Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 110 of 190
Found at i:33451364 original size:33 final size:33
Alignment explanation
Indices: 33451316--33451401 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
33451306 CTTTATAAAT
*
33451316 ATATTTATACATATTTT-TACATAT-ATATATGTAC
1 ATATTT-TACATATTTTATA-AT-TCATACATGTAC
*
33451350 ATATTTTATATATTTTATAATTCATACATGTAC
1 ATATTTTACATATTTTATAATTCATACATGTAC
* *
33451383 ATATTTTTCATACTTTATA
1 ATATTTTACATATTTTATA
33451402 GCTTAAAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 1 0.02
33 36 0.80
34 8 0.18
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (33 bp):
ATATTTTACATATTTTATAATTCATACATGTAC
Found at i:33460551 original size:15 final size:15
Alignment explanation
Indices: 33460519--33460574 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
33460509 AATTCAGTAT
* **
33460519 TTAAGTTTTCAATGC
1 TTAATTTTTCAACAC
33460534 TTAATTTTTCAACAC
1 TTAATTTTTCAACAC
* * *
33460549 TTATTTTTTCAGCAT
1 TTAATTTTTCAACAC
33460564 TTAATTTTTCA
1 TTAATTTTTCA
33460575 GTTTATCAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:33460575 original size:15 final size:15
Alignment explanation
Indices: 33460533--33460575 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
33460523 GTTTTCAATG
*
33460533 CTTAATTTTTCAACA
1 CTTAATTTTTCAGCA
*
33460548 CTTATTTTTTCAGCA
1 CTTAATTTTTCAGCA
*
33460563 TTTAATTTTTCAG
1 CTTAATTTTTCAG
33460576 TTTATCAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (15 bp):
CTTAATTTTTCAGCA
Found at i:33463538 original size:34 final size:34
Alignment explanation
Indices: 33463477--33463541 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
33463467 TACCCTTTTC
* *
33463477 TTTATTTTATTTATTATTTGTTATATTATTTATT
1 TTTATTTTACTAATTATTTGTTATATTATTTATT
*
33463511 TTTATTTTACTAATATATTT-TTTTATTATTT
1 TTTATTTTACTAAT-TATTTGTTATATTATTT
33463542 TATTACTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (34 bp):
TTTATTTTACTAATTATTTGTTATATTATTTATT
Found at i:33463691 original size:18 final size:18
Alignment explanation
Indices: 33463678--33463731 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
33463668 TCTTTTTCGT
33463678 TTTATTTTTATTTTCATC
1 TTTATTTTTATTTTCATC
*
33463696 TTTATTTTTGTTTGT-AGTTGC
1 TTTATTTTTATTT-TCA--T-C
33463717 TTTATTTTTATTTTC
1 TTTATTTTTATTTTC
33463732 TTAGACTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 13 0.45
19 1 0.03
20 2 0.07
21 13 0.45
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTCATC
Found at i:33483856 original size:44 final size:44
Alignment explanation
Indices: 33483759--33483880 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
33483749 TGAGGAACCA
*
33483759 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAAGTCAAT
* * * * *
33483803 AATCCTATCTCCCTGAGGTTGTATTGGAGCGGGTT-AACGT-AAT
1 AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAA-GTCAAT
* * * *
33483846 GGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 -AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGAT
33483881 CGCATCAAGT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.07
44 57 0.93
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (44 bp):
AATCTTATCTCTCTGAGGTTGTAGTGGAGCAGATTGAAGTCAAT
Found at i:33498254 original size:2 final size:2
Alignment explanation
Indices: 33498247--33498281 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33498237 ATTCATGAGT
33498247 TA 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 TA T
33498282 GTTTTAGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33501062 original size:26 final size:26
Alignment explanation
Indices: 33501033--33501109 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
33501023 AATTCACTTA
33501033 GCTTCGCTAACTTTGCCTTACTATCT
1 GCTTCGCTAACTTTGCCTTACTATCT
* * * *
33501059 GCTTCG-T--CATCGGC--A-T-TTT
1 GCTTCGCTAACTTTGCCTTACTATCT
33501078 GCTTCGCTAACTTTGCCTTACTATCT
1 GCTTCGCTAACTTTGCCTTACTATCT
33501104 GCTTCG
1 GCTTCG
33501110 TCATCGGCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
19 8 0.22
20 2 0.06
21 1 0.03
22 4 0.11
23 4 0.11
24 1 0.03
25 2 0.06
26 14 0.39
ACGTcount: A:0.13, C:0.30, G:0.16, T:0.42
Consensus pattern (26 bp):
GCTTCGCTAACTTTGCCTTACTATCT
Found at i:33501097 original size:45 final size:45
Alignment explanation
Indices: 33501033--33501124 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
