explanation
Indices: 7415632--7415782 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 58
7415622 GAACTTGACT
* * * * * *
7415632 ATTAGG-AAAAAATTTCAAGTTCA-GATACTAATTTGGGTCCAAAAAATGTTTAAGTACCAA
1 ATTAGGAAAAAAATATCAAGTTCATG-TACCAAATTGAGT--AAAAAA-ATTTAAATACCAA
* *
7415692 ATTAGGAAAAAAATGTCAAGTTGATGTACCAAATTGAGTAAAAAAATTTAAATACCAA
1 ATTAGGAAAAAAATATCAAGTTCATGTACCAAATTGAGTAAAAAAATTTAAATACCAA
* *
7415750 ATTA-GAAAAAAGTATCAAGTTCAAGTACCAAAT
1 ATTAGGAAAAAAATATCAAGTTCATGTACCAAAT
7415783 ATTATATTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
57 25 0.32
58 15 0.19
59 6 0.08
60 6 0.08
61 25 0.32
62 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (58 bp):
ATTAGGAAAAAAATATCAAGTTCATGTACCAAATTGAGTAAAAAAATTTAAATACCAA
Found at i:7415959 original size:19 final size:19
Alignment explanation
Indices: 7415935--7415972 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7415925 AACCTTGCTT
7415935 CCAATCACTGAGAATGGCG
1 CCAATCACTGAGAATGGCG
7415954 CCAATCACTGAGAATGGCG
1 CCAATCACTGAGAATGGCG
7415973 TACTGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (19 bp):
CCAATCACTGAGAATGGCG
Found at i:7419810 original size:18 final size:18
Alignment explanation
Indices: 7419787--7419823 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7419777 TTACACACAT
7419787 CAACGACCTTCGACTACC
1 CAACGACCTTCGACTACC
7419805 CAACGACCTTCGACTACC
1 CAACGACCTTCGACTACC
7419823 C
1 C
7419824 CTACAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.46, G:0.11, T:0.16
Consensus pattern (18 bp):
CAACGACCTTCGACTACC
Found at i:7425026 original size:32 final size:32
Alignment explanation
Indices: 7424985--7425048 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7424975 CGATCGTAGG
7424985 AACACCTTCAACCAAGCATTTACTAACATCAC
1 AACACCTTCAACCAAGCATTTACTAACATCAC
7425017 AACACCTTCAACCAAGCATTTACTAACATCAC
1 AACACCTTCAACCAAGCATTTACTAACATCAC
7425049 CTTCCTGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.22
Consensus pattern (32 bp):
AACACCTTCAACCAAGCATTTACTAACATCAC
Found at i:7433276 original size:2 final size:2
Alignment explanation
Indices: 7433269--7433314 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7433259 CCATGTCCTA
7433269 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
7433311 AT AT
1 AT AT
7433315 TGTTGAAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7437126 original size:11 final size:11
Alignment explanation
Indices: 7437087--7437145 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
7437077 TAGAGCTAGG
7437087 TTTAAA-TTAA
1 TTTAAATTTAA
**
7437097 TTTAAATTTGC
1 TTTAAATTTAA
7437108 TTTAAATTTAAA
1 TTTAAATTT-AA
*
7437120 TTT-AATTAAA
1 TTTAAATTTAA
*
7437130 TTTGAA-TTAA
1 TTTAAATTTAA
7437140 TTTAAA
1 TTTAAA
7437146 ACTTAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 19 0.49
11 17 0.44
12 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:7437139 original size:27 final size:26
Alignment explanation
Indices: 7437087--7437145 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
7437077 TAGAGCTAGG
**
7437087 TTTAAATTAATTTAAATTTGCTTTAAA
1 TTTAAATTAATTTAAATTTGAATT-AA
7437114 TTTAAATTTAA-TTAAATTTGAATTAA
