Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 74 of 199
Found at i:22349298 original size:44 final size:45
Alignment explanation
Indices: 22349242--22349680 Score: 158
Period size: 44 Copynumber: 9.3 Consensus size: 45
22349232 GATTGAAGCT
*
22349242 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
1 AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
* * * * * * * *
22349287 AG-GATCTTATCTCTCTCA-AGTTATAGTAGAGTAGATCGCATCAGATTGAA
1 AGTAATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT----T-AAAAT-AA
* *
22349337 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
1 ---AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
** * * * * *
22349385 AG-GCTCTTATCTCTCTGA-AGCTACAGTAGAGTAGATCGCATCAAATTGAA
1 AGTAATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT----T-AAAAT-AA
* * ***
22349435 GCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAGGC
1 ---AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
* **
22349482 AGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAA
1 AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
* * ** * *
22349527 AG-GATCTTATCTCTCTGA-AGTTACAGTAAAGTAGATCGCATCAAATTGAA
1 AGTAATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT----T-AAAAT-AA
* ** * ***
22349577 GCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATT-GAAGCC
1 ---AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
* * *
22349624 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGTAA
1 AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
*
22349669 AG-GATCTTATCT
1 AGTAATCTTATCT
22349681 TTTTGAAGTT
Statistics
Matches: 280, Mismatches: 76, Indels: 77
0.65 0.18 0.18
Matches are distributed among these distances:
43 3 0.01
44 149 0.53
45 12 0.04
48 8 0.03
49 14 0.05
50 9 0.03
53 6 0.02
54 76 0.27
55 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (45 bp):
AGTAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
Found at i:22349346 original size:98 final size:98
Alignment explanation
Indices: 22349230--22349478 Score: 408
Period size: 98 Copynumber: 2.5 Consensus size: 98
22349220 AATAGCGGAG
22349230 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
* *
22349295 ATCTCTCTCAAGTTATAGTAGAGTAGATCGCAT
66 ATCTCTCTCAAGCTACAGTAGAGTAGATCGCAT
* *
22349328 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGCTCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
22349393 ATCTCTCTGAAGCTACAGTAGAGTAGATCGCAT
66 ATCTCTCTCAAGCTACAGTAGAGTAGATCGCAT
* * * * *
22349426 CAAATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAA
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
22349479 GGCAGTAATC
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 140 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
ATCTCTCTCAAGCTACAGTAGAGTAGATCGCAT
Found at i:22349512 original size:142 final size:142
Alignment explanation
Indices: 22349328--22349711 Score: 633
Period size: 142 Copynumber: 2.7 Consensus size: 142
22349318 TAGATCGCAT
* * *
22349328 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGCTCTT
1 CAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
*
22349393 ATCTCTCTGAAGCTACAGTAGAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCCTGAG
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCCTGAG
*
22349458 ATTACAGCGGAG
131 ATTACAGCAGAG
* *
22349470 CAGATTAAAGGCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTT
1 CAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
*
22349535 ATCTCTCTGAAGTTACAGTAAAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCCTGAG
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCCTGAG
22349600 ATTACAGCAGAG
131 ATTACAGCAGAG
* *
22349612 CAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGTAAAGGATCTT
1 CAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
* * * * *
22349677 ATCTTTTTGAAGTTACAGTTGAGTGGATAGCATCA
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
22349712 GGTCTTATCT
Statistics
Matches: 224, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 224 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTAAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAATTGAAGCCAGAAATCTTATCTCCCTGAG
ATTACAGCAGAG
Found at i:22353404 original size:27 final size:26
Alignment explanation
Indices: 22353356--22353406 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
22353346 TAGAATTAAT
*
22353356 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
22353382 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
22353407 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:22365690 original size:21 final size:21
Alignment explanation
Indices: 22365664--22365707 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22365654 CATTGATTTG
*
22365664 TGGTGAAACATAACATATCGA
1 TGGTGAAACAGAACATATCGA
22365685 TGGTGAAACAGAACATATCGA
1 TGGTGAAACAGAACATATCGA
22365706 TG
1 TG
22365708 TGCTTGTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (21 bp):
TGGTGAAACAGAACATATCGA
Found at i:22368553 original size:9 final size:9
Alignment explanation
Indices: 22368539--22368786 Score: 258
Period size: 9 Copynumber: 27.9 Consensus size: 9
22368529 TTTTTATGTA
22368539 TTATGTAAG
1 TTATGTAAG
22368548 TTATGTACTAAG
1 TTATG---TAAG
22368560 TTATGTAAG
1 TTATGTAAG
*
22368569 TTGTGT-A-
1 TTATGTAAG
*
22368576 TTATGTGAG
1 TTATGTAAG
22368585 TTATGTAAG
1 TTATGTAAG
*
22368594 TTATGGAAG
1 TTATGTAAG
* *
22368603 TTATTTAAT
1 TTATGTAAG
22368612 TTATGTAAG
1 TTATGTAAG
22368621 TTATGTAAG
1 TTATGTAAG
*
22368630 TTATGTAGG
1 TTATGTAAG
*
22368639 CTATGT-A-
1 TTATGTAAG
* *
22368646 TTATCTAAA
1 TTATGTAAG
*
22368655 TAATGTAAG
1 TTATGTAAG
*
22368664 TTA-GGAAGG
1 TTATGTAA-G
22368673 TTATGT-A-
1 TTATGTAAG
22368680 TTATGTAAG
1 TTATGTAAG
*
22368689 TTATTTAAG
1 TTATGTAAG
22368698 TTATGTAAG
1 TTATGTAAG
* *
22368707 TTATTTAAT
1 TTATGTAAG
22368716 TTATGTAAG
1 TTATGTAAG
22368725 TTATGTAAG
1 TTATGTAAG
*
22368734 TTATGTAAT
1 TTATGTAAG
*
22368743 TTATATAAG
1 TTATGTAAG
22368752 TTATGTAAG
1 TTATGTAAG
*
22368761 TTATGTAAT
1 TTATGTAAG
22368770 TTATGTAAG
1 TTATGTAAG
22368779 TTATGTAA
1 TTATGTAA
22368787 TTAGAAATTT
Statistics
Matches: 196, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
7 15 0.08
8 7 0.04
9 164 0.84
10 1 0.01
12 9 0.05
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:22368615 original size:27 final size:27
Alignment explanation
Indices: 22368505--22368786 Score: 251
Period size: 27 Copynumber: 10.6 Consensus size: 27
22368495 TATAAATGAG
* * * *
22368505 TTATGTAAGTTATGATATGATATAT-TT
1 TTATGTAAGTTATG-TAAGTTATGTAAT
*
22368532 TTATGT-A-TTATGTAAGTTATGTACTAAG
1 TTATGTAAGTTATGTAAGTTATG---TAAT
* * *
22368560 TTATGTAAGTTGTGT-A-TTATGTGAG
1 TTATGTAAGTTATGTAAGTTATGTAAT
* *
22368585 TTATGTAAGTTATGGAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAT
**
22368612 TTATGTAAGTTATGTAAGTTATGTAGG
1 TTATGTAAGTTATGTAAGTTATGTAAT
* * * * *
22368639 CTATGT-A-TTATCTAAATAATGTAAG
1 TTATGTAAGTTATGTAAGTTATGTAAT
* *
22368664 TTA-GGAAGGTTATGT-A-TTATGTAAG
1 TTATGTAA-GTTATGTAAGTTATGTAAT
* *
22368689 TTATTTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAT
22368716 TTATGTAAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAT
*
22368743 TTATATAAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAT
22368770 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
22368787 TTAGAAATTT
Statistics
Matches: 208, Mismatches: 33, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
24 7 0.03
25 56 0.27
26 7 0.03
27 120 0.58
28 11 0.05
29 2 0.01
30 5 0.02
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAGTTATGTAAT
Found at i:22368904 original size:37 final size:37
Alignment explanation
Indices: 22368818--22368910 Score: 141
Period size: 37 Copynumber: 2.5 Consensus size: 37
22368808 TATATAAGTT
* ** *
22368818 ATCTTAATATTAAACGAGTTATGTAATTAGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTAGAAATTTG
*
22368855 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTG
1 ATCTTAATATTATATAAGTTATGTAATTAGAAATTTG
22368892 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
22368911 AATCTTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTAGAAATTTG
Found at i:22368916 original size:57 final size:57
Alignment explanation
Indices: 22368855--22369029 Score: 305
Period size: 57 Copynumber: 3.1 Consensus size: 57
22368845 TAGAAATTTT
22368855 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
*
22368912 ATCTTAATATTATATAAGTAATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
* * * *
22368969 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
22369026 ATCT
1 ATCT
22369030 AAAATGAGAA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 112 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (57 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
Found at i:22368936 original size:94 final size:94
Alignment explanation
Indices: 22368766--22368967 Score: 307
Period size: 94 Copynumber: 2.2 Consensus size: 94
22368756 GTAAGTTATG
* * *
22368766 TAAT-TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTA
* * *
22368830 AACGAGTTATGTAATTAGAAATTTTATCT
66 AACAAGTAATGTAATTAGAAATTTGATCT
*
22368859 TAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTA
1 TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTA
* * *
22368924 TATAAGTAATGTAATTCGAAATTTGATCT
66 AACAAGTAATGTAATTAGAAATTTGATCT
22368953 TAATATTATATAAGT
1 TAATATTATATAAGT
22368968 AATCTTAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 4 0.04
94 94 0.96
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.46
Consensus pattern (94 bp):
TAATATTATATAAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTAATCTTAATATTA
AACAAGTAATGTAATTAGAAATTTGATCT
Found at i:22369060 original size:114 final size:114
Alignment explanation
Indices: 22368855--22369074 Score: 282
Period size: 114 Copynumber: 1.9 Consensus size: 114
22368845 TAGAAATTTT
* *
22368855 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATATAAGTAATCTTAAT
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTGATCTTAATATTATATAAGTAATCTTAAA
* * * * **
22368920 ATTATATAAGTAATGTAATTCGAAATTTGATCTTAATATTATATAAGTA
66 ATGAGATAAGTAATGTAATTCCAAATTAGAAATTAATATTATATAAGTA
* * *
22368969 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC-TAAA
1 ATCTTAATATTATATAAGTTATGTAATTCAAAATTTGATCTTAATATTATATAAGTAATCTTAAA
* * *
22369033 ATGAGA-AATTGATGTGTACTTCCAAATTAGAAATTAATATTA
66 ATGAGATAAGT-A-ATGTAATTCCAAATTAGAAATTAATATTA