33501023 AATTCACTTA
33501033 GCTTCGCTAACTTTGCCTTACTATCTGCTTCGTCATCGGCATTTT
1 GCTTCGCTAACTTTGCCTTACTATCTGCTTCGTCATCGGCATTTT
33501078 GCTTCGCTAACTTTGCCTTACTATCTGCTTCGTCATCGGCATTTT
1 GCTTCGCTAACTTTGCCTTACTATCTGCTTCGTCATCGGCATTTT
33501123 GC
1 GC
33501125 AGTGAATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.41
Consensus pattern (45 bp):
GCTTCGCTAACTTTGCCTTACTATCTGCTTCGTCATCGGCATTTT
Found at i:33502733 original size:6 final size:6
Alignment explanation
Indices: 33502722--33502769 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
33502712 TATACCTATA
* * *
33502722 TATATG TGTATG TATATG TATATG TATATG TATATG TGTATG TGTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
33502770 CGTGTTATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:33502745 original size:18 final size:18
Alignment explanation
Indices: 33502722--33502769 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
33502712 TATACCTATA
33502722 TATATGTGTATGTATATG
1 TATATGTGTATGTATATG
*
33502740 TATATGTATATGTATATG
1 TATATGTGTATGTATATG
*
33502758 TGTATGTGTATG
1 TATATGTGTATG
33502770 CGTGTTATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (18 bp):
TATATGTGTATGTATATG
Found at i:33504249 original size:32 final size:31
Alignment explanation
Indices: 33504204--33504274 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
33504194 AGTTACAAAA
***
33504204 TGGTCACCCAATTATTTTAGTTTTTCTTTTT
1 TGGTCACCCAATTATACGAGTTTTTCTTTTT
* *
33504235 TGAGTCACCTAATTATACGATTTTTTCTTTTT
1 TG-GTCACCCAATTATACGAGTTTTTCTTTTT
33504267 TGGTCACC
1 TGGTCACC
33504275 AACTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (31 bp):
TGGTCACCCAATTATACGAGTTTTTCTTTTT
Found at i:33511433 original size:30 final size:30
Alignment explanation
Indices: 33511399--33511463 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
33511389 ACCAGAGCAT
*
33511399 AGCAGAGCAAAACTGAACTAAACAGAACAG
1 AGCAGAACAAAACTGAACTAAACAGAACAG
** * *
33511429 AGCAGAACTTAACTGAACTAAATAGAGCAG
1 AGCAGAACAAAACTGAACTAAACAGAACAG
33511459 AGCAG
1 AGCAG
33511464 GACGGAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.11
Consensus pattern (30 bp):
AGCAGAACAAAACTGAACTAAACAGAACAG
Found at i:33511437 original size:25 final size:25
Alignment explanation
Indices: 33511401--33511459 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
33511391 CAGAGCATAG
*
33511401 CAGAGCAAAACTGAACTAAAC-AGAA
1 CAGAGCAGAACTGAACTAAACTA-AA
* *
33511426 CAGAGCAGAACTTAACTGAACTAAA
1 CAGAGCAGAACTGAACTAAACTAAA
*
33511451 TAGAGCAGA
1 CAGAGCAGA
33511460 GCAGGACGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (25 bp):
CAGAGCAGAACTGAACTAAACTAAA
Found at i:33515743 original size:19 final size:18
Alignment explanation
Indices: 33515713--33515766 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
33515703 TTGAATCAAA
*
33515713 TTTTAAAATTTTAATAAGT
1 TTTTAAATTTTTAATAA-T
*
33515732 TTTTAAATTTTTTATTAAT
1 TTTTAAA-TTTTTAATAAT
*
33515751 TTTACAAATTTTTAAT
1 TTT-TAAATTTTTAAT
33515767 TGTTTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTAAATTTTTAATAAT
Found at i:33516628 original size:24 final size:24
Alignment explanation
Indices: 33516601--33516648 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
33516591 AATTTTGAAA
33516601 TCTAAAAAGTAAAAA-AAAAAAATT
1 TCTAAAAA-TAAAAATAAAAAAATT
*
33516625 TCTAAAAATAAAAATACAAAAATT
1 TCTAAAAATAAAAATAAAAAAATT
33516649 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (24 bp):
TCTAAAAATAAAAATAAAAAAATT
Found at i:33517723 original size:9 final size:9
Alignment explanation
Indices: 33517704--33517740 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33517694 TGAGTTTTCG
*
33517704 AATTTGAAT
1 AATTCGAAT
*
33517713 AACTCGAAT
1 AATTCGAAT
33517722 AATTCGAAT
1 AATTCGAAT
33517731 AATTCGAAT
1 AATTCGAAT
33517740 A
1 A
33517741 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33517823 original size:30 final size:31
Alignment explanation
Indices: 33517789--33517849 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
33517779 AAACCTTTTT
* *
33517789 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
33517819 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
33517850 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
Found at i:33518161 original size:20 final size:20
Alignment explanation
Indices: 33518122--33518161 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33518112 TTGTTCCCCA
