Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 226 of 318
Found at i:71193862 original size:79 final size:79
Alignment explanation
Indices: 71193722--71193943 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 79
71193712 TATTCGAATG
* * * **
71193722 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGC
71193787 ATCTGTGCGAGTTACT
64 ATCTGTGCGAGTTACT
* *
71193803 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGC
*
71193866 ATTTGTGCGAGTTACT
64 ATCTGTGCGAGTTACT
* * * *
71193882 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
71193944 TATGTGATTC
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 63 0.52
80 45 0.37
81 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCAT
CTGTGCGAGTTACT
Found at i:71195721 original size:44 final size:44
Alignment explanation
Indices: 71195623--71195724 Score: 195
Period size: 44 Copynumber: 2.3 Consensus size: 44
71195613 TATATGTGTG
*
71195623 CGAGTAAGACCATGGCATCGATATGTCATTCCGATATGTGTTTA
1 CGAGTAAGACTATGGCATCGATATGTCATTCCGATATGTGTTTA
71195667 CGAGTAAGACTATGGCATCGATATGTCATTCCGATATGTGTTTA
1 CGAGTAAGACTATGGCATCGATATGTCATTCCGATATGTGTTTA
71195711 CGAGTAAGACTATG
1 CGAGTAAGACTATG
71195725 TTAGGGACAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
CGAGTAAGACTATGGCATCGATATGTCATTCCGATATGTGTTTA
Found at i:71196630 original size:22 final size:22
Alignment explanation
Indices: 71196564--71196630 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
71196554 CTTGATTATA
71196564 TGTGTGCTTAGTTATAATGATT
1 TGTGTGCTTAGTTATAATGATT
* *
71196586 T-TGT--TTAGATT-TGAT-TTT
1 TGTGTGCTTAG-TTATAATGATT
71196604 ATGTGTGCTTAGTTATAATGATT
1 -TGTGTGCTTAGTTATAATGATT
71196627 TGTG
1 TGTG
71196631 ATCTTGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 5 0.15
21 5 0.15
22 12 0.35
23 2 0.06
ACGTcount: A:0.21, C:0.03, G:0.22, T:0.54
Consensus pattern (22 bp):
TGTGTGCTTAGTTATAATGATT
Found at i:71198648 original size:30 final size:30
Alignment explanation
Indices: 71198614--71198690 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
71198604 ATTGCTTCAG
**
71198614 CTATCGAATTATGAAAA-GTGATGGTGACGA
1 CTATCGAACAATGAAAAGGT-ATGGTGACGA
71198644 CTATC-AACAATGAAAAGGTATGGTGACGA
1 CTATCGAACAATGAAAAGGTATGGTGACGA
* * *
71198673 CCATCGGACACTGAAAAG
1 CTATCGAACAATGAAAAG
71198691 AGATAGCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (30 bp):
CTATCGAACAATGAAAAGGTATGGTGACGA
Found at i:71198737 original size:61 final size:61
Alignment explanation
Indices: 71198656--71198780 Score: 146
Period size: 61 Copynumber: 2.0 Consensus size: 61
71198646 ATCAACAATG
* * **
71198656 AAAAGGTATGGTGACGACCATCGGA-CACTGAAAAGAGATAGCTTCGGCTATCAAAATTATGA
1 AAAAGGTATAGTGACAACCATCAAATCA-TGAAAAGAGATAGCTTCGGCTAT-AAAATTATGA
* * **
71198718 AAAAGG-ATAGTGACAACCATCAAATTATGAAAAGGGATAGCTTCGGCTATTGAATTATGA
1 AAAAGGTATAGTGACAACCATCAAATCATGAAAAGAGATAGCTTCGGCTATAAAATTATGA
71198778 AAA
1 AAA
71198781 GGGACAGCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 11 0.20
61 36 0.67
62 7 0.13
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (61 bp):
AAAAGGTATAGTGACAACCATCAAATCATGAAAAGAGATAGCTTCGGCTATAAAATTATGA
Found at i:71198774 original size:30 final size:30
Alignment explanation
Indices: 71198684--71198838 Score: 186
Period size: 30 Copynumber: 5.1 Consensus size: 30
71198674 CATCGGACAC
* *
71198684 TGAAAAGAGATAGCTTCGGCTATCAAAATTA
1 TGAAAAGGGATAGCTTCGGCTATC-GAATTA
* * ** * *
71198715 TGAAAAAGGATAG-TGACAACCATCAAATTA
1 TGAAAAGGGATAGCT-TCGGCTATCGAATTA
*
71198745 TGAAAAGGGATAGCTTCGGCTATTGAATTA
1 TGAAAAGGGATAGCTTCGGCTATCGAATTA
*
71198775 TGAAAAGGGACAGCTTCGGCTATCGAATTA
1 TGAAAAGGGATAGCTTCGGCTATCGAATTA
*
71198805 TGAAAAGGGATAGCTTCGACTATCGAATTA
1 TGAAAAGGGATAGCTTCGGCTATCGAATTA
71198835 TGAA
1 TGAA
71198839 CCGAGTTAGC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
30 88 0.84
31 17 0.16
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCGGCTATCGAATTA
Found at i:71198849 original size:30 final size:30
Alignment explanation
Indices: 71198684--71198860 Score: 169
Period size: 30 Copynumber: 5.9 Consensus size: 30
71198674 CATCGGACAC
*
71198684 TGAAAAGAGATAGCTTCGGCTATCAAAATTA
1 TGAAAAGAGATAGCTTCGGCTATC-GAATTA
* ** * *
71198715 TGAAAA-AGGATAG-TGACAACCATCAAATTA
1 TGAAAAGA-GATAGCT-TCGGCTATCGAATTA
* *
71198745 TGAAAAGGGATAGCTTCGGCTATTGAATTA
1 TGAAAAGAGATAGCTTCGGCTATCGAATTA
* *
71198775 TGAAAAGGGACAGCTTCGGCTATCGAATTA
1 TGAAAAGAGATAGCTTCGGCTATCGAATTA
* *
71198805 TGAAAAGGGATAGCTTCGACTATCGAATTA
1 TGAAAAGAGATAGCTTCGGCTATCGAATTA
** * *
71198835 TGAACCGAGTTAGCTTTGGCTATCGA
1 TGAAAAGAGATAGCTTCGGCTATCGA
71198861 TTGGTAAAAA
Statistics
Matches: 121, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
30 104 0.86
31 17 0.14
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (30 bp):
TGAAAAGAGATAGCTTCGGCTATCGAATTA
Found at i:71198871 original size:60 final size:60
Alignment explanation
Indices: 71198740--71198882 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 60
71198730 ACAACCATCA
* * * *
71198740 AATTATGAAAAGGGATAGCTTCGGCTATTGAATTATGAAAAGGGACAGCTTCGGCTATCG
1 AATTATAAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGAGACAGCTTCGGCTATCG
* ** ** *
71198800 AATTATGAAAAGGGATAGCTTCGACTATCGAATTATGAACCGAGTTAGCTTTGGCTATCG
1 AATTATAAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGAGACAGCTTCGGCTATCG
* * *
71198860 -ATTGGTAAAAAGGAATAACTTCG
1 AATT-ATAAAAAGGGATAGCTTCG
71198883 TGTGAGATTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
59 3 0.04
60 67 0.96
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (60 bp):
AATTATAAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGAGACAGCTTCGGCTATCG
Found at i:71202387 original size:46 final size:46
Alignment explanation
Indices: 71202337--71202509 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
71202327 TGGTTGAGCA
71202337 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
71202383 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71202428 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71202476 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71202510 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71202493 original size:93 final size:93
Alignment explanation
Indices: 71202334--71202504 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71202324 GGATGGTTGA
* *
71202334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71202399 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
71202427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71202492 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71202505 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:71209911 original size:46 final size:46
Alignment explanation
Indices: 71209861--71210035 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
71209851 TGGTTGAGCA
71209861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
71209907 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71209952 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71210000 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71210036 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.34
46 29 0.27
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71212459 original size:25 final size:25
Alignment explanation
Indices: 71212425--71212481 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
71212415 ATGTATTCTA
71212425 ACACGAGTTGTAAATCAGAATGCTC
1 ACACGAGTTGTAAATCAGAATGCTC
*
71212450 ACACGAGTTGTGAATCAGAATGCTC
1 ACACGAGTTGTAAATCAGAATGCTC
71212475 ACACGAG
1 ACACGAG
71212482 CTATGAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
ACACGAGTTGTAAATCAGAATGCTC
Found at i:71212488 original size:25 final size:25
Alignment explanation
Indices: 71212437--71212488 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
71212427 ACGAGTTGTA
* *
71212437 AATCAGAATGCTCACACGAGTTGTG
1 AATCAGAATGCTCACACGAGCTATG
71212462 AATCAGAATGCTCACACGAGCTATG
1 AATCAGAATGCTCACACGAGCTATG
71212487 AA
1 AA
71212489 AATGGGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
AATCAGAATGCTCACACGAGCTATG
Found at i:71221028 original size:46 final size:45
Alignment explanation
Indices: 71220922--71221088 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
71220912 AAGCTGACGC
* * * * *
71220922 CATGTCCCAGAC-TGGTCTTACACTAGCTTTTATATCTCGAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC---TCTCTCTCAATGCCGATG
* *
71220970 CATGTTCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGCCGATG
*
71221016 CATGTCCCAGACATGTCTTACACT-GACTCTC-AT-AATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTCTCTCTCAA--T-GCCGATG
*
71221062 CACGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
71221089 ACACATATCA
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 4 0.04
46 69 0.68
47 1 0.01
48 23 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGCCGATG
Found at i:71225496 original size:6 final size:6
Alignment explanation
Indices: 71225466--71225546 Score: 85