22369075 AACGAGTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 3 0.03
113 8 0.09
114 79 0.88
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (114 bp):
ATCTTAATATTATATAAGTTATGTAATTCAAAATTTGATCTTAATATTATATAAGTAATCTTAAA
ATGAGATAAGTAATGTAATTCCAAATTAGAAATTAATATTATATAAGTA
Found at i:22369128 original size:19 final size:19
Alignment explanation
Indices: 22369104--22369145 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
22369094 AATTTGATCT
*
22369104 TAATATTATATAAGTTATG
1 TAATATTATATAAGTTAAG
22369123 TAATATTATATAAGTTAAG
1 TAATATTATATAAGTTAAG
22369142 TAAT
1 TAAT
22369146 TAGAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
TAATATTATATAAGTTAAG
Found at i:22369130 original size:56 final size:56
Alignment explanation
Indices: 22369067--22369178 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
22369057 AATTAGAAAT
* * *
22369067 TAATATTAAACGAGTTATGTAATTAGAAATTTGATCTTAATATTATATAAGTTATG
1 TAATATTAAACAAGTTAAGTAATTAGAAATTTGATCTTAAAATTATATAAGTTATG
* * *
22369123 TAATATTATATAAGTTAAGTAATTAGAAATTTTATCTTAAAATTATATAAGTTATG
1 TAATATTAAACAAGTTAAGTAATTAGAAATTTGATCTTAAAATTATATAAGTTATG
22369179 AAGTGTCCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.44
Consensus pattern (56 bp):
TAATATTAAACAAGTTAAGTAATTAGAAATTTGATCTTAAAATTATATAAGTTATG
Found at i:22372589 original size:146 final size:145
Alignment explanation
Indices: 22372376--22372785 Score: 349
Period size: 147 Copynumber: 2.8 Consensus size: 145
22372366 GTTTATAAAT
* * * * * * *
22372376 AAGCACCACTAACTATAAGTCGAAATGCAGTCGTTTCATCAACAAATAGCTCACACCTGTGGCGT
1 AAGCGCCACTAACTATAAATC-AAACGAAGTCGCTTCATCAACAAATACCTCAAACCTGTGGCGT
* * ** * * *
22372441 TTTTGAATAAAT-GCCACTAATA-ATACAGTAAAACGGCCTCGTATCGATAAATGTTAAAATATT
65 TTTCGAA-AAATCGCCACTAATACATACA-AAAAACGGCAACATATCGATAAATGTTAAAACAAT
22372504 TTTGCGGCGTTTTAAGCA
128 TTTGCGGCGTTTTAAGCA
* * **
22372522 GAGCGCCACTAACTATAAATCAAAACGTAGTCGCTTCATCAACACTTACCTCAAAGCC-GTGGCG
1 AAGCGCCACTAACTATAAATC-AAACGAAGTCGCTTCATCAACAAATACCTCAAA-CCTGTGGCG
** * * * *
22372586 TTTTCGAAAAATCGCCACTAATAGCATTTAAAAAATGGCAACATTTCTATAAATGTTAGAACAAT
64 TTTTCGAAAAATCGCCACTAATA-CATACAAAAAACGGCAACATATCGATAAATGTTAAAACAAT
*
22372651 TTTGCGGCGTTTTAAGTA
128 TTTGCGGCGTTTTAAGCA
* * ** ** * * *
22372669 AAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACAGTTAACTCAAGCTTGTGGCGT
1 AAGCGCCACTAACTATAA-ATCAAACGAAGTCGCTTCATCAACAAATACCTCAAACCTGTGGCGT
* * * * * * * *
22372734 TTCCAAAAAAACGCCACTAATACCATAGACAAAACGACAACATTTCAATAAA
65 TTTCGAAAAATCGCCACTAATA-CATACAAAAAACGGCAACATATCGATAAA
22372786 CATAATTACA
Statistics
Matches: 213, Mismatches: 45, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
145 4 0.02
146 68 0.32
147 135 0.63
148 6 0.03
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (145 bp):
AAGCGCCACTAACTATAAATCAAACGAAGTCGCTTCATCAACAAATACCTCAAACCTGTGGCGTT
TTCGAAAAATCGCCACTAATACATACAAAAAACGGCAACATATCGATAAATGTTAAAACAATTTT
GCGGCGTTTTAAGCA
Found at i:22372686 original size:147 final size:147
Alignment explanation
Indices: 22372487--22372827 Score: 364
Period size: 147 Copynumber: 2.3 Consensus size: 147
22372477 CCTCGTATCG
* * * * * *
22372487 ATAAATGTTAAAATATTTTTGCGGCGTTTTAAGCAGAGCGCCACTAACTATAA-ATCAAAACGTA
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAACGAA
* * * * * * **
22372551 GTCGCTTCATCAACACTTACCTCAAAGC-CGTGGCGTTTTCGAAAAATCGCCACTAATAGCATTT
65 GTCGCTTCACCAACACTTAACTC-AAGCTCGTGGCGTTTCCAAAAAAACGCCACTAATACCATAG
* * *
22372615 AAAAAATGGCAACATTTCT
129 AAAAAACGACAACATTTCA
*
22372634 ATAAATGTTAGAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
1 ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
* * * * *
22372699 TCGTTTCCCCAACAGTTAACTCAAGCTTGTGGCGTTTCCAAAAAAACGCCACTAATACCATAGAC
66 TCGCTTCACCAACACTTAACTCAAGCTCGTGGCGTTTCCAAAAAAACGCCACTAATACCATAGAA
22372764 AAAACGACAACATTTCA
131 AAAACGACAACATTTCA
** * * * * *
22372781 ATAAA-CATAATTACAATTTTGCGGCATTTCATGTAAAGCACCACTAA
1 ATAAATGTTAA-AACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAA
22372828 TAGCAACGTA
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
146 6 0.04
147 151 0.94
148 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (147 bp):
ATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAG
TCGCTTCACCAACACTTAACTCAAGCTCGTGGCGTTTCCAAAAAAACGCCACTAATACCATAGAA
AAAACGACAACATTTCA
Found at i:22373476 original size:27 final size:27
Alignment explanation
Indices: 22373418--22373470 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22373408 CCCCAAATCC
*
22373418 AAATAATAAACATTAACCACTAACCTA
1 AAATAATAAACATTAACCACTAAACTA
*
22373445 AAATACTAAACATTAAACC-CTAAACT
1 AAATAATAAACATT-AACCACTAAACT
22373471 CTAATATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (27 bp):
AAATAATAAACATTAACCACTAAACTA
Found at i:22374293 original size:114 final size:114
Alignment explanation
Indices: 22374091--22374406 Score: 397
Period size: 114 Copynumber: 2.8 Consensus size: 114
22374081 GTGCTTGTTT
* * * * *
22374091 AAAAACGCCACTAAATCCCCCAATTCTCAGTAAAACGACATCGTTGGGCTTAGGTTT-TTTGCGG
1 AAAAACGCCGCTAAATCCCCGAATACTCAG-AAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGG
* *
22374155 CGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAG-CAGCGCT-TCTCC
65 CGCTTTCCCAAAAACGCCGCTAAAGCACTGAACATT-GCCAGCGCTATCT-C
* *
22374205 ATAAACGCTGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
* *
22374270 GC-TTCCTCAGAAACGCCGCTAAAGCACTGAACATTGCCGGCGCTATCTC
66 GCTTTCC-CAAAAACGCCGCTAAAGCACTGAACATTGCCAGCGCTATCTC
* * * *
22374319 AAAAACGCCGCTAAGTCACCGAATGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
* ** *
22374384 GCATTCTTAAAAACGCCACTAAA
66 GCTTTCCCAAAAACGCCGCTAAA
22374407 TCCCCAAATG
Statistics
Matches: 176, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
113 29 0.16
114 141 0.80
115 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (114 bp):
AAAAACGCCGCTAAATCCCCGAATACTCAGAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
GCTTTCCCAAAAACGCCGCTAAAGCACTGAACATTGCCAGCGCTATCTC
Found at i:22374426 original size:73 final size:72
Alignment explanation
Indices: 22374319--22374457 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 72
22374309 GCGCTATCTC
* * * * * *
22374319 AAAAACGCCGCTAAGTCACCGAATGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGC
1 AAAAACGCCACTAAATCACCAAATGCGCAAAAAACGACGTCGTTGGGCTGAGGTTT-TTTGCGGC
22374384 GCATTCTT
65 GCATTCTT
* * *
22374392 AAAAACGCCACTAAATCCCCAAATGCGCAGAAAACGACGTCGTTGGGCTGAGGTTTTTTGTGGCG
1 AAAAACGCCACTAAATCACCAAATGCGCAAAAAACGACGTCGTTGGGCTGAGGTTTTTTGCGGCG
22374457 C
66 C
22374458 TTTATAGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
72 9 0.16
73 48 0.84
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (72 bp):
AAAAACGCCACTAAATCACCAAATGCGCAAAAAACGACGTCGTTGGGCTGAGGTTTTTTGCGGCG
CATTCTT
Found at i:22375754 original size:12 final size:12
Alignment explanation
Indices: 22375737--22375764 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22375727 TCACATGCCC
22375737 GTGTCTTAGGCT
1 GTGTCTTAGGCT
22375749 GTGTCTTAGGCT
1 GTGTCTTAGGCT
22375761 GTGT
1 GTGT
22375765 GGACATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.36, T:0.43
Consensus pattern (12 bp):
GTGTCTTAGGCT
Found at i:22377054 original size:20 final size:20
Alignment explanation
Indices: 22377023--22377148 Score: 105
Period size: 20 Copynumber: 6.3 Consensus size: 20
22377013 GCATCATAGA
22377023 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* * *
22377044 TGTAGACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
*
22377064 TGCAAACAGGGGCACTGTAA-
1 TGCAAACAGGGGCACCG-AAG
* * *
22377084 TGCGAACAGGGACACTGAAG
1 TGCAAACAGGGGCACCGAAG
* * *
22377104 TGTACA-AGGGGCACCGAAA
1 TGCAAACAGGGGCACCGAAG
*
22377123 TACAAACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
22377143 TGCAAA
1 TGCAAA
22377149 TCCTGTACAA
Statistics
Matches: 80, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
19 18 0.22
20 57 0.71
21 3 0.04
22 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:22379928 original size:21 final size:21
Alignment explanation
Indices: 22379902--22379962 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
22379892 AGTAGAGGCG
*
22379902 GCAGCGAGGGAAGCAG-CGACT
1 GCAGCGAGGGAAGCAGAAG-CT
22379923 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAAGCT
*
22379944 GCAGCGAGAGAAGCA-AAGC
1 GCAGCGAGGGAAGCAGAAGC
22379963 AGAGCAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 4 0.11
21 32 0.86
22 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.41, T:0.03
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAAGCT
Found at i:22380336 original size:43 final size:40
Alignment explanation
Indices: 22380268--22380562 Score: 225
Period size: 42 Copynumber: 7.0 Consensus size: 40
22380258 CAAAAATACT
* *
22380268 GGCGTTTTTTATAAAAGCACCGCTAAAGAACATTTCTTTTAGC
1 GGCG-TTTTTAT-AAAGCGCCGCTAAAGAACATATC-TTTAGC
* * * *
22380311 GGCGTTTGTGAATAAAGCGCTGCTAAAGAACATGACCTTTAGT
1 GGCGTTT-T-TATAAAGCGCCGCTAAAGAACAT-ATCTTTAGC
* *
22380354 GGCGTTTTTTTGAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTATAAAGCGCCGCTAAAGAACAT-ATCTTTAGC
* *
22380395 GGCGTTTTTTATAAAGCGCCGTTAAAGAACATGATCTTCAGC
1 GGCG-TTTTTATAAAGCGCCGCTAAAGAACAT-ATCTTTAGC
* * * *
22380437 GGTGTCTTTT-TCACAAGCGCCGCAAAAGATCATGTTCTTTAGC
1 GGCGT-TTTTAT-A-AAGCGCCGCTAAAGAACAT-ATCTTTAGC
* * * ** *
22380480 GGCG-CTTCAGAAAAATGCCGCTAAAGAACATGACCTTTAGC
1 GGCGTTTTTA-TAAAGCGCCGCTAAAGAACAT-ATCTTTAGC
* *
22380521 GGCGTTTTTTTCCAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTAT-AAAGCGCCGCTAAAGAACAT-ATCTTTAGC
22380563 AGTGTTTATT
Statistics
Matches: 201, Mismatches: 40, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
41 62 0.31
42 74 0.37
43 62 0.31
44 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTATAAAGCGCCGCTAAAGAACATATCTTTAGC
Found at i:22380421 original size:42 final size:42
Alignment explanation
Indices: 22380268--22380562 Score: 294
Period size: 43 Copynumber: 7.0 Consensus size: 42
22380258 CAAAAATACT
* *
22380268 GGCGTTTTTTATAAAAGCACCGCTAAAGAACAT-TTCTTTTAGC
1 GGCGTTTTTTAT-AAAGCGCCGCTAAAGAACATGATC-TTTAGC
** * * *
22380311 GGCGTTTGTGAATAAAGCGCTGCTAAAGAACATGACCTTTAGT
1 GGCGTTT-TTTATAAAGCGCCGCTAAAGAACATGATCTTTAGC
*
22380354 GGCGTTTTTT-TGAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTATAAAGCGCCGCTAAAGAACATGATCTTTAGC
* *
22380395 GGCGTTTTTTATAAAGCGCCGTTAAAGAACATGATCTTCAGC
1 GGCGTTTTTTATAAAGCGCCGCTAAAGAACATGATCTTTAGC
* * * * *
22380437 GGTGTCTTTTTCA-CAAGCGCCGCAAAAGATCATGTTCTTTAGC
1 GGCGT-TTTTT-ATAAAGCGCCGCTAAAGAACATGATCTTTAGC