* * *
33518122 AAACTTTTTCTTTTCCCCCT
1 AAACTTTTACTTCTCACCCT
33518142 AAACTTTTACTTCTCACCCT
1 AAACTTTTACTTCTCACCCT
33518162 TTACTCTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (20 bp):
AAACTTTTACTTCTCACCCT
Found at i:33518668 original size:5 final size:5
Alignment explanation
Indices: 33518658--33518683 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33518648 AAACAAATAT
33518658 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
33518684 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:33532806 original size:133 final size:133
Alignment explanation
Indices: 33532565--33533516 Score: 1458
Period size: 133 Copynumber: 7.2 Consensus size: 133
33532555 CAAGTTTCAC
* *
33532565 AGATAACAGACCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * *
33532629 CATACTAGTGGCGAAGTATATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
33532694 CGA
131 CGA
* * *
33532697 AGATAGCAGATCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTTC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
** * *
33532762 CATACTGGTGGCGAAGTAGATCGAAAAAAATAGATCTTGGCTTCATGTATTAGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
*
33532827 CAA
131 CGA
* *
33532830 AGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTATCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
*
33532895 CATATTGGTGGCGAAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CATACTGGTGGCGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
*
33532959 TTGA
130 TCGA
* * * *
33532963 AGATAACACATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAAATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
33533028 CATACTGGTGGCGAAGTAGATC-AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CATACTGGTGGCGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
33533092 TCGA
130 TCGA
* * * * *
33533096 AAATAGCAGATCCCGTCTTCCTATATCGGCAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
33533161 CATACTGGTGGCAAAGTAGATCGGAAAAAA-CAGATCTTGGCTTCATGTATTGGCGTGAAGTAGA
66 CATACTGGTGGCGAAGTAGATC-GAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
33533225 TCGA
130 TCGA
*
33533229 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
33533294 CATATTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
33533359 CGA
131 CGA
*
33533362 AGAT--C--A---TGTCTTCCTACATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* * * *
33533420 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTGGAT
66 CATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
33533485 CGA
131 CGA
* *
33533488 AAATAGCAGATCCTGTCTTCTTATATTGG
1 AGATAGCAGATCCTGTCTTCCTATATTGG
33533517 CAGTGAGGCA
Statistics
Matches: 746, Mismatches: 62, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
126 117 0.16
128 1 0.00
129 1 0.00
130 1 0.00
131 1 0.00
132 39 0.05
133 580 0.78
134 3 0.00
135 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (133 bp):
AGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
CGA
Found at i:33533383 original size:82 final size:82
Alignment explanation
Indices: 33533280--33533446 Score: 201
Period size: 82 Copynumber: 2.0 Consensus size: 82
33533270 TCAAAGATGC
* * * **
33533280 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAAAAAGCAGATCTTATCTTCATGTATT
1 AGATCATGTCTTCCCACATTGGTAGCGAAGTAGATCG-AAAAAGCAGATCTTATCTTCACATATT
*
33533345 GG-CGTGAAGTAGATCGA
65 GGTCGCGAAGTAGATCGA
* * * * * *
33533362 AGATCATGTCTTCCTACATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTG
1 AGATCATGTCTTCCCACATTGGTAGCGAAGTAGATCGAAAAAGCAGATCTTATCTTCACATATTG
*
33533427 GTGGCGAAGTAGATCGA
66 GTCGCGAAGTAGATCGA
33533444 AGA
1 AGA
33533447 AAGCAGATCT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 23 0.32
82 48 0.68
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (82 bp):
AGATCATGTCTTCCCACATTGGTAGCGAAGTAGATCGAAAAAGCAGATCTTATCTTCACATATTG
GTCGCGAAGTAGATCGA
Found at i:33535399 original size:13 final size:13
Alignment explanation
Indices: 33535381--33535405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33535371 AAAAACTATG
33535381 AAAATAAAATAAT
1 AAAATAAAATAAT
33535394 AAAATAAAATAA
1 AAAATAAAATAA
33535406 AATATGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:33535491 original size:3 final size:3
Alignment explanation
Indices: 33535483--33535535 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
33535473 GTCTATAGGT