Period size: 6 Copynumber: 13.3 Consensus size: 6
71225456 AAGAAACCTT
* * * *
71225466 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
71225515 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
71225547 TAGGTGACAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
5 3 0.05
6 55 0.87
7 3 0.05
8 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:71225565 original size:31 final size:31
Alignment explanation
Indices: 71225526--71225602 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
71225516 TCAGAATCAG
* *
71225526 AATCAGAATCAGAATCAGAATTAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
* * * *
71225557 AATTAGAATAAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
71225588 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
71225603 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:71225565 original size:43 final size:43
Alignment explanation
Indices: 71225474--71225580 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
71225464 TTATCAGAAC
* * * * *
71225474 TAGAATCAAAATGAGAATTAGAATCAGAATCAGGTGATAGAAT
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
* *
71225517 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAAAAT
1 TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
* *
71225560 TAGAATAAGAATCAGTATCAG
1 TAGAATCAGAATCAGAATCAG
71225581 GTAACAGAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (43 bp):
TAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAAAAT
Found at i:71225595 original size:37 final size:37
Alignment explanation
Indices: 71225474--71225602 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 37
71225464 TTATCAGAAC
* * *
71225474 TAGAATCAAAATGAGAATTAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATAAGAATCAGAATCAGGTAA
* *
71225511 TAGAATCAGAATCAGAATCAGAATCAGAATCA-G-AA
1 TAGAATCAAAATCAGAATAAGAATCAGAATCAGGTAA
* * *
71225546 TTAG-GTGACAAAATTAGAATAAGAATCAGTATCAGGTAA
1 -TAGAAT--CAAAATCAGAATAAGAATCAGAATCAGGTAA
*
71225585 CAGAATCAAAATCAGAAT
1 TAGAATCAAAATCAGAAT
71225603 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 2 0.03
36 4 0.05
37 62 0.84
38 3 0.04
39 3 0.04
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.21
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATAAGAATCAGAATCAGGTAA
Found at i:71225759 original size:27 final size:26
Alignment explanation
Indices: 71225721--71225780 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
71225711 GCGAGCCTGC
*
71225721 CAGATATTATGGCGAAGTCACCAGATA
1 CAGATATTATGGCGAAGCCACCAGA-A
* *
71225748 CAGATATTATGGCTAGGCCACCAGAA
1 CAGATATTATGGCGAAGCCACCAGAA
71225774 CAGATAT
1 CAGATAT
71225781 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTATGGCGAAGCCACCAGAA
Found at i:71225867 original size:27 final size:26
Alignment explanation
Indices: 71225819--71225870 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71225809 GCGAGGCTGC
*
71225819 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
71225845 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
71225871 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:71226446 original size:27 final size:27
Alignment explanation
Indices: 71226107--71226435 Score: 417
Period size: 27 Copynumber: 12.2 Consensus size: 27
71226097 AACACCTTAG
* *
71226107 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
71226134 GGGTAAAACGGTAATTCTGTAAATCGC
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
71226161 GGGTAAAATAGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
71226188 GGGTAAAATGATAAATT-TATAAATCGA
1 GGGTAAAATGGT-AATTCTGTAAATCGA
*
71226215 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
71226242 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
71226269 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
71226296 GGGTAAAATAGTTATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * * *
71226323 GGGTAAAATGGTCATTTTGTAAATTGT
1 GGGTAAAATGGTAATTCTGTAAATCGA
** *
71226350 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * * *
71226377 GGGTAAAAAGATAATTCTATAAATCGT
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
71226404 GGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
71226431 GGGTA
1 GGGTA
71226436 CTTTGGTAAT
Statistics
Matches: 255, Mismatches: 45, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 247 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:71226457 original size:27 final size:27
Alignment explanation
Indices: 71226424--71226636 Score: 198
Period size: 27 Copynumber: 7.9 Consensus size: 27
71226414 GTAATTCTGT
*
71226424 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* **
71226451 AAGTCAAGGGTATTTCAGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
** * * *** *
71226478 AGGTCGATGGTATTTCAATAATTTCAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
71226505 AAATC-AGAGGTATTTTGGTAATTTTAC
1 AAATCAAG-GGTATTTTGGTAATTTTAC
*
71226532 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AAGGGTATTTTGGTAATTTTAC
* * * *
71226559 AAACCAGGGGTATTTTGGTGATTTTAT
1 AAATCAAGGGTATTTTGGTAATTTTAC
* *
71226586 AAACCAAGGGTATTTTAGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
*
71226613 AAA-CTAGGGGTATTTTGGTAATTT
1 AAATC-AAGGGTATTTTGGTAATTT
71226637 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 151 0.97
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATCAAGGGTATTTTGGTAATTTTAC
Found at i:71233909 original size:30 final size:30
Alignment explanation
Indices: 71233875--71233934 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71233865 ATTTAATACG
71233875 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71233905 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71233935 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71242679 original size:11 final size:11
Alignment explanation
Indices: 71242646--71242699 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
71242636 TATGGTATGT
71242646 ATGATATGCAC
1 ATGATATGCAC
*
71242657 ATGA-ATG--T
1 ATGATATGCAC
71242665 ATGATATGCAC
1 ATGATATGCAC
*
71242676 ATGATATG--T
1 ATGATATGCAC
71242685 ATGATATGCAC
1 ATGATATGCAC
71242696 ATGA
1 ATGA
71242700 GGTAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71242686 original size:20 final size:20
Alignment explanation
Indices: 71242641--71242699 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
71242631 ATAAATATGG
71242641 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
71242661 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
71242680 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
71242700 GGTAATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:71242777 original size:24 final size:24
Alignment explanation
Indices: 71242750--71242892 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
71242740 GAGGAAGTGA
71242750 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71242774 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71242798 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
71242821 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
71242845 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
71242869 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71242893 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:71242843 original size:47 final size:47
Alignment explanation
Indices: 71242750--71242892 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
71242740 GAGGAAGTGA
71242750 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
71242798 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
71242845 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
71242893 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:71242866 original size:71 final size:72
Alignment explanation
Indices: 71242750--71242893 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
71242740 GAGGAAGTGA
*
71242750 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
71242813 CCAGTTAT
65 CCAGTTAT
** * *
71242821 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
71242886 CAGTTAT
66 CAGTTAT
71242893 A
1 A
71242894 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:71243119 original size:31 final size:31
Alignment explanation
Indices: 71243084--71243147 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
71243074 CGTTTACAGT
71243084 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
71243115 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71243146 AA
1 AA
71243148 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71247623 original size:25 final size:25
Alignment explanation
Indices: 71247594--71247641 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71247584 TTATAATATG
* * *
71247594 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71247619 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71247642 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71247729 original size:20 final size:20
Alignment explanation