* *** ** *
22380480 GGCGCTTCAGA-AAAATGCCGCTAAAGAACATGACCTTTAGC
1 GGCGTTTTTTATAAAGCGCCGCTAAAGAACATGATCTTTAGC
*
22380521 GGCGTTTTTT-TCCAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTAT-AAAGCGCCGCTAAAGAACATGATCTTTAGC
22380563 AGTGTTTATT
Statistics
Matches: 202, Mismatches: 43, Indels: 15
0.78 0.17 0.06
Matches are distributed among these distances:
41 67 0.33
42 61 0.30
43 69 0.34
44 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTTATAAAGCGCCGCTAAAGAACATGATCTTTAGC
Found at i:22380447 original size:84 final size:83
Alignment explanation
Indices: 22380268--22380562 Score: 317
Period size: 83 Copynumber: 3.5 Consensus size: 83
22380258 CAAAAATACT
* * * * *
22380268 GGCGTTTTTTATAAAAGCACCGCTAAAGAACAT-TTCTTTTAGCGGCGTTTGTGAATAAAGCGCT
1 GGCGTTTTTT-T-CAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-TAAATAAAGCGCC
*
22380332 GCTAAAGAACATGACCTTTAGT
62 GCTAAAGAACATGACCTTTAGC
* ** *
22380354 GGCGTTTTTTTGAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATAAAGCGCCGTTA
1 GGCGTTTTTTTCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTAAATAAAGCGCCGCTA
* *
22380419 AAGAACATGATCTTCAGC
66 AAGAACATGACCTTTAGC
* * * * * * * *
22380437 GGTGTCTTTTTCACAAGCGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTCAGAA-AAA-TGCCG
1 GGCGT-TTTTT-TCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTA-AATAAAGCGCCG
22380500 CTAAAGAACATGACCTTTAGC
63 CTAAAGAACATGACCTTTAGC
22380521 GGCGTTTTTTTCCAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTT-CAAGCGCCGCTAAAGAACATGATCTTTAGC
22380563 AGTGTTTATT
Statistics
Matches: 175, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
83 64 0.37
84 62 0.35
85 38 0.22
86 11 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (83 bp):
GGCGTTTTTTTCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTAAATAAAGCGCCGCTA
AAGAACATGACCTTTAGC
Found at i:22381231 original size:17 final size:19
Alignment explanation
Indices: 22381205--22381240 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22381195 TCACTCTCTC
22381205 TTTTTCAA-TTTTACTTTA
1 TTTTTCAATTTTTACTTTA
22381223 TTTTT-AATTTTTACTTTA
1 TTTTTCAATTTTTACTTTA
22381241 AAAAGTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTCAATTTTTACTTTA
Found at i:22384368 original size:6 final size:6
Alignment explanation
Indices: 22384352--22384393 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
22384342 CCAAGAGAAG
22384352 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
22384394 AAGAAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:22385532 original size:11 final size:11
Alignment explanation
Indices: 22385516--22385540 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22385506 ATTGCATATC
22385516 TCAATTAACAT
1 TCAATTAACAT
22385527 TCAATTAACAT
1 TCAATTAACAT
22385538 TCA
1 TCA
22385541 GCGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
TCAATTAACAT
Found at i:22386028 original size:31 final size:31
Alignment explanation
Indices: 22385967--22386029 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
22385957 AACCCAATGT
* * *
22385967 CTTAAATAAATACTTTCAAATCGTTCAGTGA
1 CTTAAATAAAAAATTTCAAATAGTTCAGTGA
*
22385998 CTTAAATAAAAAA-TTCTAAATAGTTTAGTGA
1 CTTAAATAAAAAATTTC-AAATAGTTCAGTGA
22386029 C
1 C
22386030 CATTTTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.35
Consensus pattern (31 bp):
CTTAAATAAAAAATTTCAAATAGTTCAGTGA
Found at i:22388364 original size:17 final size:17
Alignment explanation
Indices: 22388327--22388369 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
22388317 AAAAAAATTA
22388327 AAAATA-TATATTTTTT
1 AAAATATTATATTTTTT
*
22388343 AAAATTTTATATTTTTT
1 AAAATATTATATTTTTT
22388360 AAAATATTAT
1 AAAATATTAT
22388370 TGAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAAATATTATATTTTTT
Found at i:22388628 original size:46 final size:46
Alignment explanation
Indices: 22388541--22388628 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
22388531 CTCTAAAAAT
* *
22388541 TTGATATTTGTATCAATGTTTAAATTCTATAGGTACCTTTTAGGAA
1 TTGATATGTGTATCAATGTTTAAATTCTATAGGTACATTTTAGGAA
* * * *
22388587 TTGATATGTGTATGAATGTTTTAATTCTATTGGTATATTTTA
1 TTGATATGTGTATCAATGTTTAAATTCTATAGGTACATTTTA
22388629 AGATGTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (46 bp):
TTGATATGTGTATCAATGTTTAAATTCTATAGGTACATTTTAGGAA
Found at i:22415133 original size:14 final size:14
Alignment explanation
Indices: 22415114--22415141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22415104 TATTAATAAA
22415114 CATGATAAATCAAG
1 CATGATAAATCAAG
22415128 CATGATAAATCAAG
1 CATGATAAATCAAG
22415142 TATGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
CATGATAAATCAAG
Found at i:22428298 original size:102 final size:102
Alignment explanation
Indices: 22428121--22428663 Score: 629
Period size: 102 Copynumber: 5.4 Consensus size: 102
22428111 TATCGATGAA
22428121 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
22428186 TGAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
22428223 CACGTATGTAGTACTGTGTGAAGGTTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
22428288 TAAGTAAAGGCCACAATGTGTACCGAGAAGCTTTCGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
22428325 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
22428390 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *** * *
22428427 CACG--TGTAGTACTATGTGAA-GCTACTACGTGAA-CTG-TAAAACTTGATCACGTGTGTAGTA
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATC-GATAAATGATGGTCACATGTGTAGTA
* * * * *
22428487 CTATGTGAAGGCTACTATGTGAACCGTA-AAAC-TTGAT
65 CTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
* * * *** * * *
22428524 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAATAC
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * * * * *
22428588 TATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGAT
66 TAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGT
* * * *
22428624 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTATCGA
1 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
22428664 ATGATAAAAG
Statistics
Matches: 403, Mismatches: 29, Indels: 19
0.89 0.06 0.04
Matches are distributed among these distances:
97 8 0.02
98 48 0.12
99 31 0.08
100 121 0.30
101 1 0.00
102 194 0.48
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (102 bp):
CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:22428516 original size:50 final size:50
Alignment explanation
Indices: 22428121--22428653 Score: 522
Period size: 51 Copynumber: 10.6 Consensus size: 50
22428111 TATCGATGAA
* * * ***
22428121 CACGTATGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * *
22428172 CACATGTGTAGTACTGA-GTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * * ***
22428223 CACGTATGTAGTACTGTGTGAAGGTTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * * * * *
22428274 CACATGTGTAGTACTAAGTAAAGGCCACAATGTGTACCG-AGAAGCTTTCGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * ***
22428325 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
22428376 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* *
22428427 CAC--GTGTAGTACTATGTGAA-GCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
22428474 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
22428524 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* * *
22428574 CACGTGTGTAATACTATGTGAAGGCTACTACGTGAACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
22428624 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
22428654 TGTGTATCGA
Statistics
Matches: 395, Mismatches: 71, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
47 7 0.02
48 14 0.04
49 42 0.11
50 155 0.39
51 171 0.43
52 4 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:22428924 original size:37 final size:38
Alignment explanation
Indices: 22428855--22428927 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
22428845 ATGTGTGGAA
* *
22428855 TTGAATTGAATATTGACTTGAAAATGACAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
22428893 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
22428928 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:22441269 original size:15 final size:16
Alignment explanation
Indices: 22441249--22441305 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
22441239 TACAGTTTCT
*
22441249 TATAGTCTCACAA-TC
1 TATAGTTTCACAAGTC
* *
22441264 TATAGTTTTCACAATTT
1 TATAG-TTTCACAAGTC
22441281 TATAGTTTCA-AAGTC
1 TATAGTTTCACAAGTC
22441296 TATAGTTTCA
1 TATAGTTTCA
22441306 TATCTAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 18 0.50
16 12 0.33
17 6 0.17
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.44
Consensus pattern (16 bp):
TATAGTTTCACAAGTC
Found at i:22441277 original size:16 final size:17
Alignment explanation
Indices: 22441256--22441303 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
22441246 TCTTATAGTC
22441256 TCACAA-TCTATAGTTT
1 TCACAAGTCTATAGTTT
* *
22441272 TCACAATTTTATAG-TT
1 TCACAAGTCTATAGTTT
22441288 TCA-AAGTCTATAGTTT
1 TCACAAGTCTATAGTTT
22441304 CATATCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.30
16 13 0.48
17 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (17 bp):
TCACAAGTCTATAGTTT
Found at i:22451786 original size:32 final size:32
Alignment explanation
Indices: 22451750--22451812 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
22451740 ATTGAACAAG
22451750 CTTGTCGACAGAGAAGAAGAGAAGCAAGTCAA
1 CTTGTCGACAGAGAAGAAGAGAAGCAAGTCAA
* *
22451782 CTTGTCGATAGTGAAGAAGAGAAGCAAGTCA
1 CTTGTCGACAGAGAAGAAGAGAAGCAAGTCA
22451813 GAGAAGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.29, T:0.16
Consensus pattern (32 bp):
CTTGTCGACAGAGAAGAAGAGAAGCAAGTCAA
Found at i:22462499 original size:27 final size:27
Alignment explanation
Indices: 22462464--22462786 Score: 354
Period size: 27 Copynumber: 12.1 Consensus size: 27
22462454 TAACCTTTTA
*
22462464 GGTAAAATTACCGAAATACGCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
* *
22462491 GGTAAAATTA-CTAGAATACCCTAGAAG
1 GGTAAAATTACCGA-AATACCCTCGAAG
*
22462518 GGTAAAATTACTGAAATACCCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
* *
22462545 GGTAAAGTTATCGAAATACCCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
22462572 GGTAAAATTACCGAAATACCCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
*** *
22462599 GGTAAAATTTTTGAAATACCCTAGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
* *
22462626 GGT---A-GACCGAAATACCCTTGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