1 TTTAAA-TTAATTTAAATTTGAATTAA
7437140 TTTAAA
1 TTTAAA
7437146 ACTTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.28
27 17 0.59
28 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (26 bp):
TTTAAATTAATTTAAATTTGAATTAA
Found at i:7437144 original size:16 final size:17
Alignment explanation
Indices: 7437095--7437145 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
7437085 GGTTTAAATT
**
7437095 AATTTAAATTTGCTTTA
1 AATTTAAATTTAATTTA
7437112 AATTTAAATTTAA-TTA
1 AATTTAAATTTAATTTA
*
7437128 AATTTGAA-TTAATTTA
1 AATTTAAATTTAATTTA
7437144 AA
1 AA
7437146 ACTTAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 4 0.13
16 15 0.50
17 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
AATTTAAATTTAATTTA
Found at i:7437151 original size:27 final size:27
Alignment explanation
Indices: 7437087--7437152 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
7437077 TAGAGCTAGG
**
7437087 TTTAAA-TTAATTTAAATTTGCTTTAAA
1 TTTAAACTTAA-TTAAATTTGAATTAAA
*
7437114 TTTAAATTTAATTAAATTTGAATT-AA
1 TTTAAACTTAATTAAATTTGAATTAAA
7437140 TTTAAAACTTAAT
1 TTT-AAACTTAAT
7437153 ATTAAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.15
27 25 0.74
28 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
TTTAAACTTAATTAAATTTGAATTAAA
Found at i:7437875 original size:21 final size:21
Alignment explanation
Indices: 7437846--7437954 Score: 82
Period size: 21 Copynumber: 5.2 Consensus size: 21
7437836 AATAATACTA
* *
7437846 AATAATAATAACTATTTTGAT
1 AATAATAATAAATATTTTAAT
* *
7437867 AATAGTAATAAATGTTTTAAT
1 AATAATAATAAATATTTTAAT
7437888 AATAATAAT-AATAAGTGCTTTAAT
1 AATAATAATAAAT-A-T--TTTAAT
* *
7437912 AATATTAATAAATGTTTT-AT
1 AATAATAATAAATATTTTAAT
* *
7437932 AATAATGAT-AAT-TATTAAT
1 AATAATAATAAATATTTTAAT
7437951 AATA
1 AATA
7437955 TTTTTAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.04
19 9 0.13
20 12 0.17
21 28 0.39
22 1 0.01
23 1 0.01
24 14 0.20
25 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (21 bp):
AATAATAATAAATATTTTAAT
Found at i:7437892 original size:24 final size:23
Alignment explanation
Indices: 7437865--7437943 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 23
7437855 AACTATTTTG
7437865 ATAATAGTAATAAATGTTTTAATA
1 ATAATA-TAATAAATGTTTTAATA
* *
7437889 ATAATAATAATAAGTGCTTTAATA
1 ATAAT-ATAATAAATGTTTTAATA
7437913 AT-AT-TAATAAATGTTTT-ATA
1 ATAATATAATAAATGTTTTAATA
7437933 ATAATGATAAT
1 ATAAT-ATAAT
7437944 TATTAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.11
21 13 0.28
23 6 0.13
24 22 0.47
25 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (23 bp):
ATAATATAATAAATGTTTTAATA
Found at i:7437901 original size:45 final size:44
Alignment explanation
Indices: 7437846--7437943 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
7437836 AATAATACTA
* *
7437846 AATAATAATAACTATTTTGATAATAGTAATAAATGTTTTAATAAT
1 AATAATAATAACTACTTTAATAATAGTAATAAATGTTTT-ATAAT
* * *
7437891 AATAATAATAAGTGCTTTAATAATATTAATAAATGTTTTATAAT
1 AATAATAATAACTACTTTAATAATAGTAATAAATGTTTTATAAT
*
7437935 AATGATAAT
1 AATAATAAT
7437944 TATTAATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 13 0.28
45 34 0.72