Indices: 71247684--71247742 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
71247674 ATAAATATGG
71247684 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
71247704 -ATGTATGCTATGCACATGA
1 TATGTATGATATGCACATGA
71247723 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
71247743 GGTAATCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:71247837 original size:23 final size:24
Alignment explanation
Indices: 71247793--71247933 Score: 200
Period size: 23 Copynumber: 6.0 Consensus size: 24
71247783 GAGGAAGTGA
71247793 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71247817 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71247840 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
71247863 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71247887 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
71247910 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71247934 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 64 0.59
24 37 0.34
25 8 0.07
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:71247862 original size:47 final size:47
Alignment explanation
Indices: 71247793--71247933 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
71247783 GAGGAAGTGA
71247793 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
71247840 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
71247887 GAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
71247934 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 24 0.28
47 52 0.60
48 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:71247906 original size:70 final size:71
Alignment explanation
Indices: 71247793--71247934 Score: 209
Period size: 70 Copynumber: 2.0 Consensus size: 71
71247783 GAGGAAGTGA
*
71247793 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAGTTATCAAAAG-GGCTTATGCC-C
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAGTTATCAAAAGAGGC-TAGGCCTC
71247856 CAGTTAT
65 CAGTTAT
** *
71247863 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAGTTATCAAAAGAGGCTAGGCCTC
71247927 CAGTTAT
65 CAGTTAT
71247934 A
1 A
71247935 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
69 2 0.03
70 51 0.78
71 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAGTTATCAAAAGAGGCTAGGCCTCC
AGTTAT
Found at i:71248160 original size:31 final size:31
Alignment explanation
Indices: 71248125--71248188 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
71248115 CGTTTACAGT
71248125 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
71248156 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71248187 AA
1 AA
71248189 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71249914 original size:46 final size:46
Alignment explanation
Indices: 71249862--71250036 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
71249852 TGTAACCCGC
* * *
71249862 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
71249908 CCATAAGTGAACTCGGACTCAGCTCAACGAGTTCGGATGCCTAGTTACATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCA-T
* * * *
71249959 TCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
71250001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
71250037 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 60 0.57
47 26 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:71250030 original size:93 final size:93
Alignment explanation
Indices: 71249871--71250040 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
71249861 CCCATAAGTG
* * * *
71249871 AACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAGCTCAAC
1 AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
71249936 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* *
71249964 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
71250029 GAGTTCGGATGC
66 GAGTTCGGATGC
71250041 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:71250494 original size:30 final size:30
Alignment explanation
Indices: 71250460--71250519 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71250450 ATTTAATACG
*
71250460 AACTTTGGAAAAATTATACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71250490 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71250520 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71252852 original size:24 final size:24
Alignment explanation
Indices: 71252822--71253064 Score: 441
Period size: 24 Copynumber: 10.1 Consensus size: 24
71252812 GAATGTGACT
* *
71252822 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
71252846 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71252870 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71252894 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71252918 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71252942 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71252966 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71252990 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71253014 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71253038 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71253062 ATA
1 ATA
71253065 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:71260859 original size:24 final size:24
Alignment explanation
Indices: 71260829--71261071 Score: 441
Period size: 24 Copynumber: 10.1 Consensus size: 24
71260819 GAATGTGACT
* *
71260829 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
71260853 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71260877 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71260901 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71260925 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71260949 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71260973 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
71260997 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71261021 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71261045 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
71261069 ATA
1 ATA
71261072 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:71265968 original size:46 final size:46
Alignment explanation
Indices: 71265901--71266075 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
71265891 TGTAACCCGC
* *
71265901 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
71265947 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * *
71265997 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
71266040 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
71266076 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:71266016 original size:93 final size:93
Alignment explanation
Indices: 71265908--71266079 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
71265898 CGCCCATAAG
* * *
71265908 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71265973 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
71266001 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71266066 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71266080 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:71267581 original size:46 final size:45
Alignment explanation
Indices: 71267531--71267638 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 45
71267521 TGCATGTTGT
71267531 AGACATGTCTTACACTAGCTCTTGTC-TCAA-T-GCCAATGCATGTCCC
1 AGACATGTCTTACACTAGCTC---TCAT-AAGTGGCCAATGCATGTCCC
* * *
71267577 AGACATTTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCT
1 AGACATGTCTTACACTAGCTCTCATAA-GTGGCCAATGCATGTCCC
71267623 AGACATGTCTTACACT
1 AGACATGTCTTACACT
71267639 TGCACACATA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
43 4 0.07
44 1 0.02
45 1 0.02
46 48 0.89
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
AGACATGTCTTACACTAGCTCTCATAAGTGGCCAATGCATGTCCC
Found at i:71275910 original size:20 final size:20
Alignment explanation
Indices: 71275885--71275924 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
71275875 GAGGGGAGAG
*
71275885 TTGTAACATCCCAATTTAGA
1 TTGTAACATCCCAAATTAGA
*
71275905 TTGTAACATCTCAAATTAGA
1 TTGTAACATCCCAAATTAGA
71275925 GCCAAGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (20 bp):
TTGTAACATCCCAAATTAGA
Found at i:71281456 original size:27 final size:27
Alignment explanation
Indices: 71281426--71281477 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
71281416 ATAAACATGA
71281426 ATTATACTTGACTTATCATTTAATCGT
1 ATTATACTTGACTTATCATTTAATCGT
*
71281453 ATTATTCTTGACTTATCATTTAATC
1 ATTATACTTGACTTATCATTTAATC
71281478 ATACTATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (27 bp):
ATTATACTTGACTTATCATTTAATCGT
Found at i:71298198 original size:2 final size:2
Alignment explanation
Indices: 71298193--71298220 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71298183 CGCATCATTC
71298193 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
71298221 TACCTTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71298642 original size:2 final size:2
Alignment explanation