** **
22462649 GGTGGAATTATAGAAATACCCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
** ***
22462676 GGTAAAATTATAGAAATACCCT-TTTG
1 GGTAAAATTACCGAAATACCCTCGAAG
22462702 GGTAAAATTACCGAAATACCCTCGAAG
1 GGTAAAATTACCGAAATACCCTCGAAG
22462729 GGTAAAATTATCC-AAATACCCTCGAAG
1 GGTAAAATTA-CCGAAATACCCTCGAAG
* * * *
22462756 GGTAAAATTACTGATATACCCCCGAAT
1 GGTAAAATTACCGAAATACCCTCGAAG
22462783 GGTA
1 GGTA
22462787 GAATGACTGT
Statistics
Matches: 249, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
23 17 0.07
24 1 0.00
26 25 0.10
27 203 0.82
28 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (27 bp):
GGTAAAATTACCGAAATACCCTCGAAG
Found at i:22462665 original size:131 final size:130
Alignment explanation
Indices: 22462505--22462759 Score: 377
Period size: 130 Copynumber: 2.0 Consensus size: 130
22462495 AAATTACTAG
* *
22462505 AATACCCTAGAAGGGTAAAATTACTGAAATACCCTCGAAGGGTAAAGTTATCGAAATACCCTCGA
1 AATACCCTAGAAGGGTAAAATTACTGAAATACCCTCGAAGGGTAAAATTATAGAAATACCCT-GA
* **
22462570 AGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTTTTGAAATACCCTAGAAGGGTAGACCG
65 AGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCCAAATACCCTAGAAGGGTAGACCG
22462635 A
130 A
* ** **
22462636 AATACCCTTGAAGGGTGGAATTA-TAGAAATACCCTCGAAGGGTAAAATTATAGAAATACCCTTT
1 AATACCCTAGAAGGGTAAAATTACT-GAAATACCCTCGAAGGGTAAAATTATAGAAATACCCTGA
* *
22462700 TGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCCAAATACCCTCGAAGGGTA
65 AGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCCAAATACCCTAGAAGGGTA
22462760 AAATTACTGA
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
130 56 0.50
131 55 0.50
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (130 bp):
AATACCCTAGAAGGGTAAAATTACTGAAATACCCTCGAAGGGTAAAATTATAGAAATACCCTGAA
GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCCAAATACCCTAGAAGGGTAGACCGA
Found at i:22478862 original size:23 final size:22
Alignment explanation
Indices: 22478836--22478891 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 22
22478826 TATTTTTTTT
22478836 CATTTTTACATGTGTTTTTCA-TG
1 CATTTTTACAT-TG-TTTTCATTG
**
22478859 CATTCATA-ATTGTTTTCATTG
1 CATTTTTACATTGTTTTCATTG
22478880 CATTTTCTACAT
1 CATTTT-TACAT
22478892 ATATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 4 0.15
23 8 0.31
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (22 bp):
CATTTTTACATTGTTTTCATTG
Found at i:22488200 original size:15 final size:15
Alignment explanation
Indices: 22488180--22488208 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22488170 AGTTATAATC
22488180 TGAACCATAATTTGT
1 TGAACCATAATTTGT
22488195 TGAACCATAATTTG
1 TGAACCATAATTTG
22488209 GTCAAGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
TGAACCATAATTTGT
Found at i:22507037 original size:50 final size:50
Alignment explanation
Indices: 22506962--22507255 Score: 399
Period size: 50 Copynumber: 5.9 Consensus size: 50
22506952 CATTTGGGTA
* * *
22506962 GAGAGCTCCCATGTAAGACGATGTCTGGGACATGGCGTCGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
22507012 GAGAGGTCCCCTGTAAGACCATGTCTGGGACACGGCGTTGGGACTGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
22507062 GAGAGGTACCATGTAAGACCATGTGTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
22507112 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** * * *
22507162 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * *
22507212 GAAAACATCCCATGTAAGACCATGTCTGGGACTTGGCTTTGGCA
1 G-AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22507256 TGTTATGATC
Statistics
Matches: 213, Mismatches: 30, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
50 179 0.84
51 34 0.16
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.20
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:22514007 original size:50 final size:50
Alignment explanation
Indices: 22513932--22514189 Score: 372
Period size: 50 Copynumber: 5.2 Consensus size: 50
22513922 CATTTGGGTA
* * * * *
22513932 GAGAGGTCATATGTAAGAACATGTCTGGGACATGGCGTTGGCACCCAAAT
1 GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
* * *
22513982 GAGAGGTCACACGTAAGACCATGTCTATGACACGGCGTTGGCACCGAGAT
1 GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
* *
22514032 GAGAGGTCCCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
* * * *
22514082 GAGAGGTCTCATGTAAGACCATGTCTGGGACATGGTGTTGGCATCGAGAT
1 GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
* *
22514132 GAGAGGTCACATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAAAT
1 GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
22514182 GAGAGGTC
1 GAGAGGTC
22514190 CCCCAAAAAA
Statistics
Matches: 185, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 185 1.00
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGAGGTCACATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
Found at i:22521346 original size:14 final size:15
Alignment explanation
Indices: 22521327--22521366 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
22521317 AAAAGGGTCC
*
22521327 AGTTGAACCGCAT-T
1 AGTTGAACCGAATCT
22521341 AGTTGAACCGAATCT
1 AGTTGAACCGAATCT
22521356 AG-TGAACCGAA
1 AGTTGAACCGAA
22521367 CCAGCCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (15 bp):
AGTTGAACCGAATCT
Found at i:22522411 original size:31 final size:32
Alignment explanation
Indices: 22522358--22522428 Score: 126
Period size: 31 Copynumber: 2.2 Consensus size: 32
22522348 NNNNNNNNNN
*
22522358 TACTCTTTAAAGAGTTTTTATTAGGATTCAAT
1 TACTCTTGAAAGAGTTTTTATTAGGATTCAAT
22522390 TACTCTTGAAAGAG-TTTTATTAGGATTCAAT
1 TACTCTTGAAAGAGTTTTTATTAGGATTCAAT
22522421 TACTCTTG
1 TACTCTTG
22522429 TAATTTGCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (32 bp):
TACTCTTGAAAGAGTTTTTATTAGGATTCAAT
Found at i:22525114 original size:17 final size:17
Alignment explanation
Indices: 22525070--22525106 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
22525060 GCCTGGTTCG
22525070 AGTATTCCGAATAGACC
1 AGTATTCCGAATAGACC
22525087 AGTATTCCGAATAGACC
1 AGTATTCCGAATAGACC
22525104 AGT
1 AGT
22525107 CTATCGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (17 bp):
AGTATTCCGAATAGACC
Found at i:22527992 original size:32 final size:31
Alignment explanation
Indices: 22527947--22528042 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
22527937 CTTAGATAAT
22527947 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
22527978 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
22528010 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
22528041 TT
1 TT
22528043 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:22528363 original size:12 final size:12
Alignment explanation
Indices: 22528346--22528371 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22528336 ATCTATCCTT
22528346 TTTGTTTATTTA
1 TTTGTTTATTTA
22528358 TTTGTTTATTTA
1 TTTGTTTATTTA
22528370 TT
1 TT
22528372 ATTTAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTGTTTATTTA
Found at i:22532326 original size:9 final size:9
Alignment explanation
Indices: 22532294--22532326 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
22532284 GAACAAATTG
22532294 AATCAC-GA
1 AATCACTGA
*
22532302 AATCACCGA
1 AATCACTGA
22532311 AATCACTGA
1 AATCACTGA
22532320 AATCACT
1 AATCACT
22532327 AGGGTGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.18
Consensus pattern (9 bp):
AATCACTGA
Found at i:22539577 original size:50 final size:50
Alignment explanation
Indices: 22539435--22539775 Score: 371
Period size: 50 Copynumber: 6.8 Consensus size: 50
22539425 GAATATAACA
* * * ** * * *
22539435 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * ** * **
22539484 TGCCAATGCCATATCCCAGATATGGTCGTACATGAGAGTTCTCATATAAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
22539534 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCACCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
22539584 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTTG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
22539634 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22539684 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
22539734 TGCCAACGCCATGTTCTAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22539776 TTACCCAATG
Statistics
Matches: 249, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 35 0.14
50 214 0.86
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22544904 original size:19 final size:19
Alignment explanation
Indices: 22544880--22544934 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
22544870 CCACTGGTAA
22544880 AAATTGAAGCAACGATAAT
1 AAATTGAAGCAACGATAAT
* *
22544899 AAATTGAAGCAAGGAAAAT
1 AAATTGAAGCAACGATAAT
**
22544918 ATGTTGAAGCAAC-ATAA
1 AAATTGAAGCAACGATAA
22544935 GTCCACACGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 3 0.10
19 27 0.90
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (19 bp):
AAATTGAAGCAACGATAAT
Found at i:22551706 original size:53 final size:53
Alignment explanation
Indices: 22551648--22551754 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
22551638 TTGAAATAAT
22551648 CTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCAATTTAATAAGCA
1 CTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCAATTTAATAAGCA
* *
22551701 CTCTTGTACATATCTCTATGTCAATTCAAACAATTAACTCGATTTAATAAGCA
1 CTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCAATTTAATAAGCA
22551754 C
1 C
22551755 ATAAAAGACT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (53 bp):
CTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCAATTTAATAAGCA
Found at i:22552728 original size:14 final size:14
Alignment explanation
Indices: 22552709--22552735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22552699 CATTTCTTGG
22552709 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
22552723 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
22552736 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:22556647 original size:30 final size:30
Alignment explanation
Indices: 22556590--22556651 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
22556580 GCTTTTTGAA
* *
22556590 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
22556620 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
22556650 AA
1 AA
22556652 AAATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:22562806 original size:41 final size:40
Alignment explanation
Indices: 22562746--22563151 Score: 416
Period size: 41 Copynumber: 9.9 Consensus size: 40
22562736 TCTTACCTTT