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (44 bp):
AATAATAATAACTACTTTAATAATAGTAATAAATGTTTTATAAT
Found at i:7437948 original size:30 final size:30
Alignment explanation
Indices: 7437910--7437967 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
7437900 AAGTGCTTTA
7437910 ATAATATTAATAA-ATGTTTT-ATAATAATG
1 ATAATATTAATAATAT-TTTTAATAATAATG
7437939 ATAATTATTAATAATATTTTTAATAATAA
1 ATAA-TATTAATAATATTTTTAATAATAA
7437968 AAAAAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 13 0.50
31 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
ATAATATTAATAATATTTTTAATAATAATG
Found at i:7439272 original size:30 final size:29
Alignment explanation
Indices: 7439165--7439452 Score: 221
Period size: 30 Copynumber: 9.8 Consensus size: 29
7439155 TTTGACCCCG
* *
7439165 AAACTT-TCAAAAATTACA-TTTTAACCTCG
1 AAACTTCT-AAAAATTACATTTTTACCCT-A
* * *
7439194 AAACTTCAAAAAATTACATTTTTTCCC-C
1 AAACTTCTAAAAATTACATTTTTACCCTA
* * * *
7439222 GAATTTCCAAAAATTCCATTTTTAGCCCTA
1 AAACTTCTAAAAATTACATTTTTA-CCCTA
* * * *
7439252 AAACTTTTAGAAATTACATTTTAACCCTG
1 AAACTTCTAAAAATTACATTTTTACCCTA
* *
7439281 AAACTTCTTCAAAATTACATTTTTAACCCCA
1 AAACTTC-TAAAAATTACATTTTT-ACCCTA
* *
7439312 AAACTTCTAAAAATTCCATTTTTAACCTCA
1 AAACTTCTAAAAATTACATTTTTACCCT-A
7439342 AAACTTCCT-AAAATTA-ATTTTTTACCCCT-
1 AAACTT-CTAAAAATTACA-TTTTTA-CCCTA
* *
7439371 AAACTTCCAAAAATT-CTATTTTTAACCTCA
1 AAACTTCTAAAAATTAC-ATTTTTACCCT-A
**
7439401 AAACTTCTAAAAATTACATTTTTACCCCC
1 AAACTTCTAAAAATTACATTTTTACCCTA
* *
7439430 AAACTTCCAAAAATTTCATTTTT
1 AAACTTCTAAAAATTACATTTTT
7439453 GACCACGAAC
Statistics
Matches: 205, Mismatches: 38, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
28 23 0.11
29 72 0.35
30 93 0.45
31 17 0.08
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACTTCTAAAAATTACATTTTTACCCTA
Found at i:7439384 original size:59 final size:61
Alignment explanation
Indices: 7439165--7439452 Score: 249
Period size: 59 Copynumber: 4.9 Consensus size: 61
7439155 TTTGACCCCG
* * * * * * * *
7439165 AAACTTTC-AAAAATTACA-TTTTAACCTCGAAACTTCAAAAAATTACATTTTT-TCC-CC
1 AAACTTCCTAAAAATTACATTTTTTACCCCAAAACTTCCAAAAATTCCATTTTTAACCTCA
* * * * ** * * *
7439222 GAATTTCC-AAAAATTCCA-TTTTTAGCCCTAAAACTTTTAGAAATTACA-TTTTAACC-CTG
1 AAACTTCCTAAAAATTACATTTTTTA-CCCCAAAACTTCCAAAAATTCCATTTTTAACCTC-A
* * * *
7439281 AAACTTCTTCAAAATTACATTTTTAACCCCAAAACTTCTAAAAATTCCATTTTTAACCTCA
1 AAACTTCCTAAAAATTACATTTTTTACCCCAAAACTTCCAAAAATTCCATTTTTAACCTCA
* *
7439342 AAACTTCCT-AAAATTA-ATTTTTTACCCCTAAACTTCCAAAAATTCTATTTTTAACCTCA
1 AAACTTCCTAAAAATTACATTTTTTACCCCAAAACTTCCAAAAATTCCATTTTTAACCTCA
* *
7439401 AAACTT-CTAAAAATTACA-TTTTTACCCCCAAACTTCCAAAAATTTCATTTTT
1 AAACTTCCTAAAAATTACATTTTTTACCCCAAAACTTCCAAAAATTCCATTTTT
7439453 GACCACGAAC
Statistics
Matches: 190, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
57 23 0.12
58 22 0.12
59 88 0.46
60 35 0.18
61 21 0.11
62 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (61 bp):
AAACTTCCTAAAAATTACATTTTTTACCCCAAAACTTCCAAAAATTCCATTTTTAACCTCA
Found at i:7439452 original size:29 final size:29
Alignment explanation
Indices: 7439153--7439452 Score: 257