Indices: 71298637--71298669 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
71298627 ATATACCTAG
71298637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71298670 AACAATAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71304018 original size:25 final size:25
Alignment explanation
Indices: 71303989--71304036 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71303979 TTATAACATG
* * *
71303989 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71304014 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71304037 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71304120 original size:11 final size:11
Alignment explanation
Indices: 71304084--71304139 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
71304074 CATGGTATGT
71304084 ATGATATGCAC
1 ATGATATGCAC
* *
71304095 ATGACATG--T
1 ATGATATGCAC
71304104 ATGATATGCAC
1 ATGATATGCAC
*
71304115 ATGATATG--T
1 ATGATATGCAC
71304124 ATGATATGCAC
1 ATGATATGCAC
71304135 ATGAT
1 ATGAT
71304140 GTAATAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71304139 original size:20 final size:20
Alignment explanation
Indices: 71304073--71304139 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
71304063 ATTTTGATAA
*
71304073 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71304093 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71304113 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71304133 ACATGAT
1 ACATGAT
71304140 GTAATAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71304286 original size:24 final size:23
Alignment explanation
Indices: 71304192--71304284 Score: 170
Period size: 23 Copynumber: 4.0 Consensus size: 23
71304182 GAAGTGTAGC
71304192 AGGGCTTATGCCCCAGTTATTAA
1 AGGGCTTATGCCCCAGTTATTAA
71304215 AGGGCTTATG-CCCAGTTATTAA
1 AGGGCTTATGCCCCAGTTATTAA
71304237 AGGGCTTATGCCCCAGTTATTAAA
1 AGGGCTTATGCCCCAGTTATT-AA
71304261 AGGGCTTATGCCCCAGTTATTAA
1 AGGGCTTATGCCCCAGTTATTAA
71304284 A
1 A
71304285 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.32
23 23 0.34
24 23 0.34
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (23 bp):
AGGGCTTATGCCCCAGTTATTAA
Found at i:71304301 original size:25 final size:24
Alignment explanation
Indices: 71304192--71304305 Score: 173
Period size: 24 Copynumber: 4.8 Consensus size: 24
71304182 GAAGTGTAGC
71304192 AGGGCTTATGCCCCAGTTATT-AA
1 AGGGCTTATGCCCCAGTTATTAAA
71304215 AGGGCTTATG-CCCAGTTATT-AA
1 AGGGCTTATGCCCCAGTTATTAAA
71304237 AGGGCTTATGCCCCAGTTATTAAA
1 AGGGCTTATGCCCCAGTTATTAAA
71304261 AGGGCTTATGCCCCAGTTATTAAA
1 AGGGCTTATGCCCCAGTTATTAAA
*
71304285 AGAGGC-TAGGCCTCCAGTTAT
1 AG-GGCTTATGCC-CCAGTTAT
71304306 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 1, Indels: 6
0.92 0.01 0.06
Matches are distributed among these distances:
22 22 0.26
23 20 0.23
24 33 0.38
25 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
AGGGCTTATGCCCCAGTTATTAAA
Found at i:71304536 original size:31 final size:31
Alignment explanation
Indices: 71304498--71304561 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
71304488 CGTTTACAGT
71304498 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
71304529 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71304560 AA
1 AA
71304562 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71311979 original size:25 final size:25
Alignment explanation
Indices: 71311932--71311979 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
71311922 TTATAACATG
* * *
71311932 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
71311957 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
71311980 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71312063 original size:11 final size:11
Alignment explanation
Indices: 71312027--71312082 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
71312017 CATGGTATGT
71312027 ATGATATGCAC
1 ATGATATGCAC
* *
71312038 ATGACATG--T
1 ATGATATGCAC
71312047 ATGATATGCAC
1 ATGATATGCAC
*
71312058 ATGATATG--T
1 ATGATATGCAC
71312067 ATGATATGCAC
1 ATGATATGCAC
71312078 ATGAT
1 ATGAT
71312083 GTAATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71312082 original size:20 final size:20
Alignment explanation
Indices: 71312016--71312082 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
71312006 ATTTTGATAA
*
71312016 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71312036 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71312056 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71312076 ACATGAT
1 ACATGAT
71312083 GTAATCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71312198 original size:22 final size:23
Alignment explanation
Indices: 71312132--71312248 Score: 166
Period size: 23 Copynumber: 5.1 Consensus size: 23
71312122 GGGAAGTGTA
*
71312132 AAAGGCCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71312155 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
71312178 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
71312200 AAAGGGCTTTTG-CCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71312222 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
71312246 AAA
1 AAA
71312249 AGAGGCTAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
22 29 0.34
23 48 0.56
24 9 0.10
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71312203 original size:45 final size:46
Alignment explanation
Indices: 71312130--71312248 Score: 170
Period size: 45 Copynumber: 2.6 Consensus size: 46
71312120 TGGGGAAGTG
*
71312130 TAAAAGGCCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAATTAT
* * *
71312177 T-AAAGGGCTTATG-CCCAGTTATTAAAGGGCTTTTGCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAATTAT
*
71312221 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 TAAAAGGGCTTATGCCCCAGTTATTAAA
71312249 AGAGGCTAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
44 8 0.12
45 32 0.49
46 24 0.37
47 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (46 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAATTAT
Found at i:71312265 original size:25 final size:24
Alignment explanation
Indices: 71312130--71312269 Score: 130
Period size: 23 Copynumber: 6.0 Consensus size: 24
71312120 TGGGGAAGTG
* *
71312130 TAAAAGGCCTTATGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
* *
71312154 T-AAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
*
71312177 T-AAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
** *
71312199 T-AAAGGGCTTTTG-CCTAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
**
71312221 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTAGGCCCCAGTTAT
71312245 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTAGGCC-CCAGTTAT
71312270 ATGATAAAGC
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
22 29 0.28
23 45 0.43
24 19 0.18
25 11 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTAGGCCCCAGTTAT
Found at i:71312498 original size:30 final size:31
Alignment explanation
Indices: 71312462--71312524 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
71312452 CGTTTACAGT
*
71312462 AAAGGCTTCG-GCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
71312492 AAAGGCTTCGACCCGGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
71312523 AA
1 AA
71312525 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:71314145 original size:50 final size:50
Alignment explanation
Indices: 71314023--71314211 Score: 238
Period size: 50 Copynumber: 3.8 Consensus size: 50
71314013 AGCCGAAGCT
* * * * *
71314023 ATCTGATACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * *
71314072 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* *
71314122 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
* *
71314171 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACG
71314212 TGTACTCACA
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.33
50 80 0.67
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:71314220 original size:100 final size:99
Alignment explanation
Indices: 71314023--71314213 Score: 310
Period size: 100 Copynumber: 1.9 Consensus size: 99
71314013 AGCCGAAGCT
* * *
71314023 ATCTGATACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGT
71314088 AGCCTGCACTTAGTACTACACACGTGACCTCACC
66 AGCCTGCACTTAGTACTACACACGTGACCTCACC
* * * *
71314122 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTAG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAG
71314187 TAGCCTGCACTTAGTACTACACACGTG
65 TAGCCTGCACTTAGTACTACACACGTG
71314214 TACTCACAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 41 0.49
100 43 0.51
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTCACC
Found at i:71321538 original size:50 final size:49
Alignment explanation
Indices: 71321429--71321604 Score: 219
Period size: 50 Copynumber: 3.5 Consensus size: 49
71321419 CTGATATGCA
* * * *
71321429 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
* *
71321478 TAGTAGCCTGCATTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGATACACG
* * * *