**
22562746 TGGGGCTTTAGCGGCGTTTTAAAAAAAGCGCCGCTAATGC
1 TGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * * *
22562786 TCAAGGCTTTAGCGGCGTTTTTGAAAATGCGCTGCTAATGG
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
22562827 TCGGGGATTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATGC
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * * * *
22562868 TCTGTGTTTTAGTGGCATTTTTTAAAAACCGCCGCTAATGC
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
22562909 TGGGTGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TGGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
22562950 TGGGGGCTTTAGAGGCGTTTTTGGAAAAGCGCCGCTAATGA
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
22562991 TAGGGTCTTTAGCGGAGTTTCTGGAAAAGCGCCGCTAATGC
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
22563032 TAGGGTCTTTAGCGGCATTTCTGGAAAAGCGCCGCTAATGT
1 T-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * *
22563073 TGGGTGCTTTAGCGGCGTTTCAGGAAAAGCGCCGCTAATGT
1 TGGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
22563114 TGGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TGGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
22563152 AAACATTTTA
Statistics
Matches: 313, Mismatches: 49, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
40 5 0.02
41 305 0.97
42 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (40 bp):
TGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:22563535 original size:14 final size:15
Alignment explanation
Indices: 22563498--22563546 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
22563488 ACTATTTAAA
*
22563498 GGTTTAGGGAGTATG
1 GGTTTAGGGATTATG
22563513 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
22563528 GG-TTAGGGATTAT-
1 GGTTTAGGGATTATG
22563541 GGTTTA
1 GGTTTA
22563547 AGGGTTGGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 2 0.06
14 14 0.44
15 16 0.50
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:22563550 original size:15 final size:14
Alignment explanation
Indices: 22563498--22563546 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
22563488 ACTATTTAAA
*
22563498 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
22563512 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
*
22563527 GGGTTAGGGATTAT
1 GGTTTAGGGATTAT
22563541 GGTTTA
1 GGTTTA
22563547 AGGGTTGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:22563570 original size:20 final size:21
Alignment explanation
Indices: 22563527--22563577 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22563517 TAGGGATTAT
*
22563527 GGGTTAGGGATTATGGTTTAA
1 GGGTTAGGGATTAAGGTTTAA
*
22563548 GGGTT-GGGATATAAGGTTTAG
1 GGGTTAGGGAT-TAAGGTTTAA
*
22563569 GGGTAAGGG
1 GGGTTAGGG
22563578 TTTAGGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
22 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (21 bp):
GGGTTAGGGATTAAGGTTTAA
Found at i:22563851 original size:15 final size:15
Alignment explanation
Indices: 22563801--22563847 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
22563791 TATTTTAAGG
*
22563801 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
22563816 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
22563831 -TTAGGGATTAT-GA
1 TTTAGGGATTATGGA
22563844 TTTA
1 TTTA
22563848 AGGGTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 14 0.47
15 14 0.47
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:22563904 original size:22 final size:20
Alignment explanation
Indices: 22563863--22563942 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 20
22563853 TCAAATTTAA
* *
22563863 GGTTTAGGGGTTATGTGTTAAG
1 GGTTTAGGGTTTA-GCGTT-AG
22563885 GGTTTAGGGTTTAGACGTTAG
1 GGTTTAGGGTTTAG-CGTTAG
* *
22563906 AGGTTAAGGGTTTAGGGATTTAG
1 -GGTTTAGGGTTTAGCG--TTAG
22563929 GGTTTAGGGATTTA
1 GGTTTAGGG-TTTA
22563943 AGGGTCAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 4 0.08
22 36 0.75
23 8 0.17
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (20 bp):
GGTTTAGGGTTTAGCGTTAG
Found at i:22563920 original size:15 final size:14
Alignment explanation
Indices: 22563879--22563947 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 14
22563869 GGGGTTATGT
22563879 GTTAAGGGTTTAGG
1 GTTAAGGGTTTAGG
* *
22563893 GTTTAGACG-TTAGAG
1 GTTAAG-GGTTTAG-G
22563908 GTTAAGGGTTTAGG
1 GTTAAGGGTTTAGG
*
22563922 GATTTAGGGTTTAGG
1 G-TTAAGGGTTTAGG
22563937 GATTTAAGGGT
1 G--TTAAGGGT
22563948 CAAGTTAGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.28
15 24 0.56
16 7 0.16
ACGTcount: A:0.23, C:0.01, G:0.39, T:0.36
Consensus pattern (14 bp):
GTTAAGGGTTTAGG
Found at i:22563929 original size:8 final size:7
Alignment explanation
Indices: 22563858--22563947 Score: 65
Period size: 7 Copynumber: 12.1 Consensus size: 7
22563848 AGGGTTCAAA
*
22563858 TTTAAGG
1 TTTAGGG
22563865 TTTAGGG
1 TTTAGGG
* *
22563872 GTTATGTG
1 TTTA-GGG
*
22563880 TTAAGGG
1 TTTAGGG
22563887 TTTAGGG
1 TTTAGGG
*
22563894 TTTAGACG
1 TTTAG-GG
22563902 -TTAGAGG
1 TTTAG-GG
*
22563909 TTAAGGG
1 TTTAGGG
22563916 TTTAGGG
1 TTTAGGG
22563923 ATTTAGGG
1 -TTTAGGG
22563931 TTTAGGG
1 TTTAGGG
22563938 ATTTAAGGG
1 -TTT-AGGG
22563947 T
1 T
22563948 CAAGTTAGGG
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
7 43 0.65
8 19 0.29
9 4 0.06
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.39
Consensus pattern (7 bp):
TTTAGGG
Found at i:22564398 original size:40 final size:40
Alignment explanation
Indices: 22564354--22564456 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 40
22564344 AAAATAAAAG
*
22564354 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCAA
** *
22564394 GCATTAGCGGCGCTTCAT-AAAAACGCCGCTATAGATTAA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCAA
* * *
22564433 GCTTTAGCAGTGCTATTTTAAAAA
1 GCATTAGCGGCGCT-TTTTAAAAA
22564457 TGCCACAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 30 0.58
40 18 0.35
41 4 0.08
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGATCAA
Found at i:22568741 original size:43 final size:42
Alignment explanation
Indices: 22568652--22568888 Score: 196
Period size: 43 Copynumber: 5.6 Consensus size: 42
22568642 ATTTTTTTAT
*
22568652 AAGT-ATG-TTTTTAGCGGCGTTTGTGAAAAAGTGTCGCTAA
1 AAGTCATGATTTTTAGCGGCGTTTGTGAAAAAGTGCCGCTAA
*
22568692 AAGTCAT-TTTTTATAGCGGCGTTTGT-AATAGAAGTGCCGCTAA
1 AAGTCATGATTTT-TAGCGGCGTTTGTGAA-A-AAGTGCCGCTAA
* * * *
22568735 AGGTCATGATTTTTAGCGGCTTTTGTGGCAAAAGCGCCGCTAA
1 AAGTCATGATTTTTAGCGGCGTTTGT-GAAAAAGTGCCGCTAA
* * * * * * *
22568778 AAGACCATGATCTTTAGCGGCATTTGTTGTAGAAGCGCCGTTAA
1 AAG-TCATGATTTTTAGCGGCGTTTG-TGAAAAAGTGCCGCTAA
* * *
22568822 AAGTCATGATCTTTAGTGGCGTTTGTGGCAAAAGTGCCGCT-A
1 AAGTCATGATTTTTAGCGGCGTTTGT-GAAAAAGTGCCGCTAA
* * *
22568864 AAGACCATGATCTTTAGCGGTGTTT
1 AAG-TCATGATTTTTAGCGGCGTTT
22568889 TTTCACATAA
Statistics
Matches: 162, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
40 4 0.02
41 8 0.05
42 19 0.12
43 89 0.55
44 40 0.25
45 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
AAGTCATGATTTTTAGCGGCGTTTGTGAAAAAGTGCCGCTAA
Found at i:22568811 original size:87 final size:86
Alignment explanation
Indices: 22568705--22568883 Score: 259
Period size: 87 Copynumber: 2.1 Consensus size: 86
22568695 TCATTTTTTA
* * * * *
22568705 TAGCGGCGTTTGTAATAGAAGTGCCGCTAAAGGTCATGATTTTTAGCGGCTTTTGTGGCAAAAGC
1 TAGCGGCATTTGTAATAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGC
22568770 GCCGCTAAAAGACCATGATCTT
66 GCCGCT-AAAGACCATGATCTT
** * * *
22568792 TAGCGGCATTTGTTGTAGAAGCGCCGTTAAAAGTCATGATCTTTAGTGGCGTTTGTGGCAAAAGT
1 TAGCGGCATTTGTAATAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGC
22568857 GCCGCTAAAGACCATGATCTT
66 GCCGCTAAAGACCATGATCTT
22568878 TAGCGG
1 TAGCGG
22568884 TGTTTTTTCA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 21 0.26
87 61 0.74
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (86 bp):
TAGCGGCATTTGTAATAGAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGC
GCCGCTAAAGACCATGATCTT
Found at i:22568904 original size:87 final size:87
Alignment explanation
Indices: 22568661--22568909 Score: 236
Period size: 87 Copynumber: 2.9 Consensus size: 87
22568651 TAAGTATGTT
* * * * * * * * *
22568661 TTTAGCGGCGTTTGT-GAAAAAGTGTCGCTAAAAG-TCAT-TTTTTATAGCGGCGTTTGTAATAG
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAAGACCATGATCTT-TAGCGGCATTTGTTACAG
** * *
22568723 AAGTGCCGCTAAAGGTCATGATT
65 AAACGCCGCTAAAAGTCATGATC
* **
22568746 TTTAGCGGCTTTTGTGGCAAAAGCGCCGCTAAAAGACCATGATCTTTAGCGGCATTTGTTGTAGA
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAAGACCATGATCTTTAGCGGCATTTGTTACAGA
* *
22568811 AGCGCCGTTAAAAGTCATGATC
66 AACGCCGCTAAAAGTCATGATC
* * ** * *
22568833 TTTAGTGGCGTTTGTGGCAAAAGTGCCGCT-AAAGACCATGATCTTTAGCGGTGTTTTTTCACAT
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAAGACCATGATCTTTAGCGGCATTTGTT-ACAG
22568897 AAACGCCGCTAAA
65 AAACGCCGCTAAA
22568910 GTTAGCGACG
Statistics
Matches: 135, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
85 14 0.10
86 42 0.31
87 76 0.56
88 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAAGACCATGATCTTTAGCGGCATTTGTTACAGA
AACGCCGCTAAAAGTCATGATC
Found at i:22572749 original size:17 final size:17
Alignment explanation
Indices: 22572727--22572766 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
22572717 TAAGTGCACT
*
22572727 ATAATTATTTTTTAAAA
1 ATAATTATTTTTCAAAA
*
22572744 ATAATTATTTTTCAATA
1 ATAATTATTTTTCAAAA
22572761 ATAATT
1 ATAATT
22572767 TTATCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTATTTTTCAAAA
Found at i:22573030 original size:30 final size:30
Alignment explanation
Indices: 22572994--22573053 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22572984 AGGGCTTCAA
22572994 AGTAGTGCTTTAATTGTTGGCCATTGACTT
1 AGTAGTGCTTTAATTGTTGGCCATTGACTT
22573024 AGTAGTGCTTTAATTGTTGGCCATTGACTT
1 AGTAGTGCTTTAATTGTTGGCCATTGACTT
22573054 TGAAATTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (30 bp):
AGTAGTGCTTTAATTGTTGGCCATTGACTT
Found at i:22578483 original size:27 final size:27
Alignment explanation
Indices: 22578452--22578505 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
22578442 AATTAAAAAA
22578452 AAATTAACTCTTAATTAGAAAATTTCT
1 AAATTAACTCTTAATTAGAAAATTTCT
*
22578479 AAATTAAGTCTTAATTAGAAAATTTCT
1 AAATTAACTCTTAATTAGAAAATTTCT
22578506 TCTTAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (27 bp):
AAATTAACTCTTAATTAGAAAATTTCT
Found at i:22610371 original size:20 final size:20
Alignment explanation
Indices: 22610346--22610383 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22610336 CTTTCTTCTT