Period size: 29 Copynumber: 10.2 Consensus size: 29
7439143 TAGAAATTGT
* * *
7439153 ATTTTGACCCCGAAACTTTCAAAAATTAC
1 ATTTTTACCCCAAAACTTCCAAAAATTAC
* * * *
7439182 ATTTTAACCTCGAAACTTCAAAAAATTAC
1 ATTTTTACCCCAAAACTTCCAAAAATTAC
* * * *
7439211 ATTTTTTCCCC-GAATTTCCAAAAATTCC
1 ATTTTTACCCCAAAACTTCCAAAAATTAC
* ** *
7439239 ATTTTTAGCCCTAAAACTTTTAGAAATTAC
1 ATTTTTA-CCCCAAAACTTCCAAAAATTAC
* **
7439269 ATTTTAACCCTGAAACTTCTTC-AAAATTAC
1 ATTTTTACCCCAAAACTTC--CAAAAATTAC
* *
7439299 ATTTTTAACCCCAAAACTTCTAAAAATTCC
1 ATTTTT-ACCCCAAAACTTCCAAAAATTAC
* *
7439329 ATTTTTAACCTCAAAACTTCCTAAAATTA-
1 ATTTTT-ACCCCAAAACTTCCAAAAATTAC
*
7439358 ATTTTTTACCCCTAAACTTCCAAAAATT-C
1 A-TTTTTACCCCAAAACTTCCAAAAATTAC
* *
7439387 TATTTTTAACCTCAAAACTTCTAAAAATTAC
1 -ATTTTT-ACCCCAAAACTTCCAAAAATTAC
* *
7439418 ATTTTTACCCCCAAACTTCCAAAAATTTC
1 ATTTTTACCCCAAAACTTCCAAAAATTAC
7439447 ATTTTT
1 ATTTTT
7439453 GACCACGAAC
Statistics
Matches: 217, Mismatches: 43, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
28 19 0.09
29 95 0.44
30 91 0.42
31 12 0.06
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCCAAAACTTCCAAAAATTAC
Found at i:7448900 original size:147 final size:148
Alignment explanation
Indices: 7448632--7448929 Score: 544
Period size: 147 Copynumber: 2.0 Consensus size: 148
7448622 CTACTTCAGG
7448632 CAAGTTGCTAGGTTTTGTGGTCAGTCAAAGGAGGATTGAAATCGATCCAAACAAGGTTAAAGCTA
1 CAAGTTGCTAGGTTTTGTGGTCAGTCAAAGGAGGATTGAAATCGATCCAAACAAGGTTAAAGCTA
7448697 TACAAGAATTACCTCCACCTCGCACACAAAAAGAAGTTAGAAGTTTTCTTGGGAGATTGAATTAC
66 TACAAGAATTACCTCCACCTCGCACACAAAAAGAAGTTAGAAGTTTTCTTGGGAGATTGAATTAC
7448762 ATCGCTCGGTTTATCTCA
131 ATCGCTCGGTTTATCTCA
* *
7448780 CAAGTTGCTAGGTTTTGTGGTCAGTCAAAGG-GGATTGAAATCGATCTAGACAAGGTTAAAGCTA
1 CAAGTTGCTAGGTTTTGTGGTCAGTCAAAGGAGGATTGAAATCGATCCAAACAAGGTTAAAGCTA
* * *
7448844 TACAAGAATTACCTTCACCTCGCACACAAAAAGAAGTTATAAGTTTTCTTGGGAGATTGAATTAT
66 TACAAGAATTACCTCCACCTCGCACACAAAAAGAAGTTAGAAGTTTTCTTGGGAGATTGAATTAC
7448909 ATCGCTCGGTTTATCTCA
131 ATCGCTCGGTTTATCTCA
7448927 CAA
1 CAA
7448930 TTAATCAAGA
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
147 114 0.79
148 31 0.21
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (148 bp):
CAAGTTGCTAGGTTTTGTGGTCAGTCAAAGGAGGATTGAAATCGATCCAAACAAGGTTAAAGCTA
TACAAGAATTACCTCCACCTCGCACACAAAAAGAAGTTAGAAGTTTTCTTGGGAGATTGAATTAC
ATCGCTCGGTTTATCTCA
Found at i:7452563 original size:92 final size:92
Alignment explanation
Indices: 7452133--7453325 Score: 2067
Period size: 92 Copynumber: 13.0 Consensus size: 92
7452123 GATCAGATCA
* *
7452133 ATCAAACATCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTAGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7452198 GAAGTTGTAGTAAGAGCAAGATGATGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
7452225 ATCAAAATATCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTC
1 ATC-AAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTC
7452290 TGAAGTTGTAGTAAGAGCAAGATGAAGC
65 TGAAGTTGTAGTAAGAGCAAGATGAAGC
*
7452318 ATCAAAACATCAA-TCTCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCT
1 ATC-AAACATCAATTC-CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCT
7452382 CTGAAGTTGTAGTAAGAGCAAGATGAAGC
64 CTGAAGTTGTAGTAAGAGCAAGATGAAGC
*
7452411 ATCAAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTATTTATCTCTC
1 ATC-AAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTC
*
7452476 TGAAGTTGTAGTAAAAGCAAGATGAAGC
65 TGAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
7452504 ATCAAACATCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGTAAGTCCTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7452569 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
7452596 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7452661 GAAGTTATAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
**
7452688 ATCAAACATCCTTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7452753 GAAGTT-TAAGTAAGAGCAAGATGAAGC
66 GAAGTTGT-AGTAAGAGCAAGATGAAGC
*
7452780 ATCAAACATTAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7452845 GAAGTTATAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* *
7452872 ATC-AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7452936 GAAGTT-TAAGTAAGAGCAAGATGAAGC
66 GAAGTTGT-AGTAAGAGCAAGATGAAGC
* *
7452963 ATCAAACATCATTTCCTATCCT-TT--AGTTGTAGTAAAGTCGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7453025 AAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
*
7453052 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTTTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7453117 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
7453144 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7453209 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
*
7453236 ATCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7453301 GAAGTTGTAGTAAGAGCAAGATGAA
66 GAAGTTGTAGTAAGAGCAAGATGAA
7453326 ACCTCGACAT
Statistics
Matches: 1055, Mismatches: 35, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
89 81 0.08
90 4 0.00
91 89 0.08
92 614 0.58
93 265 0.25
94 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
GAAGTTGTAGTAAGAGCAAGATGAAGC
Found at i:7453176 original size:548 final size:553
Alignment explanation
Indices: 7452133--7453325 Score: 2071
Period size: 548 Copynumber: 2.2 Consensus size: 553
7452123 GATCAGATCA
* *
7452133 ATCAAACATCAATCCCTATCCTCTTGAAGTTGTAGTAAAGTTAGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7452198 GAAGTTGTAGTAAGAGCAAGATGATGCATCAAAATATCAATCCCTATCCTCTTGAAGTTGTAGTA
66 GAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAATATCAATCCCTATCCTCTTGAAGTTGTAGTA
*
7452263 AAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAACAT
131 AAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCATC-AAACAT
7452328 CAATCTCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTGTA
195 CAATCTCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTGTA
*
7452393 GTAAGAGCAAGATGAAGCATCAAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGAT
260 GTAAGAGCAAGATGAAGCATCAAAACATCAATTCCTATCCTCTT-AAGTTGTAGTAAAGTCGGAT
*
7452458 AGCAAGTATTTATCTCTCTGAAGTTGTAGTAAAAGCAAGATGAAGCATCAAACATCAATCCCTAT
324 AGCAAGTATTTATCTCTCTAAAGTTGTAGTAAAAGCAAGATGAAGCATCAAACATCAATCCCTAT
*
7452523 CCTCTTGAAGTTGTAGTAAAGTTGGATAGTAAGTCCTTATCTCTCTGAAGTTGTAGTAAGAGCAA