33535483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
33535532 ATA A
1 ATA A
33535536 AATGACAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33536243 original size:11 final size:11
Alignment explanation
Indices: 33536227--33536259 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
33536217 TAAAAATCTG
33536227 CTTTTTCTTTT
1 CTTTTTCTTTT
33536238 CTTTTTCTTTT
1 CTTTTTCTTTT
*
33536249 CTTTCTCTTTT
1 CTTTTTCTTTT
33536260 TCCAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:33537190 original size:101 final size:101
Alignment explanation
Indices: 33537052--33537450 Score: 498
Period size: 101 Copynumber: 4.0 Consensus size: 101
33537042 ATTCACCATA
* * ** * * *
33537052 TTCAGTCTGTTTAACTATAATGTCGGGG-AAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCT
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-
* * * *
33537116 ACTACACCACCAAGAAAGTAAGATTCACCGTTGTGAC
65 ACTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGAC
* *
33537153 CTCAATCTTTTTAACTGCAATGT-TGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCT
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-
*
33537217 ACTACACCGCCAATGAAGTAAGATCCGCCGTTGT-AGC
65 ACTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGA-C
* * * * * *
33537254 TTCAATATTTTCAATTGCAATGTCGGGGAAAACCAGATCCACCATCGTAGCTTTAATCTGTTCCA
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
33537319 CTACACCGCTAGGGAAGTAAGATCCGCCGTTGTGGC
66 CTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGAC
* * *
33537355 TTCAATCTTTTAAATTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCA
1 TTCAATCTTTTTAACTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* *
33537420 CTACACCGCCAGGGAAGTAAGATCCGTCGTT
66 CTACACCGCCAAGGAAGTAAGATCCGCCGTT
33537451 TTCAACCTAC
Statistics
Matches: 260, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
100 4 0.02
101 220 0.85
102 36 0.14
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (101 bp):
TTCAATCTTTTTAACTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGAC
Found at i:33537435 original size:51 final size:51
Alignment explanation
Indices: 33537177--33537435 Score: 188
Period size: 51 Copynumber: 5.1 Consensus size: 51
33537167 CTGCAATGTT
*
33537177 GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCTACTACACCGCCA
1 GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTC-ACTACACCGCCA
** * * * * * ** * *
33537229 ATGAAGTA--AGATCCGCCGTTGTAGCTTCAATAT-TTTCAATTGCAATGTCG
1 GGGAA-AACCAGATCCGCCGTCGTAGCTTCAATCTGTTTC-ACTACACCGCCA
* * * * *
33537279 GGGAAAACCAGATCCACCATCGTAGCTTTAATCTGTTCCACTACACCGCTA
1 GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCA
* * * * * * ** * *
33537330 GGGAAGTA--AGATCCGCCGTTGTGGCTTCAATCT-TTTAAATTGCAATGTCG
1 GGGAA-AACCAGATCCGCCGTCGTAGCTTCAATCTGTTT-CACTACACCGCCA
33537380 GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCA
1 GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCA
33537431 GGGAA
1 GGGAA
33537436 GTAAGATCCG
Statistics
Matches: 144, Mismatches: 54, Indels: 19
0.66 0.25 0.09
Matches are distributed among these distances:
49 4 0.03
50 42 0.29
51 87 0.60
52 10 0.07
53 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (51 bp):
GGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCA
Found at i:33537886 original size:88 final size:88
Alignment explanation
Indices: 33537438--33537885 Score: 752
Period size: 88 Copynumber: 5.1 Consensus size: 88
33537428 CCAGGGAAGT
* * *
33537438 AAGATCCGTCGTTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATCTTCGATCTG
1 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
* *
33537503 CTTCGCTGTCAGTACAGGAAGAC
66 CTTCGCCGTCAGTACAGGAAGGC
*
33537526 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGTTGGTATATTCGATCTG
1 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33537591 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33537614 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGTGACAAGGCTGGTATATTTGATCTG
1 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
*
33537679 CTTCACCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
33537702 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
1 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
* *
33537767 CTTCGCCCTTAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* * *
33537790 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAAGGAGACAAGGCTGGTATCTTCGATCTG