22610346 TACTTACTCT-CTTACTTGTA
1 TACTTACT-TGCTTACTTGTA
22610366 TACTTACTTGCTTACTTG
1 TACTTACTTGCTTACTTG
22610384 AATAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.18, C:0.24, G:0.08, T:0.50
Consensus pattern (20 bp):
TACTTACTTGCTTACTTGTA
Found at i:22610694 original size:50 final size:50
Alignment explanation
Indices: 22610635--22610821 Score: 250
Period size: 50 Copynumber: 3.7 Consensus size: 50
22610625 TTTTTTGTAC
* * ** *
22610635 TGCCAATGCCATTTCCCAGATATGGTCTTACATGGGAGTTCTCA-CATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TCGG
* * **
22610685 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
22610735 TGCCAATGCTATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22610785 TGCCAATGCTATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
22610822 TCTCATTCCC
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
50 121 0.99
51 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22622301 original size:27 final size:27
Alignment explanation
Indices: 22622237--22622301 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
22622227 CCATTTATAC
*
22622237 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACTGAAATACCCTCATAGGG
*
22622264 TAAAATAACTGAAATA-CCTCTATAGGG
1 TAAAATGACTGAAATACCCTC-ATAGGG
22622291 TAAAATGACTG
1 TAAAATGACTG
22622302 TTATATCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCATAGGG
Found at i:22622546 original size:26 final size:26
Alignment explanation
Indices: 22622510--22622560 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22622500 TGCCACATAT
*
22622510 ACTATTACTGGCAGCTTTGCTGCGAA
1 ACTATTACTGGCAGCTTTACTGCGAA
*
22622536 ACTATTACTGGCAGTTTTACTGCGA
1 ACTATTACTGGCAGCTTTACTGCGA
22622561 TATTGGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
ACTATTACTGGCAGCTTTACTGCGAA
Found at i:22631710 original size:33 final size:32
Alignment explanation
Indices: 22631665--22631737 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
22631655 TATACAAACG
* * *
22631665 AATAATATAATAGTAATAGTAAA-AATATTGAT
1 AATAATAAAATAGTAATA-AAAATAATAATGAT
*
22631697 AATAATGAAAATAGTAGTAAAAATAATAATGAT
1 AATAAT-AAAATAGTAATAAAAATAATAATGAT
22631730 AATAATAA
1 AATAATAA
22631738 TTAAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 11 0.31
33 24 0.69
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (32 bp):
AATAATAAAATAGTAATAAAAATAATAATGAT
Found at i:22631733 original size:12 final size:12
Alignment explanation
Indices: 22631695--22631745 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
22631685 AAAAATATTG
22631695 ATAATAATGAAA
1 ATAATAATGAAA
* * *
22631707 ATAGTAGTAAAA
1 ATAATAATGAAA
*
22631719 ATAATAATGATA
1 ATAATAATGAAA
*
22631731 ATAATAATTAAA
1 ATAATAATGAAA
22631743 ATA
1 ATA
22631746 TTAAACTAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (12 bp):
ATAATAATGAAA
Found at i:22631743 original size:24 final size:24
Alignment explanation
Indices: 22631695--22631745 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22631685 AAAAATATTG
* *
22631695 ATAATAATGAAAATAGTAGTAAAA
1 ATAATAATGAAAATAATAATAAAA
* *
22631719 ATAATAATGATAATAATAATTAAA
1 ATAATAATGAAAATAATAATAAAA
22631743 ATA
1 ATA
22631746 TTAAACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
ATAATAATGAAAATAATAATAAAA
Found at i:22634570 original size:51 final size:50
Alignment explanation
Indices: 22634439--22634623 Score: 255
Period size: 51 Copynumber: 3.7 Consensus size: 50
22634429 TGAAAGTGAT
* * *
22634439 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTA
* * *
22634489 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTA
* * *
22634540 GATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTA
22634590 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
22634624 TGTGAGCCAG
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
50 42 0.35
51 77 0.65
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTA
Found at i:22640747 original size:51 final size:51
Alignment explanation
Indices: 22640622--22640802 Score: 206
Period size: 51 Copynumber: 3.6 Consensus size: 51
22640612 GATGGTCAAT
* * ** * * *
22640622 TGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGA-A-TGATGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTGACGATCACA
* *
22640671 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TGACGATCACA
* * * * *
22640722 TGTGTTGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGACGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTGACGATCACA
22640773 TGTGTAGTACTATGTGCAGGCTACTATGCG
1 TGTGTAGTACTATGTGCAGGCTACTATGCG
22640803 AACCAGTATC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 33 0.30
50 2 0.02
51 73 0.67
52 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTGACGATCACA
Found at i:22650596 original size:18 final size:19
Alignment explanation
Indices: 22650573--22650608 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22650563 CATAAACACA
*
22650573 ATAAACTTGAATA-TAAAG
1 ATAAACATGAATAGTAAAG
22650591 ATAAACATGAATAGTAAA
1 ATAAACATGAATAGTAAA
22650609 TCAAGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (19 bp):
ATAAACATGAATAGTAAAG
Found at i:22655342 original size:18 final size:21
Alignment explanation
Indices: 22655306--22655346 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22655296 GCGTGAAAGC
22655306 GAAGAAGAATGAGAGGATGAA
1 GAAGAAGAATGAGAGGATGAA
22655327 GAAGAAGAA-G-GA-GATGAA
1 GAAGAAGAATGAGAGGATGAA
22655345 GA
1 GA
22655347 GATGGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 1 0.05
21 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (21 bp):
GAAGAAGAATGAGAGGATGAA
Found at i:22657625 original size:24 final size:24
Alignment explanation
Indices: 22657579--22657625 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
22657569 TTTGTATAAT
* *
22657579 TTTTTCTTTAGTTTTAGATTTTAG
1 TTTTTCTTTACTTTTAGAGTTTAG
* *
22657603 TTTTTCTTTTCTTTTAGGGTTTA
1 TTTTTCTTTACTTTTAGAGTTTA
22657626 CACTTTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.13, T:0.68
Consensus pattern (24 bp):
TTTTTCTTTACTTTTAGAGTTTAG
Found at i:22661808 original size:63 final size:63
Alignment explanation
Indices: 22661617--22661820 Score: 239
Period size: 63 Copynumber: 3.2 Consensus size: 63
22661607 CAATACTATA
* * * *
22661617 TGGCTTGGCCACAATGTTATT-AAGTGGTTTGACCACAATGTGTAGCTTGTTTGCAATATTGAA
1 TGGCTTGGCCACAACGTTATTCAA-TGGTTTGACCACAATGTGTAGCTTGTATGCGATATTGAG
* * * * *
22661680 TGGCTTGGTCATAACATTATTCAGTGGCTTGACCACAATGTGTAGCTTGTATGCGATATTGAG
1 TGGCTTGGCCACAACGTTATTCAATGGTTTGACCACAATGTGTAGCTTGTATGCGATATTGAG
* * * * * *
22661743 TGGCTTGGCCACAACGTTATTCAATGGTTTTACCACAACGAGTAGCTTGTCTGCGGTATTCAG
1 TGGCTTGGCCACAACGTTATTCAATGGTTTGACCACAATGTGTAGCTTGTATGCGATATTGAG
**
22661806 TGGCTTAACCACAAC
1 TGGCTTGGCCACAAC
22661821 ATTCAGCTTG
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
63 117 0.99
64 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (63 bp):
TGGCTTGGCCACAACGTTATTCAATGGTTTGACCACAATGTGTAGCTTGTATGCGATATTGAG
Found at i:22661829 original size:39 final size:39
Alignment explanation
Indices: 22661760--22661860 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 39
22661750 GCCACAACGT
* * * * **
22661760 TATTCAATGGTTTTACCACAACGAGTAGCTTGTCTGCGG
1 TATTCAGTGGCTTAACCACAACGAGTAGCTTGACTGCAA
* *
22661799 TATTCAGTGGCTTAACCACAAC-ATTCAGCTTGACTGTAA
1 TATTCAGTGGCTTAACCACAACGAGT-AGCTTGACTGCAA
* *
22661838 TATACAGTGGCTTAGCCACAACG
1 TATTCAGTGGCTTAACCACAACG
22661861 TGGAGTGTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.04
39 48 0.96
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (39 bp):
TATTCAGTGGCTTAACCACAACGAGTAGCTTGACTGCAA
Found at i:22664871 original size:13 final size:13
Alignment explanation
Indices: 22664853--22664891 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
22664843 AGGTAAGTTC
22664853 GTGTAATTAAATT
1 GTGTAATTAAATT
* *
22664866 GTGTAATTATATG
1 GTGTAATTAAATT
*
22664879 GTTTAATTAAATT
1 GTGTAATTAAATT
22664892 ATATGTTTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (13 bp):
GTGTAATTAAATT
Found at i:22665066 original size:25 final size:25
Alignment explanation
Indices: 22665037--22665099 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
22665027 TTAGCTTGAG
22665037 AGAGCTTACCGATATT-TAGCTCGCA
1 AGAGCTTACCGAT-TTATAGCTCGCA
* *
22665062 TGAGCTTACCG-TTTATAGCTCGTA
1 AGAGCTTACCGATTTATAGCTCGCA
*
22665086 AGAGCATACCGATT
1 AGAGCTTACCGATT
22665100 CAGAGCTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.56
25 12 0.38
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (25 bp):
AGAGCTTACCGATTTATAGCTCGCA
Found at i:22672431 original size:33 final size:33
Alignment explanation
Indices: 22672388--22672471 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
22672378 TTTATATAAT
* * *
22672388 TCTGATTGAATTGCGTGGAATTTTTTGAAATGA
1 TCTGACTGAATTGCATGGAATTGTTTGAAATGA
22672421 TCTGACTGAATTGCATGGAATTGTTTGAAATG-
1 TCTGACTGAATTGCATGGAATTGTTTGAAATGA
*
22672453 TCTTTGATTGAATTGCATG
1 TC--TGACTGAATTGCATG
22672472 TAGGGTAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
32 2 0.04
33 29 0.64
34 14 0.31
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (33 bp):
TCTGACTGAATTGCATGGAATTGTTTGAAATGA
Found at i:22673327 original size:43 final size:43
Alignment explanation
Indices: 22673266--22673352 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
22673256 AATGTAGAGA
22673266 TGTTTGATGAGTTGGTTGAGAAATCCAAAGTAGTTGAGGAAAC
1 TGTTTGATGAGTTGGTTGAGAAATCCAAAGTAGTTGAGGAAAC
22673309 TGTTTGATGAGTTGGTTGAGAAATCCAAAGTAGTTGAGGAAAC
1 TGTTTGATGAGTTGGTTGAGAAATCCAAAGTAGTTGAGGAAAC
22673352 T
1 T
22673353 TTGGCTGAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (43 bp):
TGTTTGATGAGTTGGTTGAGAAATCCAAAGTAGTTGAGGAAAC
Found at i:22703290 original size:32 final size:32
Alignment explanation
Indices: 22703254--22703320 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
22703244 TATTTTTCAA
22703254 TTATCTTTGACATGATTAGAAGGTTTCTAAAC
1 TTATCTTTGACATGATTAGAAGGTTTCTAAAC
22703286 TTATCTTTGACATGATTAGAAGGTTTCTAAAC
1 TTATCTTTGACATGATTAGAAGGTTTCTAAAC
22703318 TTA
1 TTA
22703321 CTCTAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (32 bp):
TTATCTTTGACATGATTAGAAGGTTTCTAAAC
Found at i:22710080 original size:85 final size:85
Alignment explanation
Indices: 22709937--22710108 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
22709927 CCATTTTCCC
22709937 TTCTATTAATATGAAATTGATTCAAATAGCAAAATTAAAGTATTTGAGGTAAACCAATATGAAGA