389 CCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCCTTATCTCTCTGAAGTTGTAGTAAGAGCAA
7452588 GATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTT
454 GATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTT
7452653 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGC
519 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGC
**
7452688 ATCAAACATCCTTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
7452753 GAAGTT-TAAGTAAGAGCAAGATGAAGCATCAAACAT-T-AATTCCTATCCTCTTGAAGTTGTAG
66 GAAGTTGT-AGTAAGAGCAAGATGAAGCATCAAA-ATATCAATCCCTATCCTCTTGAAGTTGTAG
*
7452815 TAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCATC-AACA
129 TAAAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCATCAAACA
* * *
7452879 TC-ATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTTTGAAGTT-
194 TCAATCT-CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTG
*
7452942 TAAGTAAGAGCAAGATGAAGCATC-AAACATCATTTCCTATCCT-TT-AGTTGTAGTAAAGTCGG
258 T-AGTAAGAGCAAGATGAAGCATCAAAACATCAATTCCTATCCTCTTAAGTTGTAGTAAAGTCGG
* * *
7453004 ATAGCAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCT
322 ATAGCAAGTATTTATCTCTCTAAAGTTGTAGTAAAAGCAAGATGAAGCATCAAACATCAATCCCT
**
7453069 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTTTTTATCTCTCTGAAGTTGTAGTAAGAGC
387 ATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCCTTATCTCTCTGAAGTTGTAGTAAGAGC
7453134 AAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
452 AAGATGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
*
7453199 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
517 TTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGC
*
7453236 ATCAAACATCAATTCCTATCCTCTTGAAGTTGCAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
7453301 GAAGTTGTAGTAAGAGCAAGATGAA
66 GAAGTTGTAGTAAGAGCAAGATGAA
7453326 ACCTCGACAT
Statistics
Matches: 609, Mismatches: 24, Indels: 17
0.94 0.04 0.03
Matches are distributed among these distances:
548 325 0.53
549 1 0.00
550 2 0.00
551 22 0.04
552 82 0.13
554 83 0.14
555 92 0.15
556 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (553 bp):
ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
GAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAATATCAATCCCTATCCTCTTGAAGTTGTAGTA
AAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCATCAAACATC
AATCTCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAATCTTTATCTCTCTGAAGTTGTAG
TAAGAGCAAGATGAAGCATCAAAACATCAATTCCTATCCTCTTAAGTTGTAGTAAAGTCGGATAG
CAAGTATTTATCTCTCTAAAGTTGTAGTAAAAGCAAGATGAAGCATCAAACATCAATCCCTATCC
TCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCCTTATCTCTCTGAAGTTGTAGTAAGAGCAAGA
TGAAGCATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
CTCTCTGAAGTTATAGTAAGAGCAAGATGAAGC
Found at i:7453637 original size:17 final size:17
Alignment explanation
Indices: 7453605--7453664 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
7453595 TAGAGCTAGG
*
7453605 TTTAAA-TTAATTTAAA
1 TTTAAATTTATTTTAAA
7453621 -TTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
7453638 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
7453655 TTTAAATTTA
1 TTTAAATTTA