1 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
* *
33537855 CTTCGCCGTCAGTATAGGAAGGT
66 CTTCGCCGTCAGTACAGGAAGGC
33537878 AAGATCTG
1 AAGATCTG
33537886 CTATCTTCAG
Statistics
Matches: 338, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 338 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (88 bp):
AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
CTTCGCCGTCAGTACAGGAAGGC
Found at i:33539187 original size:22 final size:22
Alignment explanation
Indices: 33539162--33539211 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
33539152 TTAGGCTCTC
33539162 CATTTTT-ACTTTTTCCATTTTT
1 CATTTTTCA-TTTTTCCATTTTT
33539184 CATTTTTCATTTTTCCATTTTT
1 CATTTTTCATTTTTCCATTTTT
33539206 -ATTTTT
1 CATTTTT
33539212 TCACATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.22
22 20 0.74
23 1 0.04
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (22 bp):
CATTTTTCATTTTTCCATTTTT
Found at i:33539212 original size:7 final size:7
Alignment explanation
Indices: 33539162--33539211 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
33539152 TTAGGCTCTC
33539162 CATTTTT
1 CATTTTT
33539169 -ACTTTTT
1 CA-TTTTT
33539176 CCATTTTT
1 -CATTTTT
33539184 CATTTTT
1 CATTTTT
33539191 CATTTTT
1 CATTTTT
33539198 CCATTTTT
1 -CATTTTT
33539206 -ATTTTT
1 CATTTTT
33539212 TCACATCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.18
7 19 0.49
8 12 0.31
9 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:33539213 original size:15 final size:15
Alignment explanation
Indices: 33539162--33539211 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
33539152 TTAGGCTCTC
*
33539162 CATTTTTAC-TTTTT
1 CATTTTTCCATTTTT
33539176 CCATTTTT-CATTTTT
1 -CATTTTTCCATTTTT
33539191 CATTTTTCCATTTTT
1 CATTTTTCCATTTTT
33539206 -ATTTTT
1 CATTTTT
33539212 TCACATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.42
15 19 0.58
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (15 bp):
CATTTTTCCATTTTT
Found at i:33539742 original size:13 final size:13
Alignment explanation
Indices: 33539712--33539757 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
33539702 CGGTAGAGGG
*
33539712 TTTTTTT-TTGTT
1 TTTTTTTGTTCTT
*
33539724 TCTTTTTGTT-TT
1 TTTTTTTGTTCTT
33539736 TGTTTTTTGTTCTT
1 T-TTTTTTGTTCTT
33539750 TTTTTTTG
1 TTTTTTTG
33539758 CATTGAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 9 0.31
13 17 0.59
14 3 0.10
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (13 bp):
TTTTTTTGTTCTT
Found at i:33539745 original size:23 final size:21
Alignment explanation
Indices: 33539715--33539756 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 21
33539705 TAGAGGGTTT
33539715 TTTTTTGTTTCTTTTTGTTTTTG
1 TTTTTTG-TTCTTTTT-TTTTTG
33539738 TTTTTTGTTCTTTTTTTTT
1 TTTTTTGTTCTTTTTTTTT
33539757 GCATTGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 8 0.42
23 7 0.37
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (21 bp):
TTTTTTGTTCTTTTTTTTTTG
Found at i:33542286 original size:101 final size:101
Alignment explanation
Indices: 33542102--33542500 Score: 559
Period size: 101 Copynumber: 4.0 Consensus size: 101
33542092 ATTCACCATA
* * * * * *
33542102 TTCAGTCTATTTAACTATAATGTCGGGG-AAACAAGATCCACCGTCGTGGCTTCAATCTGTTCCT
1 TTCAATCTTTTTAACTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-
* * * *
33542166 ACTACACCACCAAGAAAGTAAGATTCGCCGTTGTGAC
65 ACTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGGC
* * *
33542203 CTCAATCTTTTTAACTGCAATGT-TGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCT
1 TTCAATCTTTTTAACTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-
33542267 ACTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGGC
65 ACTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGGC
* * * *
33542304 TTCAATCTTTTTAATTGCAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATTTGCTCCA
1 TTCAATCTTTTTAACTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* *
33542369 CTACACCGCCAAGGAAGTAAGATTCACCGTTGTGGC
66 CTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGGC
* * *
33542405 TTCAATCTTTTAAATTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCA
1 TTCAATCTTTTTAACTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
*
33542470 CTACACCGCCAGGGAAGTAAGATCCGCCGTT
66 CTACACCGCCAAGGAAGTAAGATCCGCCGTT
33542501 TTCAACCTAC
Statistics