1 TTCTATTAATATGAAATTGATTCAAATAGCAAAATTAAAGTATTTGAGGTAAACCAATATGAAGA
22710002 AATTGAAGGTGAAAAGGGTT
66 AATTGAAGGTGAAAAGGGTT
22710022 TTCTATTAATATGAAATTGATTCAAATAGCAAAATTAAAGTATTTGAGGTAAACCAATATGAAGA
1 TTCTATTAATATGAAATTGATTCAAATAGCAAAATTAAAGTATTTGAGGTAAACCAATATGAAGA
22710087 AATTGAAGGTGAAAAGGGTT
66 AATTGAAGGTGAAAAGGGTT
22710107 TT
1 TT
22710109 GACAGAATTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (85 bp):
TTCTATTAATATGAAATTGATTCAAATAGCAAAATTAAAGTATTTGAGGTAAACCAATATGAAGA
AATTGAAGGTGAAAAGGGTT
Found at i:22719201 original size:2 final size:2
Alignment explanation
Indices: 22719152--22719184 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22719142 TGTATTCTGC
22719152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22719185 TTCAATTATC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22727739 original size:48 final size:48
Alignment explanation
Indices: 22727668--22727762 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
22727658 TTCTTTGCTT
22727668 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
* *
22727716 AAAAACGCCTAAGTCAGCCTAACTTGCAGTGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
22727763 AATTCCCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:22728007 original size:19 final size:19
Alignment explanation
Indices: 22727983--22728036 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
22727973 AAAGCTGTAT
22727983 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* * *
22728002 ACAATTAGAA-GCT-ATAT
1 ACAATTAGAACTCTAAGAC
22728019 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
22728037 TTACATAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 12 0.43
18 4 0.14
19 12 0.43
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:22728014 original size:36 final size:36
Alignment explanation
Indices: 22727966--22728036 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
22727956 ATCAAAGGCT
*
22727966 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTATATACAATTAGAACTCTAAGAC
*
22728002 ACAATTAGAAGCTATATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTATATACAATTAGAACTCTAAGA
22728037 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTATATACAATTAGAACTCTAAGAC
Found at i:22728024 original size:17 final size:17
Alignment explanation
Indices: 22727965--22728028 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
22727955 CATCAAAGGC
* *
22727965 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTATA
* *
22727982 TACAATTAGAACTCTAAGA
1 TACAATTAGAA-GCT-ATA
*
22728001 CACAATTAGAAGCTATA
1 TACAATTAGAAGCTATA
22728018 TACAATTAGAA
1 TACAATTAGAA
22728029 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 22 0.59
18 4 0.11
19 11 0.30
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTATA
Found at i:22732875 original size:48 final size:48
Alignment explanation
Indices: 22732804--22732897 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
22732794 TTCTTTGCTT
*
22732804 AAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTTAACAGC
1 AAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
* * *
22732852 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACA
1 AAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACA
22732898 AAATTTCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (48 bp):
AAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:22733120 original size:17 final size:17
Alignment explanation
Indices: 22733098--22733142 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
22733088 GTACATCAAA
22733098 GGCTACAATTAAAAGCT
1 GGCTACAATTAAAAGCT
22733115 GGCTACAATTAAAAGCT
1 GGCTACAATTAAAAGCT
**
22733132 GTATACAATTA
1 GGCTACAATTA
22733143 GAACTCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (17 bp):
GGCTACAATTAAAAGCT
Found at i:22742501 original size:51 final size:50
Alignment explanation
Indices: 22742439--22742578 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
22742429 ATACCCGGTT
*
22742439 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC--TATCATTCCGATA
* ** *
22742490 CACGTAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGATA
* * *
22742540 CACATAGTAGCGTGCATATAGTACTACACACGTGACCTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTA
22742579 GCAACTTCAC
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 4 0.05
50 39 0.49
51 36 0.46
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGATA
Found at i:22753087 original size:41 final size:41
Alignment explanation
Indices: 22752994--22753304 Score: 275
Period size: 41 Copynumber: 7.4 Consensus size: 41
22752984 GTGGAGTCAA
* ** * * *
22752994 CACTTAGCAACCACCTCATGTTCAAAGGATCCTGGTGGAATTAG
1 CACTTAGCAACCACCTTATAATC-AATGATAC-GG-GGAATCAG
*
22753038 CACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAG
1 CACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAG
* * * * * *
22753079 CACATAGCAACCTCTTTCACAATCAAGGATACGGTGAAATCAG
1 CACTTAGCAACCACCTT-ATAATCAATGATACGG-GGAATCAG
*
22753122 CACTTAGCGACCACCTTATAATCAATGATACGGGGAATCAG
1 CACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAG
* * * ** * *
22753163 CACATAGCAACCTCTTTCCCAACCAAGGATACGGTGGAATCAG
1 CACTTAGCAACCACCTT-ATAATCAATGATACGG-GGAATCAG
* * *
22753206 CACTTAGCAACCACCTTATACTCAATTATACGGGGAATCCG
1 CACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAG
* * * * *
22753247 CACATAGCAACC-CCTTTTTGATCAATGATTCGGGGAATCTG
1 CACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAG
22753288 CACTTAGCAACC-CCTTA
1 CACTTAGCAACCACCTTA
22753305 CATTCAAAAA
Statistics
Matches: 214, Mismatches: 48, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
40 4 0.02
41 92 0.43
42 51 0.24
43 47 0.22
44 20 0.09
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
CACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAG
Found at i:22753140 original size:84 final size:84
Alignment explanation
Indices: 22753018--22753263 Score: 384
Period size: 84 Copynumber: 2.9 Consensus size: 84
22753008 CTCATGTTCA
* * *
22753018 AAGGATCCTGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACA
1 AAGGATAC-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
*
22753083 TAGCAACCTCTTTCACAATC
65 TAGCAACCTCTTTCACAACC
* *
22753103 AAGGATACGGTGAAATCAGCACTTAGCGACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
*
22753168 AGCAACCTCTTTCCCAACC
66 AGCAACCTCTTTCACAACC
* * *
22753187 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATACTCAATTATACGGGGAATCCGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
*
22753252 AGCAACCCCTTT
66 AGCAACCTCTTT
22753264 TTGATCAATG
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 141 0.95
85 7 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (84 bp):
AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
AGCAACCTCTTTCACAACC
Found at i:22756645 original size:32 final size:32
Alignment explanation
Indices: 22756599--22756681 Score: 130
Period size: 32 Copynumber: 2.6 Consensus size: 32
22756589 GCATAAATAT
*
22756599 GAAATTTCCATTTAATTCAAACCATATCACTA
1 GAAACTTCCATTTAATTCAAACCATATCACTA
* *
22756631 GAAACTTCCATTTAATTGAAATCATATCACTA
1 GAAACTTCCATTTAATTCAAACCATATCACTA
*
22756663 GAAACTTCCATTAAATTCA
1 GAAACTTCCATTTAATTCA
22756682 TGTACACTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (32 bp):
GAAACTTCCATTTAATTCAAACCATATCACTA
Found at i:22769841 original size:109 final size:111
Alignment explanation
Indices: 22769700--22769927 Score: 379
Period size: 111 Copynumber: 2.1 Consensus size: 111
22769690 GTGTTGTGAT
* *
22769700 TATCTTCACTTTATAATATTATAAGGTAAGTA-T-TTACTCTTTAAAGGATGATCAGTGTATCTG
1 TATCTTTACTTTATAATATTATAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTG
22769763 TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTCTG
66 TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTCTG
* *
22769809 TATCTTTACTTTATAATATTATAAGGTAAGTATTCTTACTCTTTAAATAATGATCAGTGTATGTG
1 TATCTTTACTTTATAATATTATAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTG
* *
22769874 TGTGTGAATAATGATTGTTTGTCCAAAGTTATTAGTCTGAGTTCTG
66 TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTCTG
*
22769920 TATGTTTA
1 TATCTTTA
22769928 GGAAAAGAAG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
109 31 0.28
110 1 0.01
111 78 0.71
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (111 bp):
TATCTTTACTTTATAATATTATAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTG
TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTCTG
Found at i:22775030 original size:48 final size:48
Alignment explanation
Indices: 22774965--22775146 Score: 204
Period size: 48 Copynumber: 3.8 Consensus size: 48
22774955 CGGTGGCTTA
* * * * *
22774965 CACACAGTTCGTACCACCTTTGTGTAATAACAGATTCTTGGTGACCTG
1 CACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATTGGTGACCTG
* * * *
22775013 CACATAGTCCGTGCCACCCTTGTATCTTAACA-AGTTATTGGTGGCCTG
1 CACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTATTGGTGACCTG
* * * * * * *
22775061 CACACAATCCATGCCACCCTTGTGTCACAACAGAATATCGGTGTCCTA
1 CACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATTGGTGACCTG
22775109 CACACAGTCCGTGCCACCCTTGTGTCATAACAGATTAT
1 CACACAGTCCGTGCCACCCTTGTGTCATAACAGATTAT
22775147 CGATAAGCAT
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 107 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CACACAGTCCGTGCCACCCTTGTGTCATAACAGATTATTGGTGACCTG
Found at i:22782619 original size:48 final size:48
Alignment explanation
Indices: 22782546--22782737 Score: 224
Period size: 48 Copynumber: 4.0 Consensus size: 48
22782536 AGATTTCTCA
* * * * **
22782546 GTGGCCTACACACAGTTCGTACCACCTTTGTGTAATAACAGATTCCCG
1 GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCATAACAGATTATCG
* * * * * *
22782594 GTGGCCTGGACATAGTCCGTGCCACCCTTGTATCTTAACA-AGTTATTG
1 GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCATAACAGA-TTATCG
* *
22782642 GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCACAACAGAATATCG
1 GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCATAACAGATTATCG
* *
22782690 GTGGCATGCACACAGTTCGTGCCACCCTCGTGTCATAACAGATTATCG
1 GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCATAACAGATTATCG
22782738 ATACGCATAG
Statistics
Matches: 118, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 116 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (48 bp):
GTGGCCTGCACACAGTTCGTGCCACCCTTGTGTCATAACAGATTATCG
Found at i:22788124 original size:16 final size:16
Alignment explanation
Indices: 22788103--22788133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22788093 TTCACTATTA