71321528 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCTGA-TACACG
71321579 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
71321605 TGCAACTTAG
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 30 0.27
50 47 0.42
51 34 0.31
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
Found at i:71327385 original size:32 final size:32
Alignment explanation
Indices: 71327339--71327402 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
71327329 TCAATCATAC
*
71327339 TTAGTTTCTTAATCATTTAAAGAAATTAATAT
1 TTAGTTTCTCAATCATTTAAAGAAATTAATAT
71327371 TTAGTTTCTCAATCATTTAAAGAAATTAATAT
1 TTAGTTTCTCAATCATTTAAAGAAATTAATAT
71327403 ATTCATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (32 bp):
TTAGTTTCTCAATCATTTAAAGAAATTAATAT
Found at i:71334536 original size:46 final size:48
Alignment explanation
Indices: 71334428--71334551 Score: 135
Period size: 52 Copynumber: 2.5 Consensus size: 48
71334418 TGTCTTCGAC
** * *
71334428 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATACCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATA-CTAAT
* *
71334480 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATAT-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATACTAAT
*
71334526 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
71334552 CTGTCAACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 28 0.44
48 6 0.09
52 30 0.47
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATACTAAT
Found at i:71339943 original size:101 final size:101
Alignment explanation
Indices: 71339763--71339948 Score: 232
Period size: 101 Copynumber: 1.8 Consensus size: 101
71339753 AGCGTGGCCG
* * ** *
71339763 TGTGGGTCACACGGGCAAGGCCAATTTGGGCGTGTGGGCCACACGGGCATGTAGGCCCACACTAG
1 TGTGGGCCACAAGGGCAAGGCCAATTAAGGCGTGTGGGCCACACGAGCATGTAGGCCCACACTAG
* * *
71339828 CATGTCACATGGGCATGTGGATTCTGAGCCAGGCTA
66 CAAGCCACACGGGCATGTGGATTCTGAGCCAGGCTA
* ** *
71339864 TGTGGGCCACAAGGGCAAGGCCAATCTAAGTC-TGTGGGCCACACGAGTGTGTGGGCCCACAC-A
1 TGTGGGCCACAAGGGCAAGGCCAAT-TAAGGCGTGTGGGCCACACGAGCATGTAGGCCCACACTA
71339927 GGCAAGCCACACGGGCATGTGG
65 -GCAAGCCACACGGGCATGTGG
71339949 GACCATAATA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
100 1 0.01
101 67 0.94
102 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.35, T:0.17
Consensus pattern (101 bp):
TGTGGGCCACAAGGGCAAGGCCAATTAAGGCGTGTGGGCCACACGAGCATGTAGGCCCACACTAG
CAAGCCACACGGGCATGTGGATTCTGAGCCAGGCTA
Found at i:71341896 original size:40 final size:40
Alignment explanation
Indices: 71341817--71342017 Score: 275
Period size: 40 Copynumber: 5.0 Consensus size: 40
71341807 TCGGATTTAA
* *
71341817 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
71341856 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71341896 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71341936 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71341976 CCGGA-ACTAGTCACTAGCGA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGC-ACAAATGCCTTCGGGACTTAGC
71342016 CC
1 CC
71342018 AGTTATCATC
Statistics
Matches: 147, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 17 0.12
40 128 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71349927 original size:308 final size:307
Alignment explanation
Indices: 71349370--71349970 Score: 1145
Period size: 308 Copynumber: 2.0 Consensus size: 307
71349360 AACTTAAATA
71349370 TCTCATAATATACTGTTCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
1 TCTCATAATATACTGTTCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
71349435 CGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTTCACATTCAC
66 CGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTTCACATTCAC
71349500 GATCACTCTATCAGCATCTATTTTTAAGGTAGACTTTACCTATTACATAGTTTCCATGATTCAAC
131 GATCACTCTATCAGCATCTATTTTTAAGGTAGACTTTACCTATTACATAGTTTCCATGATTCAAC
71349565 TAGCCCTTTAGCATATATAGCACAAAATATGATCATGATTAACCATTCCAATGGCTAATCGTTCC
196 TAGCCCTTTAGCATATATAGCACAAAATATGATCATGATTAACCATTCCAATGGCTAATCGTTCC
71349630 CAAACATTTCCATACCTCTTAACGAACATCATACAGAAACCGTTCTG
261 CAAACATTTCCATACCTCTTAACGAACATCATACAGAAACCGTTCTG
71349677 TCTCATAATATACTGTTCATATGATCGTTTCGTTACTTTCCTATG-AAA-AGATTCATCAAGGTT
1 TCTCATAATATACTGTTCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
71349740 CGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTTCACATTCAC
66 CGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTTCACATTCAC
71349805 G-TCACTGCTACTATCAGCATCTATTTTTAAGGTAGACTTTACCTATTACATAGTTTCCATGATT
131 GATCA---CT-CTATCAGCATCTATTTTTAAGGTAGACTTTACCTATTACATAGTTTCCATGATT
71349869 CAACTAGCCCTTTAGCATATATAGCACAAAATATGATCATGATTAACCATTCCAATGGCTAATCG
192 CAACTAGCCCTTTAGCATATATAGCACAAAATATGATCATGATTAACCATTCCAATGGCTAATCG
71349934 TTCCCAAACATTTCCATACCTCTTAACGAACATCATA
257 TTCCCAAACATTTCCATACCTCTTAACGAACATCATA
71349971 AAGACGATTA
Statistics
Matches: 290, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
304 3 0.01
305 81 0.28
306 3 0.01
307 47 0.16
308 156 0.54
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (307 bp):
TCTCATAATATACTGTTCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTT
CGATTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTTCACATTCAC
GATCACTCTATCAGCATCTATTTTTAAGGTAGACTTTACCTATTACATAGTTTCCATGATTCAAC
TAGCCCTTTAGCATATATAGCACAAAATATGATCATGATTAACCATTCCAATGGCTAATCGTTCC
CAAACATTTCCATACCTCTTAACGAACATCATACAGAAACCGTTCTG
Found at i:71350619 original size:40 final size:40
Alignment explanation
Indices: 71350526--71350743 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
71350516 AAGCCAAGTA
* * *
71350526 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
71350564 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71350604 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71350644 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
71350684 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
71350725 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71350744 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71358728 original size:40 final size:40
Alignment explanation
Indices: 71358635--71358931 Score: 340
Period size: 40 Copynumber: 7.5 Consensus size: 40
71358625 AATCCAACTA
* * *
71358635 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
71358673 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
71358713 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71358753 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71358793 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-C-AAATG
* * *
71358834 CCTT-GGGACTTAGCCCGGATGTAATAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71358873 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-C-AAATG
71358914 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
71358932 ATTATCATCC
Statistics
Matches: 225, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
38 12 0.05
39 28 0.12
40 152 0.68
41 33 0.15
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71358768 original size:80 final size:81
Alignment explanation
Indices: 71358669--71358931 Score: 410
Period size: 80 Copynumber: 3.3 Consensus size: 81
71358659 CTACTCGCTC
* * * *
71358669 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
*
71358734 A-TAGT-AGCT--CGCACA
65 ACTAGTCA-CTAGAGCA-A
71358749 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
71358814 CTAGTCACTAGAGCAA
66 CTAGTCACTAGAGCAA
*
71358830 AATGCCTT-GGGACTTAGCCCGGATGTAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
71358894 CTAGTCACTAGAGCAA
66 CTAGTCACTAGAGCAA
71358910 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
71358932 ATTATCATCC
Statistics
Matches: 172, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
79 1 0.01
80 145 0.84
81 23 0.13
82 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
CTAGTCACTAGAGCAA
Found at i:71363461 original size:23 final size:24
Alignment explanation
Indices: 71363421--71363465 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
71363411 GAAGCTTCCT
*
71363421 GATAAGGTTTTTTGTAAACTTCTC
1 GATAAGGTTCTTTGTAAACTTCTC
71363445 GATAA-GTTCTTTGTAAACTTC
1 GATAAGGTTCTTTGTAAACTTC
71363466 CCAATTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (24 bp):
GATAAGGTTCTTTGTAAACTTCTC
Found at i:71367268 original size:12 final size:11
Alignment explanation
Indices: 71367246--71367300 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
71367236 TCGATCATTG
71367246 ACTTTTA-TTT
1 ACTTTTATTTT
*
71367256 AGTTTTATATTT
1 ACTTTTAT-TTT
*
71367268 AATTTT-TTTT
1 ACTTTTATTTT
71367278 ACTTTTACTTTT
1 ACTTTTA-TTTT
71367290 ACTTTTATTTT
1 ACTTTTATTTT
71367301 TATTGTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 14 0.37
11 5 0.13
12 19 0.50
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (11 bp):
ACTTTTATTTT
Found at i:71367295 original size:22 final size:22
Alignment explanation
Indices: 71367246--71367300 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
71367236 TCGATCATTG
* *
71367246 ACTTTTATTTAGTTTTATATTT
1 ACTTTTTTTTACTTTTATATTT
*