Matches: 268, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
100 3 0.01
101 228 0.85
102 37 0.14
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (101 bp):
TTCAATCTTTTTAACTACAATGTCGGGGAAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAAGGAAGTAAGATCCGCCGTTGTGGC
Found at i:33542296 original size:51 final size:50
Alignment explanation
Indices: 33542236--33542499 Score: 199
Period size: 51 Copynumber: 5.2 Consensus size: 50
33542226 TGGGAAAACC
*
33542236 AGATCCGCCGTCGTAGCTTCAATCTGTTCCTACTACACCGCCAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACACCGCCAGGGAAGTA
* * * ** * * ** * * *
33542287 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-AA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTA
* * *
33542336 CCAGATCCGCCGTCGTAGCTTCAATTTGCTCCACTACACCGCCAAGGAAGTA
1 --AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTA
* * * * * ** * ** * * *
33542388 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTACAATGTCGGGGAA-AA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTA
*
33542437 CCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAGTA
1 --AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTA
33542489 AGATCCGCCGT
1 AGATCCGCCGT
33542500 TTTCAACCTA
Statistics
Matches: 150, Mismatches: 57, Indels: 13
0.68 0.26 0.06
Matches are distributed among these distances:
49 2 0.01
50 53 0.35
51 93 0.62
52 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTA
Found at i:33542609 original size:88 final size:88
Alignment explanation
Indices: 33542488--33543504 Score: 1764
Period size: 88 Copynumber: 11.6 Consensus size: 88
33542478 CCAGGGAAGT
* * * * *
33542488 AAGATCCGCCGTTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGTTGGTTTCTTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
*
33542553 CTTCGCTGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33542576 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCAATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33542641 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33542664 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCTAGGGAGACAAGGCTGGTATATTTGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33542729 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* * *
33542752 AAGATCTGCTATTTTTAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33542817 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
*
33542840 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
*
33542905 CTTCGCTGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33542928 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTAGTATATTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33542993 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
33543016 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33543081 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
*
33543104 AAGATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33543169 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* * *
33543192 AAGATTTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGTTGGTATCTTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
*
33543257 CTTCGCTGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33543280 AAAATCTGTCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
*
33543345 CTTCGCCGTCAGTACAGGAAAGC
66 CTTCGCCGTCAGTACAGGAAGGC
* *
33543368 AAGATCTGTCATTTTCAACCTACTCGACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
33543433 CTTCGCCGTCAGTACAGGAAGGC
66 CTTCGCCGTCAGTACAGGAAGGC
* * *
33543456 AGGATCTGCCATTTTCAACCTACTCCACTACTGGCCAGGGATACAAGGC
1 AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGC
33543505 CCAAAATCGG
Statistics
Matches: 882, Mismatches: 47, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 882 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (88 bp):
AAGATCTGCCATTTTCAACCTACTCCACTACTGCCCAGGGAGACAAGGCTGGTATATTCGATCTG
CTTCGCCGTCAGTACAGGAAGGC
Found at i:33544502 original size:3 final size:3
Alignment explanation
Indices: 33544494--33544546 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
33544484 GTCTATAGGT
33544494 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
33544543 ATA A
1 ATA A
33544547 AATGACAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33546826 original size:4 final size:4
Alignment explanation
Indices: 33546817--33546856 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