7453665 AATTTGCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 5 0.12
16 3 0.08
17 23 0.57
18 9 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:7453639 original size:23 final size:23
Alignment explanation
Indices: 7453605--7453709 Score: 103
Period size: 23 Copynumber: 4.8 Consensus size: 23
7453595 TAGAGCTAGG
7453605 TTTAAA-TT-AATTTAAATTAAA
1 TTTAAATTTAAATTTAAATTAAA
** * *
7453626 TTTATTTTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAAATTAAA
***
7453649 TTTAAATTTAAATTTAAATTTGC
1 TTTAAATTTAAATTTAAATTAAA
7453672 TTTAAATTTAAATTT-AATTAAA
1 TTTAAATTTAAATTTAAATTAAA
*
7453694 TTTGAA-TT-AATTTAAA
1 TTTAAATTTAAATTTAAA
7453710 ACTTATTATT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.07
21 8 0.12
22 11 0.16
23 45 0.65
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTAAATTTAAATTTAAATTAAA
Found at i:7453641 original size:6 final size:6
Alignment explanation
Indices: 7453605--7453709 Score: 93
Period size: 6 Copynumber: 19.0 Consensus size: 6
7453595 TAGAGCTAGG
** *
7453605 TTTAAA -TT-AA TTTAAA -TTAAA TTTATT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
**
7453649 TTTAAA TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
7453694 TTTGAA -TT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA
7453710 ACTTATTATT
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
4 6 0.08
5 24 0.30
6 49 0.62
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:7454441 original size:21 final size:21
Alignment explanation
Indices: 7454412--7454502 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 21
7454402 ATTAATACTA
* *
7454412 AATAATAATAACTATTTTGAT
1 AATAATAATAAATATTTTAAT
* *
7454433 AATAGTAATAAAT-GTTT--T
1 AATAATAATAAATATTTTAAT
* **
7454451 AATAATAATAAGTGCTTTAAT
1 AATAATAATAAATATTTTAAT
* *
7454472 AATATTAATAAATGTTTT-AT
1 AATAATAATAAATATTTTAAT
*
7454492 AATAATGATAA
1 AATAATAATAA
7454503 TCATTAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
18 12 0.21
19 3 0.05
20 14 0.25
21 27 0.48
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (21 bp):
AATAATAATAAATATTTTAAT
Found at i:7454453 original size:18 final size:18
Alignment explanation
Indices: 7454432--7454497 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
7454422 ACTATTTTGA
*
7454432 TAATAGTAATAAATGTTT
1 TAATAATAATAAATGTTT
*
7454450 TAATAATAATAAGTGCTTT
1 TAATAATAATAAATG-TTT
*
7454469 AATAATATTAATAAATGTTT
1 --TAATAATAATAAATGTTT
7454489 T-ATAATAAT
1 TAATAATAAT
7454498 GATAATCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.17
18 14 0.35
19 3 0.08
20 3 0.08
21 13 0.32
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (18 bp):
TAATAATAATAAATGTTT
Found at i:7454459 original size:39 final size:39
Alignment explanation
Indices: 7454412--7454497 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
7454402 ATTAATACTA
* *
7454412 AATAATAATAACTATTTTGATAATAGTAATAAATGTTTT
1 AATAATAATAACTACTTTAATAATAGTAATAAATGTTTT
* * *
7454451 AATAATAATAAGTGCTTTAATAATATTAATAAATGTTTT
1 AATAATAATAACTACTTTAATAATAGTAATAAATGTTTT
7454490 -ATAATAAT
1 AATAATAAT
7454498 GATAATCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 8 0.19
39 34 0.81