71367268 AATTTTTTTTACTTTTACT-TTT
1 ACTTTTTTTTACTTTTA-TATTT
71367290 ACTTTTATTTT
1 ACTTTT-TTTT
71367301 TATTGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (22 bp):
ACTTTTTTTTACTTTTATATTT
Found at i:71367301 original size:12 final size:12
Alignment explanation
Indices: 71367273--71367311 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
71367263 TATTTAATTT
71367273 TTTTTACTTTTA
1 TTTTTACTTTTA
*
71367285 CTTTTACTTTTA
1 TTTTTACTTTTA
71367297 TTTTTA-TTGTTA
1 TTTTTACTT-TTA
71367309 TTT
1 TTT
71367312 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTACTTTTA
Found at i:71369456 original size:32 final size:32
Alignment explanation
Indices: 71369420--71369483 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
71369410 TTACACAATA
71369420 AATATTTAGTTTTTTGTTCTCAATTATGTGTG
1 AATATTTAGTTTTTTGTTCTCAATTATGTGTG
*
71369452 AATATTTGGTTTTTTGTTCTCAATTATGTGTG
1 AATATTTAGTTTTTTGTTCTCAATTATGTGTG
71369484 TTTAATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.06, G:0.17, T:0.56
Consensus pattern (32 bp):
AATATTTAGTTTTTTGTTCTCAATTATGTGTG
Found at i:71371985 original size:73 final size:73
Alignment explanation
Indices: 71371865--71372254 Score: 344
Period size: 73 Copynumber: 5.3 Consensus size: 73
71371855 CATCCTTTAG
* *
71371865 TAGTCTGCTGGGACAGTAAACACGAGGTTGTATTGTGTAAGACCATAGCTAAAATATGCTACGAC
1 TAGTCTGCTGGGACAGTAAACACGAGGTTATATTGTGTAAGACCATAGCTAAAAGATGCTACGAC
71371930 ATCATAGA
66 ATCATAGA
* * * * * * * *
71371938 TAGTCTGCTGGGACAATAAACAAG-GGATTATATTATGTAAGATCATAGCCAAAAGATGTTATGG
1 TAGTCTGCTGGGACAGTAAACACGAGG-TTATATTGTGTAAGACCATAGCTAAAAGATGCTACGA
*
71372002 CATCATAAA
65 CATCATAGA
* * * * *
71372011 TAGTCT-ATCGGGATAGTAAACACGAGGTTATATTGTGTAAGACCATAGTTGAAAGA--CAACAT
1 TAGTCTGCT-GGGACAGTAAACACGAGGTTATATTGTGTAAGACCATAGCTAAAAGATGCTAC--
*
71372073 AACATCATAGA
63 GACATCATAGA
* * *
71372084 TAGTTTGTCAT--GACAGTAAACACGAGGTTATATTGTGTAAGATCATAGCTAAAAGACGCTACG
1 TAGTCTG-C-TGGGACAGTAAACACGAGGTTATATTGTGTAAGACCATAGCTAAAAGATGCTACG
*
71372147 ACATCATAGG
64 ACATCATAGA
** ** * * * * * **
71372157 TAGTCCACTGGGTTAGCAAACATGGGGTTATATTGTGTAAAACCATAGCTGGAAAGACCCTACGA
1 TAGTCTGCTGGGACAGTAAACACGAGGTTATATTGTGTAAGACCATAGCT-AAAAGATGCTACGA
*
71372222 CATTATAGA
65 CATCATAGA
* *
71372231 TAATCTG-TCGGGATAGTAAACACG
1 TAGTCTGCT-GGGACAGTAAACACG
71372255 GTAACTTTGA
Statistics
Matches: 248, Mismatches: 55, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
71 2 0.01
72 4 0.02
73 201 0.81
74 37 0.15
75 3 0.01
76 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (73 bp):
TAGTCTGCTGGGACAGTAAACACGAGGTTATATTGTGTAAGACCATAGCTAAAAGATGCTACGAC
ATCATAGA
Found at i:71372741 original size:42 final size:42
Alignment explanation
Indices: 71372682--71372784 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
71372672 CCGAGACTAT
* * *
71372682 GTGTAAGACCACATCTGGGATATGGCATCA-TTATGAGATTTC
1 GTGTAAGAACATATCTGGGATATGGCAT-AGATATGAGATTTC
71372724 GTGTAAGAACATATCTGGGATATGGCATAGATATGAGATTTC
1 GTGTAAGAACATATCTGGGATATGGCATAGATATGAGATTTC
*
71372766 GTGTAA-AACCATAACTGGG
1 GTGTAAGAA-CATATCTGGG
71372785 CTATTAGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
41 3 0.05
42 52 0.95
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGAACATATCTGGGATATGGCATAGATATGAGATTTC
Found at i:71377177 original size:46 final size:46
Alignment explanation
Indices: 71377127--71377295 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
71377117 TGAGCATCCA
*
71377127 AACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * * *
71377173 AACTCGTTGAGTTGAATCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
71377220 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
71377266 AGCTCGTTGAGTTGAGCCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
71377296 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 51 0.53
47 27 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:71377279 original size:93 final size:93
Alignment explanation
Indices: 71377120--71377290 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
71377110 GGATGGTTGA
* *
71377120 GCATCCAAACTCGTTGAGTTGAGTCCGAGCTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
71377185 TGAATCCGAGTTCGTGAAATGTAACTAG
66 TGAACCCGAGTTCGTGAAATGTAACTAG
* * *
71377213 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
71377277 TTGAGCCCGAGTTC
65 TTGAACCCGAGTTC
71377291 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAACCCGAGTTCGTGAAATGTAACTAG
Found at i:71384190 original size:40 final size:39
Alignment explanation
Indices: 71384022--71384192 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
71384012 AGAAATTGAA
* *
71384022 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
71384062 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
71384102 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
71384142 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
71384182 TGATATCCGGG
1 TGATATCCGGG
71384193 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:71389472 original size:40 final size:39
Alignment explanation
Indices: 71389415--71389599 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
71389405 ATTAAATGAT
* * *
71389415 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
71389455 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
71389495 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
71389535 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
71389575 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
71389600 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:71389551 original size:80 final size:80
Alignment explanation
Indices: 71389414--71389620 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
71389404 AATTAAATGA
* * ** * *
71389414 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
71389479 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
71389492 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
71389557 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
71389574 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
71389621 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:71389605 original size:40 final size:39
Alignment explanation
Indices: 71389413--71389620 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
71389403 CAATTAAATG
* * ** *
71389413 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
71389453 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
71389493 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
71389533 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
71389573 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
71389613 ATATCCGG
1 ATATCCGG
71389621 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:71391265 original size:29 final size:29
Alignment explanation
Indices: 71391199--71391265 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
71391189 GCATGAATAT
* * * *
71391199 AATATGATTTGGGCCTAATGGGCCTTATG
1 AATATGAATTGGGCCTAATGGACCATAAG
*
71391228 AATGA-GAATTGGGCCTAGTGGACCATAAG
1 AAT-ATGAATTGGGCCTAATGGACCATAAG
71391257 AATATGAAT
1 AATATGAAT
71391266 AAGGCCATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 29 0.94
30 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGACCATAAG
Found at i:71394296 original size:29 final size:28
Alignment explanation
Indices: 71394236--71394318 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
71394226 ACATACCTAT
*
71394236 ATATGGCCCATTAGGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATC-CATTC
71394264 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATC-CATTC
*
71394293 ATATGG-CCACTAGGCCCAAATCCATT
1 ATATGGCCCATTAGGCCCAAATCCATT
71394319 TTACAATCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 4 0.08
28 33 0.65
29 14 0.27
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCCATTC
Found at i:71394799 original size:24 final size:24
Alignment explanation
Indices: 71394772--71394820 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
71394762 AACCACGATC
*
71394772 AACTACTAGATCTACACCAATCTT
1 AACTACTAGATCTACACCAACCTT
*
71394796 AACTACTAGATCTGCACCAACCTT
1 AACTACTAGATCTACACCAACCTT
71394820 A
1 A
71394821 CCTTAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.27
Consensus pattern (24 bp):
AACTACTAGATCTACACCAACCTT
Found at i:71397179 original size:42 final size:42
Alignment explanation
Indices: 71397120--71397274 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
71397110 CCGAGACTAT
71397120 GTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTC
*
71397162 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTC
* * * * * **
71397204 TTGTAAGACCATAGCTGGGCTATTGGCAT-TTATATAAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCAT-TATGAGATTTC
* *
71397247 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
71397275 TGGTGTAGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTC
Found at i:71405893 original size:48 final size:48
Alignment explanation