33546807 TGTCATTATT
*
33546817 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTCA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
33546857 CTATACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:33555137 original size:20 final size:18
Alignment explanation
Indices: 33555086--33555138 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
33555076 AAGATAAAAA
33555086 TTAA-ATTAAATTAA-AT
1 TTAATATTAAATTAATAT
33555102 TTAATATTAAGA-TAATCACT
1 TTAATATTAA-ATTAAT-A-T
33555122 TTAATATTAAATTAATA
1 TTAATATTAAATTAATA
33555139 AAATACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 1 0.03
19 3 0.10
20 15 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAATATTAAATTAATAT
Found at i:33556795 original size:16 final size:16
Alignment explanation
Indices: 33556774--33556804 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33556764 CTATACATGC
*
33556774 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
33556790 AAAATACAAAAGACA
1 AAAATACAAAAGACA
33556805 TAATAGCGAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:33558149 original size:2 final size:2
Alignment explanation
Indices: 33558138--33558168 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
33558128 TATGTGCGTG
33558138 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33558169 ACAAACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33559986 original size:18 final size:18
Alignment explanation
Indices: 33559963--33560014 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
33559953 ATTTTATATG
*
33559963 AAAATCCCAGAATGATTT
1 AAAATCCCAGAAGGATTT
33559981 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
*
33559999 AAAATCCCTGAAGGAT
1 AAAATCCCAGAAGGAT
33560015 ATAGAGCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:33566790 original size:24 final size:23
Alignment explanation
Indices: 33566750--33566796 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
33566740 CAAAATAGTG
* * *
33566750 AAAAAATAACAAGAAAATAGCAA
1 AAAAAATAAAAAAAAAAAAGCAA
33566773 AAAAAAGTAAAAAAAAAAAAGCAA
1 AAAAAA-TAAAAAAAAAAAAGCAA
33566797 GGAAAAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (23 bp):
AAAAAATAAAAAAAAAAAAGCAA
Found at i:33573320 original size:2 final size:2
Alignment explanation
Indices: 33573313--33573398 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
33573303 TTGCAATTCA
33573313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33573355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33573397 AT
1 AT
33573399 TAGAATGTGA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33576964 original size:20 final size:21
Alignment explanation
Indices: 33576939--33576997 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
33576929 ATTTTAAACA
*
33576939 AAATTAAAATCAAG-TGTATT
1 AAATTAAAATCAAGATGGATT
33576959 AAATT-AAA-CAAGTATGGATT
1 AAATTAAAATCAAG-ATGGATT
*
33576979 AAATTAAAATAAAGATGGA
1 AAATTAAAATCAAGATGGA
33576998 ATTGAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 15 0.45
21 8 0.24
22 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.14, T:0.29
Consensus pattern (21 bp):
AAATTAAAATCAAGATGGATT
Found at i:33581562 original size:30 final size:30
Alignment explanation
Indices: 33581528--33581589 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
33581518 AATACAATGT
33581528 GGCTGCACCTGCCCTTTCACATTCAATTAA
1 GGCTGCACCTGCCCTTTCACATTCAATTAA
33581558 GGCTGCACCTGCCCTTTCACATTCAATTAA
1 GGCTGCACCTGCCCTTTCACATTCAATTAA
33581588 GG
1 GG
33581590 ATGCTGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (30 bp):
GGCTGCACCTGCCCTTTCACATTCAATTAA
Found at i:33587811 original size:18 final size:18
Alignment explanation
Indices: 33587788--33587828 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33587778 ATGTGTATCA
*
33587788 ATAAATA-ATTTAAAAATT
1 ATAAATATA-TTAAAAAAT
33587806 ATAAATATATTAAAAAAT
1 ATAAATATATTAAAAAAT
33587824 ATAAA
1 ATAAA
33587829 ATACTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAATATATTAAAAAAT
Found at i:33594753 original size:15 final size:15
Alignment explanation
Indices: 33594733--33594763 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33594723 ACAGAAAAAA
*
33594733 AGGAGAGAGACAGAG
1 AGGAGAGACACAGAG
33594748 AGGAGAGACACAGAG
1 AGGAGAGACACAGAG
33594763 A
1 A
33594764 ATAGTGCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.10, G:0.42, T:0.00