*
22788103 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
22788119 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
22788134 GCATACATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:22790589 original size:20 final size:20
Alignment explanation
Indices: 22790564--22790614 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
22790554 AGGGACATCA
*
22790564 AAGTGCAAATAGGGGAACAG
1 AAGTGCAAACAGGGGAACAG
* * *
22790584 ATGTGCCAACAGGGGAACCG
1 AAGTGCAAACAGGGGAACAG
22790604 AAGTGCAAACA
1 AAGTGCAAACA
22790615 AGGACACCGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.31, T:0.10
Consensus pattern (20 bp):
AAGTGCAAACAGGGGAACAG
Found at i:22792758 original size:54 final size:54
Alignment explanation
Indices: 22792659--22792840 Score: 179
Period size: 54 Copynumber: 3.4 Consensus size: 54
22792649 CCCTTGATGT
* * * *
22792659 GTAAAATTATCGAAA-ACCCTCAAAGGGTAAAATTACTGAAATACCCTCAAAAG
1 GTAAAATAACCGAAATACCCCCGAAGGGTAAAATTACTGAAATACCCTCAAAAG
* * * **
22792712 GTAAAATCACCGAAATACCCCCGATGGGTAAAATTACTGAAATACCCTCGATGG
1 GTAAAATAACCGAAATACCCCCGAAGGGTAAAATTACTGAAATACCCTCAAAAG
* * * * ** *
22792766 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCC-CTATAAG
1 GTAAAATAACCGAAATACCCCCGAAGGGTAAAATTACTGAAATACCCTC-AAAAG
* *
22792820 GTAAAATAACTGAAATGCCCC
1 GTAAAATAACCGAAATACCCC
22792841 TAAAGAGTAG
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
53 14 0.14
54 89 0.86
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.20
Consensus pattern (54 bp):
GTAAAATAACCGAAATACCCCCGAAGGGTAAAATTACTGAAATACCCTCAAAAG
Found at i:22792781 original size:81 final size:80
Alignment explanation
Indices: 22792635--22792835 Score: 230
Period size: 81 Copynumber: 2.5 Consensus size: 80
22792625 CTTGGGCCAA
** *
22792635 AAAATACCGAAATACCCTTGATGTGTAAAATTA-TCGAAA-ACCCTCAAAGGGTAAAATTACTGA
1 AAAATACCGAAATACCCCCGATGGGTAAAATTACT-GAAATACCCTCAAAGGGTAAAATTACTGA
22792698 AATACCCTCAAAAGGT
65 AATACCCTCAAAAGGT
* *
22792714 AAAATCACCGAAATACCCCCGATGGGTAAAATTACTGAAATACCCTCGATGGGTAAAATTA-TCG
1 AAAAT-ACCGAAATACCCCCGATGGGTAAAATTACTGAAATACCCTCAAAGGGTAAAATTACT-G
* *
22792778 AAATACCCTCGAAGGGT
64 AAATACCCTCAAAAGGT
* * * *
22792795 AAAATGACCAAAATA-CCCCTATAAGGTAAAATAACTGAAAT
1 AAAAT-ACCGAAATACCCCCGAT-GGGTAAAATTACTGAAAT
22792836 GCCCCTAAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
79 5 0.05
80 36 0.34
81 64 0.61
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (80 bp):
AAAATACCGAAATACCCCCGATGGGTAAAATTACTGAAATACCCTCAAAGGGTAAAATTACTGAA
ATACCCTCAAAAGGT
Found at i:22792808 original size:27 final size:27
Alignment explanation
Indices: 22792634--22792812 Score: 198
Period size: 27 Copynumber: 6.7 Consensus size: 27
22792624 GCTTGGGCCA
* * * *
22792634 AAAAATACCGAAATACCCTTGATGTGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
22792661 AAAATTATCGAAA-ACCCTCAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
22792687 AAAATTACTGAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
22792714 AAAATCACCGAAATACCCCCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
22792741 AAAATTACTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
22792768 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
22792795 AAAATGACCAAAATACCC
1 AAAATTACCGAAATACCC
22792813 CTATAAGGTA
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 20 0.16
27 107 0.84
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:22792835 original size:27 final size:27
Alignment explanation
Indices: 22792682--22792840 Score: 139
Period size: 27 Copynumber: 5.9 Consensus size: 27
22792672 AAACCCTCAA
*
22792682 AGGGTAAAATTACTGAAATACCCTC-AA
1 AGGGTAAAATTACTGAAATACCC-CGAT
* * *
22792709 AAGGTAAAATCACCGAAATACCCCCGAT
1 AGGGTAAAATTACTGAAATA-CCCCGAT
22792737 -GGGTAAAATTACTGAAATACCCTCGAT
1 AGGGTAAAATTACTGAAATACCC-CGAT
22792764 -GGGTAAAATTA-TCGAAATACCCTCGA-
1 AGGGTAAAATTACT-GAAATACCC-CGAT
* ** *
22792790 AGGGTAAAATGACCAAAATACCCCTAT
1 AGGGTAAAATTACTGAAATACCCCGAT
* * *
22792817 AAGGTAAAATAACTGAAATGCCCC
1 AGGGTAAAATTACTGAAATACCCC
22792841 TAAAGAGTAG
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.06
27 99 0.91
28 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATTACTGAAATACCCCGAT
Found at i:22797165 original size:27 final size:27
Alignment explanation
Indices: 22797135--22797256 Score: 122
Period size: 27 Copynumber: 4.5 Consensus size: 27
22797125 CTTGGGCCAA
* * *
22797135 AAAATTACCGAAATAACCTTGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
22797162 AAAATTATCGAAATACCCTCAAAGTGT
1 AAAATTACCGAAATACCCTCGAAGGGT
*
22797189 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
22797216 AAAATGACCAAAATACCC-CTGTAA-GGT
1 AAAATTACCGAAATACCCTC-G-AAGGGT
*
22797243 AAAATAACCGAAAT
1 AAAATTACCGAAAT
22797257 GCCCCTTGAG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.96
28 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:22797245 original size:54 final size:54
Alignment explanation
Indices: 22797135--22797256 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 54
22797125 CTTGGGCCAA
* * * * *
22797135 AAAATTACCGAAATAACCTTGATGGGTAAAATTATCGAAATACCCTCAAAGTGT
1 AAAATTACCGAAATAACCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGTGT
* * **
22797189 AAAATTATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTGTAAG-GT
1 AAAATTACCGAAATAACCTCGAAGGGTAAAATGACCAAAATA-CCCTCAAAGTGT
*
22797243 AAAATAACCGAAAT
1 AAAATTACCGAAAT
22797257 GCCCCTTGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 49 0.88
55 7 0.12
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (54 bp):
AAAATTACCGAAATAACCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGTGT
Found at i:22797270 original size:27 final size:27
Alignment explanation
Indices: 22797211--22797270 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
22797201 ATACCCTCGA
*
22797211 AGGGTAAAATGACCAAAATACCCCTGT
1 AGGGTAAAATAACCAAAATACCCCTGT
* * *
22797238 AAGGTAAAATAACCGAAATGCCCCT-T
1 AGGGTAAAATAACCAAAATACCCCTGT
22797264 GAGGGTA
1 -AGGGTA
22797271 GATGACCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
AGGGTAAAATAACCAAAATACCCCTGT
Found at i:22803183 original size:13 final size:14
Alignment explanation
Indices: 22803157--22803185 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22803147 CATTAAATTA
22803157 ATCAAAAATCACTT
1 ATCAAAAATCACTT
22803171 ATCAAAAAT-ACTT
1 ATCAAAAATCACTT
22803184 AT
1 AT
22803186 AAATAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (14 bp):
ATCAAAAATCACTT
Found at i:22805446 original size:43 final size:42
Alignment explanation
Indices: 22805387--22805536 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 42
22805377 CCAGACATGG
* ** *
22805387 TCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAGTTATAT
1 TCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCTAT-T
*
22805431 TCTTACACGAGATCTCAAATCGATGCCAATAGCCCAGCTATT
1 TCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATT
* * *
22805473 GTCTTACACGAAATCTCAAATCGATGTCAATAGCCTAGCTATGG
1 -TCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTAT-T
22805517 TCTTACACGAAATCTCAAAT
1 TCTTACACGAAATCTCAAAT
22805537 TGATATTGGA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 87 0.92
44 7 0.07
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
TCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATT
Found at i:22807600 original size:21 final size:23
Alignment explanation
Indices: 22807576--22807617 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
22807566 TTCTTTTCTT
22807576 TCTGTTT-CTTTTCT-TTTTCAC
1 TCTGTTTGCTTTTCTATTTTCAC
22807597 TCTGTTTGCTTTTCTATTTTC
1 TCTGTTTGCTTTTCTATTTTC
22807618 TCGAGAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.05, C:0.21, G:0.07, T:0.67
Consensus pattern (23 bp):
TCTGTTTGCTTTTCTATTTTCAC
Found at i:22813196 original size:18 final size:18
Alignment explanation
Indices: 22813161--22813206 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
22813151 GTTTTATGTG
*
22813161 TGTTTATTTTAGTTTTTA
1 TGTTTATTTTAGTGTTTA
22813179 TGTTTATTTGT-GTGTTTA
1 TGTTTATTT-TAGTGTTTA
22813197 T-TTTAGTTTT
1 TGTTTA-TTTT
22813207 TATGCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 19 0.76
19 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (18 bp):
TGTTTATTTTAGTGTTTA
Found at i:22823028 original size:20 final size:20
Alignment explanation
Indices: 22823003--22823066 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
22822993 TCCATGCGGT
22823003 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
*
22823023 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* * *
22823043 TTAGCTCACACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
22823063 TCAG
1 TCAG
22823067 ATCATTGAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:22832000 original size:21 final size:22
Alignment explanation
Indices: 22831960--22832004 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
22831950 ATTATACTTG
* *
22831960 TTTATTATTGTTATTTATTATT
1 TTTAATATTGTTAATTATTATT
22831982 TTTAATATTG-TAATTATTATT
1 TTTAATATTGTTAATTATTATT
22832003 TT
1 TT
22832005 CGTGTACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTAATATTGTTAATTATTATT
Found at i:22833488 original size:16 final size:16
Alignment explanation
Indices: 22833454--22833490 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
22833444 ATTATAGATT
*
22833454 TATTCCATTACAGCCC
1 TATTCCATTACAACCC
*
22833470 TATTCCATTACAACTC
1 TATTCCATTACAACCC
22833486 TATTC
1 TATTC
22833491 TTTTGTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.32, G:0.03, T:0.38
Consensus pattern (16 bp):
TATTCCATTACAACCC
Found at i:22836409 original size:86 final size:85
Alignment explanation
Indices: 22836312--22836483 Score: 226
Period size: 86 Copynumber: 2.0 Consensus size: 85
22836302 TTAATACAAT
* *
22836312 TAACAATTAATAATTTGATGTAATTTG-ATAATTTTACTAATAATTAAT-ACAATT-A-ACAATT
1 TAACAATTAATAA-TT-A-ATAATTTGAATAATTTGA-TAAT-ATTAATAACAATTAATACAATT
22836373 AATAATTTTACTAACAAAATGTTAG
61 AATAATTTTACTAACAAAATGTTAG
* *
22836398 TAACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATA
1 TAACAATTAATAATTAATAATTTGA-ATAATTTGATAATATTAATAACAATTAATACAATTAATA
22836463 ATTTTACTAACAAAATGTTAG
65 ATTTTACTAACAAAATGTTAG
22836484 ATTTTACAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
83 11 0.14
84 11 0.14
85 11 0.14
86 44 0.57
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (85 bp):
TAACAATTAATAATTAATAATTTGAATAATTTGATAATATTAATAACAATTAATACAATTAATAA
TTTTACTAACAAAATGTTAG
Done.