Indices: 71405825--71405925 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
71405815 TAGCTGGGCT
* * *
71405825 ATTGGCATCGATCTACGATCCCATGTAAGACCATGTCTGGGATATGAC
1 ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGATATGAC
** *
71405873 ATTGGCATCGATATGTGATCCCATGTAAGACCATATCCGGGATATGGC
1 ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGATATGAC
71405921 ATTGG
1 ATTGG
71405926 AATCCTACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGATATGAC
Found at i:71409725 original size:25 final size:25
Alignment explanation
Indices: 71409703--71409815 Score: 84
Period size: 25 Copynumber: 4.6 Consensus size: 25
71409693 ATTTTTTGGG
* *
71409703 AAACCTTTGTGGTGAATTCTTTGGG
1 AAACCTTTGTGGTGAATTCTTTAGA
* * * * *
71409728 AAGCTTTTGTGGCGAAATATTTAGA
1 AAACCTTTGTGGTGAATTCTTTAGA
* * *
71409753 AAACCTCTATGGTCAATTCTTTAGA
1 AAACCTTTGTGGTGAATTCTTTAGA
* * *
71409778 AAACCTTTCT-GTTAATTCTCTAGA
1 AAACCTTTGTGGTGAATTCTTTAGA
* *
71409802 AAGCCTTTATGGTG
1 AAACCTTTGTGGTG
71409816 TATCATTTGA
Statistics
Matches: 65, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
24 20 0.31
25 45 0.69
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (25 bp):
AAACCTTTGTGGTGAATTCTTTAGA
Found at i:71409801 original size:24 final size:25
Alignment explanation
Indices: 71409749--71409814 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
71409739 GCGAAATATT
* *
71409749 TAGAAAACCTCTATGGTCAATTCTT
1 TAGAAAACCTTTATGGTCAATTCTC
* *
71409774 TAGAAAACCTTTCT-GTTAATTCTC
1 TAGAAAACCTTTATGGTCAATTCTC
*
71409798 TAGAAAGCCTTTATGGT
1 TAGAAAACCTTTATGGT
71409815 GTATCATTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 20 0.59
25 14 0.41
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (25 bp):
TAGAAAACCTTTATGGTCAATTCTC
Found at i:71411606 original size:47 final size:47
Alignment explanation
Indices: 71411488--71411660 Score: 191
Period size: 45 Copynumber: 3.7 Consensus size: 47
71411478 GGATGGTTGA
*
71411488 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
71411536 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
71411579 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
71411628 -C-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
71411661 TAGGGCGGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 33 0.31
46 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:71418992 original size:46 final size:46
Alignment explanation
Indices: 71418942--71419114 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
71418932 TGGTTGAGCA
71418942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71418988 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71419033 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71419081 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71419115 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71419098 original size:93 final size:93
Alignment explanation
Indices: 71418939--71419109 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71418929 GGATGGTTGA
* *
71418939 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71419004 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71419032 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71419097 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71419110 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71420518 original size:19 final size:19
Alignment explanation
Indices: 71420494--71420532 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
71420484 AAAGAGATTG
*
71420494 ACATAGATCTCTGTGTATT
1 ACATAGATCTCTATGTATT
71420513 ACATAGATCTCTATGTATT
1 ACATAGATCTCTATGTATT
71420532 A
1 A
71420533 TGTAAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (19 bp):
ACATAGATCTCTATGTATT
Found at i:71420568 original size:13 final size:13
Alignment explanation
Indices: 71420529--71420576 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
71420519 ATCTCTATGT
*
71420529 ATTATGTAAGACA
1 ATTAAGTAAGACA
71420542 ATTAAGTATAAGACA
1 ATTAAG--TAAGACA
71420557 ATTAAGTAAGACA
1 ATTAAGTAAGACA
71420570 ATTAAGT
1 ATTAAGT
71420577 CGAAAGAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 19 0.59
15 13 0.41
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (13 bp):
ATTAAGTAAGACA
Found at i:71423926 original size:41 final size:42
Alignment explanation
Indices: 71423859--71423946 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 42
71423849 GCACAGCCTA
* *
71423859 GCACACGGGCATGGGGGGTTATTTCGAAGGGTACATGACCTG
1 GCACACGAGCATGGGGGGTTATTTCGAAGGGTACACGACCTG
* *
71423901 GCACACGAGCAT-GTGGGTTATTTCGAAGGGTACACGGCCTG
1 GCACACGAGCATGGGGGGTTATTTCGAAGGGTACACGACCTG
71423942 GCACA
1 GCACA
71423947 TGGTCGTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 31 0.74
42 11 0.26
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (42 bp):
GCACACGAGCATGGGGGGTTATTTCGAAGGGTACACGACCTG
Found at i:71434341 original size:29 final size:29
Alignment explanation
Indices: 71434308--71434367 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
71434298 ATAAATCTCA
71434308 TAGTTATAATTTTACTCAATCACGATGTT
1 TAGTTATAATTTTACTCAATCACGATGTT
71434337 TAGTTATAATTTTACTCAATCACGATGTT
1 TAGTTATAATTTTACTCAATCACGATGTT
71434366 TA
1 TA
71434368 CTCTATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (29 bp):
TAGTTATAATTTTACTCAATCACGATGTT
Found at i:71434369 original size:17 final size:17
Alignment explanation
Indices: 71434318--71434370 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
71434308 TAGTTATAAT
71434318 TTTACTCAATCACGATG
1 TTTACTCAATCACGATG
* *
71434335 TTTAGT-TAT-A--AT-
1 TTTACTCAATCACGATG
71434347 TTTACTCAATCACGATG
1 TTTACTCAATCACGATG
71434364 TTTACTC
1 TTTACTC
71434371 TATTAACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 1 0.04
15 1 0.04
16 4 0.15
17 12 0.44
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (17 bp):
TTTACTCAATCACGATG
Found at i:71436211 original size:44 final size:42
Alignment explanation
Indices: 71436145--71436304 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 42
71436135 ATATGTGATA
* *
71436145 TCGTGTAAGACCATGTTAGGGACGTTGGCATC-AATTTGGTATT
1 TCGTGTAAGACCACGTTAGGGACATTGGCATCGAATTTGG--TT
*
71436188 TACGTGTAAGACCACGTCT-GGGACATTGGCATCGTATTTGGTT
1 T-CGTGTAAGACCACGT-TAGGGACATTGGCATCGAATTTGGTT
* * * *
71436231 TCGTGTAAGACC-CTGTCTA-GGATAGTGGCGTCGATATTTGATT
1 TCGTGTAAGACCAC-GT-TAGGGACATTGGCATCGA-ATTTGGTT
* * *
71436274 ACATGTAAGTCCACGTCT-GGGACATTGGCAT
1 TCGTGTAAGACCACGT-TAGGGACATTGGCAT
71436305 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 33 0.35
44 28 0.29
45 7 0.07
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACGTTAGGGACATTGGCATCGAATTTGGTT
Found at i:71439350 original size:51 final size:51
Alignment explanation
Indices: 71439274--71439376 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
71439264 CATTCTTATA
71439274 TATGCATGAATTTAGAGAATAGTAAGACTTTGCCTGTAGAGTCTACTGAAT
1 TATGCATGAATTTAGAGAATAGTAAGACTTTGCCTGTAGAGTCTACTGAAT
*
71439325 TATGCATGAATTTAGAGAATAGTAAGACTTTTCCTGTAGAGTCTACTGAAT
1 TATGCATGAATTTAGAGAATAGTAAGACTTTGCCTGTAGAGTCTACTGAAT
71439376 T
1 T
71439377 CGTAATTAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (51 bp):
TATGCATGAATTTAGAGAATAGTAAGACTTTGCCTGTAGAGTCTACTGAAT
Found at i:71443682 original size:93 final size:93
Alignment explanation
Indices: 71443577--71443747 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71443567 GCCCCTAAGT
* * *
71443577 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGCCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71443642 CGAGTTAGGATGCCTAGTTACATTTCAC
66 CGAGTTAGGATGCCTAGTTACATTTCAC
* *
71443670 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71443735 CGAGTTCGGATGC
66 CGAGTTAGGATGC
71443748 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTAGGATGCCTAGTTACATTTCAC
Found at i:71443744 original size:46 final size:46
Alignment explanation
Indices: 71443572--71443744 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
71443562 AACCCGCCCC
* * * *
71443572 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
71443618 TAAGTGAACTCGGCCTCAACTCAACGAGTTAGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
71443666 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
71443711 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71443745 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 59 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:71447338 original size:24 final size:24
Alignment explanation
Indices: 71447306--71447417 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
71447296 GGCTATCTCA
*
71447306 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
71447330 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
71447354 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
71447378 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
71447403 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
71447418 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:71455118 original size:24 final size:24