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (39 bp):
AATAATAATAACTACTTTAATAATAGTAATAAATGTTTT
Found at i:7454510 original size:39 final size:39
Alignment explanation
Indices: 7454431--7454514 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
7454421 AACTATTTTG
* *
7454431 ATAATAGTAATAAATGTTTTAATAATAATAAGTGCTTTA
1 ATAATAGTAATAAATGTTTTAATAATAATAAATGCATTA
*
7454470 ATAATATTAATAAATGTTTT-ATAATAATGATAAT-CATTA
1 ATAATAGTAATAAATGTTTTAATAATAAT-A-AATGCATTA
7454509 ATAATA
1 ATAATA
7454515 CTTTTAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
38 8 0.20
39 30 0.75
40 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (39 bp):
ATAATAGTAATAAATGTTTTAATAATAATAAATGCATTA
Found at i:7454520 original size:30 final size:30
Alignment explanation
Indices: 7454470--7454527 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
7454460 AAGTGCTTTA
*
7454470 ATAATATTAATAAATGTTTT-ATAATAATG
1 ATAATATTAATAAATCTTTTAATAATAATG
7454499 ATAATCATTAAT-AATACTTTTAATAATAA
1 ATAAT-ATTAATAAAT-CTTTTAATAATAA
7454528 AAAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
ATAATATTAATAAATCTTTTAATAATAATG
Found at i:7455309 original size:15 final size:15
Alignment explanation
Indices: 7455284--7455323 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7455274 CTATGGATTG
*
7455284 ACCCGATCCGACCCA
1 ACCCGACCCGACCCA
* *
7455299 AGCCGACCCGATCCA
1 ACCCGACCCGACCCA
7455314 ACCCGACCCG
1 ACCCGACCCG
7455324 GCTTCAAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.53, G:0.17, T:0.05
Consensus pattern (15 bp):
ACCCGACCCGACCCA
Found at i:7455745 original size:30 final size:29
Alignment explanation
Indices: 7455696--7456112 Score: 301
Period size: 30 Copynumber: 14.1 Consensus size: 29
7455686 CCTCGGAGGT
* *
7455696 CCCT-AAACTGTCTAGAAATTATATTTTGA
1 CCCTGAAACT-TCTAAAAATTACATTTTGA
* *
7455725 -CCTCGAAACTTCTTTAAAATTACATTTTTCA
1 CCCT-GAAACTTC-TAAAAATTACA-TTTTGA
* * *
7455756 CCCTGAAACTTTTAACAATTACATTCTGA
1 CCCTGAAACTTCTAAAAATTACATTTTGA
*
7455785 -CCTCGAAACTTCCAAAAATTACATTTTGA
1 CCCT-GAAACTTCTAAAAATTACATTTTGA
* * *
7455814 CCCTGAAACTTCAAAAAATTATATTTTGT
1 CCCTGAAACTTCTAAAAATTACATTTTGA
* * * *
7455843 CCCTTAAACTT-TCAAAACTTCCATTTTTAA
1 CCCTGAAACTTCT-AAAAATTACA-TTTTGA
* *
7455873 CCCTGAAACTTCTTAAAATTACATTTTTA
1 CCCTGAAACTTCTAAAAATTACATTTTGA
* *
7455902 CCCCCT-AAATTTCTAAAAATTCCATTTTTGA
1 --CCCTGAAACTTCTAAAAATTACA-TTTTGA
** * * *
7455933 CCCCAAAACTTCCAAAAATTATATTTTTAA
1 CCCTGAAACTTCTAAAAATTACA-TTTTGA
* * *
7455963 CCCTAAAACTTCTAAAAATTATATTTTTA
1 CCCTGAAACTTCTAAAAATTACATTTTGA
* *
7455992 CCCTCG-AACTTCCAAAAATTCCATTTTTGA
1 CCCT-GAAACTTCTAAAAATTACA-TTTTGA
*
7456022 -CCTCGAAACTTTCT-AAAATTACATTTTTA
1 CCCT-GAAAC-TTCTAAAAATTACATTTTGA
* * * *
7456051 CCCTCAACCTTCCAAAAATTCCATTTTTGA
1 CCCTGAAACTTCTAAAAATTACA-TTTTGA
* *
7456081 CCCTGAAACTTCCAAAAATTTCATTTTTGA
1 CCCTGAAACTTCTAAAAATTACA-TTTTGA
7456111 CC
1 CC
7456113 ACGAACTTCC
Statistics
Matches: 310, Mismatches: 57, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
28 9 0.03
29 118 0.38
30 155 0.50
31 25 0.08
32 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
CCCTGAAACTTCTAAAAATTACATTTTGA
Done.