Alignment explanation
Indices: 71455086--71455197 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 24
71455076 GGCTATCTCA
*
71455086 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
71455110 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
71455134 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
* ** *
71455158 -ATGGCACTATATGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
71455183 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
71455198 CACATTCGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.03
24 69 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:71455148 original size:26 final size:24
Alignment explanation
Indices: 71455089--71455175 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
71455079 TATCTCAAAT
* *
71455089 GCACTATGTGTGCAATTTATTAAT-
1 GCACTATGTGTGCGATTTACT-ATG
71455113 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
71455137 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
*
71455161 GCACTATATGTGCGA
1 GCACTATGTGTGCGA
71455176 ACATAATAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:71461691 original size:40 final size:40
Alignment explanation
Indices: 71461583--71461792 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71461573 CGGGATTTAA
* * * * *
71461583 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
71461623 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71461663 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71461703 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71461743 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71461783 CCGGATATAT
1 CCGGATATAT
71461793 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71469094 original size:34 final size:32
Alignment explanation
Indices: 71469015--71469110 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 32
71469005 CTACGGGCCA
** * *
71469015 TACTGTTATCTGAAAAGGGGCTAAGGCCTAGTT
1 TACTGTTATCTGAAAA-GGGCTTCGGCCCAGTC
71469048 TACTG-TATTCTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTCGGCCCAGT--C
* * *
71469082 TACTGTTATCTGAATAGGGTTTCAGCCCA
1 TACTGTTATCTGAAAAGGGCTTCGGCCCA
71469111 ATGGGCTTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
32 14 0.27
33 13 0.25
34 23 0.44
35 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (32 bp):
TACTGTTATCTGAAAAGGGCTTCGGCCCAGTC
Found at i:71469780 original size:25 final size:25
Alignment explanation
Indices: 71469751--71469800 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
71469741 AAACACTAAG
71469751 AAAGATTTTATATAAAACATGACTT
1 AAAGATTTTATATAAAACATGACTT
71469776 AAAGATTTTATATAAAACATGACTT
1 AAAGATTTTATATAAAACATGACTT
71469801 CTCTAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (25 bp):
AAAGATTTTATATAAAACATGACTT
Found at i:71474249 original size:43 final size:43
Alignment explanation
Indices: 71474188--71474274 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
71474178 AGATAAGCAA
71474188 TTGTATGTGAAGTTTAGCAAATGTGAATTCTGGTTACAAGAAG
1 TTGTATGTGAAGTTTAGCAAATGTGAATTCTGGTTACAAGAAG
*
71474231 TTGTATGTGAAGTTTAGCAAATGTGAATTCTGGTTATAAGAAG
1 TTGTATGTGAAGTTTAGCAAATGTGAATTCTGGTTACAAGAAG
71474274 T
1 T
71474275 CCGTTTTCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (43 bp):
TTGTATGTGAAGTTTAGCAAATGTGAATTCTGGTTACAAGAAG
Found at i:71476901 original size:80 final size:80
Alignment explanation
Indices: 71476817--71476965 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71476807 TATGGTAACC
* * * *
71476817 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71476881 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71476897 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71476962 CCGG
66 CCGG
71476966 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71476907 original size:40 final size:38
Alignment explanation
Indices: 71476858--71476965 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71476848 ATCACGATTT
*
71476858 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71476898 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71476938 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71476966 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71481106 original size:42 final size:42
Alignment explanation
Indices: 71481006--71481167 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 42
71480996 TGTGCTATCG
* *
71481006 TGTAAGACCACGTCTTGGACATTGGCATCG-ATTTGGTATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTT-G-ATTT-CA
* *
71481050 TGTAAGACCATGTCTGGGACATTGCCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
* * *
71481092 TGTAAGACC-CTGTCTGGGACATTGGAATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATC-GTATTTGATTTCA
* *
71481135 TGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACATTGGCATCGTAT
71481168 GAGCTTTCCG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
42 29 0.29
43 39 0.39
44 29 0.29
45 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:71484049 original size:46 final size:46
Alignment explanation
Indices: 71483999--71484174 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
71483989 TGGTTGAGCA
71483999 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71484045 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71484090 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71484138 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71484175 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71484155 original size:93 final size:93
Alignment explanation
Indices: 71483996--71484166 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71483986 GGATGGTTGA
* *
71483996 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71484061 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71484089 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71484154 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71484167 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71487169 original size:15 final size:15
Alignment explanation
Indices: 71487130--71487209 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
71487120 GTATCTTGGG
*
71487130 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
71487145 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
71487160 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
71487175 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
71487190 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
71487204 TTTCTT
1 TTTCTT
71487210 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71487199 original size:30 final size:30
Alignment explanation
Indices: 71487121--71487208 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
71487111 CATAGTATCG
* * *
71487121 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
71487151 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
71487181 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
71487209 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:71489640 original size:47 final size:47
Alignment explanation
Indices: 71489586--71489762 Score: 236
Period size: 47 Copynumber: 3.8 Consensus size: 47
71489576 TTGTTGAGCA
71489586 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * * * *
71489633 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAAGCG
71489680 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* *
71489726 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71489763 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
44 4 0.04
46 38 0.34
47 64 0.57
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
Found at i:71491723 original size:37 final size:37
Alignment explanation
Indices: 71491664--71491809 Score: 204
Period size: 37 Copynumber: 3.9 Consensus size: 37
71491654 AGCTCAGATG
* *
71491664 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
71491701 AAATCTCCACATGTAGTCATCGGGTCTTACCTGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
71491737 TATATTTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
71491775 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
71491810 ATATATTTCC
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
36 1 0.01
37 92 0.98
38 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:71491762 original size:74 final size:74
Alignment explanation
Indices: 71491669--71491820 Score: 250
Period size: 74 Copynumber: 2.1 Consensus size: 74
71491659 AGATGAAATC
* * * *
71491669 TCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACATGTAGTCATCGGGTCTTACCTG
1 TCCACACGAAGTCATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
71491734 GAATATATT
66 GAATATATT
* *
71491743 TCCACACGTAGTCATCGGGTCTTACCCAGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
71491808 GAATATATT
66 GAATATATT
71491817 TCCA
1 TCCA
71491821 AGTTTCATGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (74 bp):
TCCACACGAAGTCATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GAATATATT
Done.