Consensus pattern (15 bp):
AGGAGAGACACAGAG
Found at i:33611231 original size:25 final size:25
Alignment explanation
Indices: 33611135--33611241 Score: 94
Period size: 26 Copynumber: 4.2 Consensus size: 25
33611125 CATACCACAA
* *
33611135 CTCTTATGAGCGTCTCGATGT-ATGG
1 CTCTTGTGAGCTTCTCGAT-TAATGG
* * *
33611160 CTCTTCGTGAGTTTCCCGATTAAAGG
1 CTCTT-GTGAGCTTCTCGATTAATGG
*
33611186 TTCTTTGTGAGCTTC-CTGATTAATGG
1 CTC-TTGTGAGCTTCTC-GATTAATGG
33611212 CTCTCTG-GAGCTTCTCGATTAATGG
1 CTCT-TGTGAGCTTCTCGATTAATGG
33611237 CTCTT
1 CTCTT
33611242 CGAAGCTACC
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 1 0.01
25 28 0.42
26 36 0.54
27 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (25 bp):
CTCTTGTGAGCTTCTCGATTAATGG
Found at i:33611248 original size:25 final size:25
Alignment explanation
Indices: 33611195--33611248 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
33611185 GTTCTTTGTG
*
33611195 AGCTTCCTGATTAATGGCTCTCTGG
1 AGCTTCCTGATTAATGGCTCTCTGA
33611220 AGCTT-CTCGATTAATGGCTCT-TCGA
1 AGCTTCCT-GATTAATGGCTCTCT-GA
33611245 AGCT
1 AGCT
33611249 ACCCATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTCTCTGA
Found at i:33613612 original size:31 final size:30
Alignment explanation
Indices: 33613540--33613617 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
33613530 ATTGGGGTTC
*
33613540 TAATTGAAAATTTT-AAAGTTTTTGTGAGAT
1 TAATT-AAAATTTTCAAAGTTTTAGTGAGAT
* * *
33613570 TAATGAGAATTTTCAAATGTTTTAGTGAGCT
1 TAATTAAAATTTTCAAA-GTTTTAGTGAGAT
33613601 TAATTAAAA-TTTCAAAG
1 TAATTAAAATTTTCAAAG
33613618 AAAATTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 8 0.20
30 14 0.35
31 18 0.45
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (30 bp):
TAATTAAAATTTTCAAAGTTTTAGTGAGAT
Found at i:33613616 original size:30 final size:29
Alignment explanation
Indices: 33613540--33613617 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
33613530 ATTGGGGTTC
* *
33613540 TAATTGAAAATTTTAAAGTTTTTGTGAGAT
1 TAATT-AAAATTTCAAAGTTTTAGTGAGAT
* * *
33613570 TAATGAGAATTTTCAAATGTTTTAGTGAGCT
1 TAATTA-AAATTTCAAA-GTTTTAGTGAGAT
33613601 TAATTAAAATTTCAAAG
1 TAATTAAAATTTCAAAG
33613618 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 2 0.05
30 21 0.54
31 16 0.41
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (29 bp):
TAATTAAAATTTCAAAGTTTTAGTGAGAT
Found at i:33613639 original size:62 final size:63
Alignment explanation
Indices: 33613570--33613691 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 63
33613560 TTTGTGAGAT
*** *
33613570 TAATGAGAATTTTCAAATGTTTTAGTGAGCT-TAATTAAAA-TTTCAAAGAAAATT-AAAAGGTA
1 TAATGAGAATTTTCAAAAAATTGAG-GAGCTCTAATTAAAATTTTCAAA-AAAATTCAAAAGGTA
*
33613632 TAATGAGAATTTTCAAAAAATTGAGGAGCTCTAATTAAAATTTTCTAAAAAATTCAAAAG
1 TAATGAGAATTTTCAAAAAATTGAGGAGCTCTAATTAAAATTTTCAAAAAAATTCAAAAG
33613692 AAAAATGTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 5 0.10
62 36 0.69
63 11 0.21
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.34
Consensus pattern (63 bp):
TAATGAGAATTTTCAAAAAATTGAGGAGCTCTAATTAAAATTTTCAAAAAAATTCAAAAGGTA
Found at i:33616262 original size:16 final size:15
Alignment explanation
Indices: 33616234--33616281 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
33616224 TCAGTCATAC
33616234 AATACTCAATTCATG
1 AATACTCAATTCATG
*
33616249 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
33616264 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
33616281 A
1 A
33616282 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:33616509 original size:40 final size:41
Alignment explanation
Indices: 33616465--33616573 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
33616455 ACACACCAAT
* *
33616465 TTGGCACCTAGTGTCTCATCGGAT-AATTCGAAGTAGTAAA
1 TTGGCACCTAGTGTCTCATCGGATAAATCCGAAGCAGTAAA
**
33616505 TTGGCACCTAGTGTCTCATCATATAAATCCGAAGCAGTAAA
1 TTGGCACCTAGTGTCTCATCGGATAAATCCGAAGCAGTAAA
* * *
33616546 TTGACACCCAGTGTCTCATCGGTTAAAT
1 TTGGCACCTAGTGTCTCATCGGATAAAT
33616574 AGAAGTAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 22 0.37
41 37 0.63
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (41 bp):
TTGGCACCTAGTGTCTCATCGGATAAATCCGAAGCAGTAAA
Found at i:33616782 original size:2 final size:2
Alignment explanation
Indices: 33616777--33616816 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
33616767 TATATTCATA
*
33616777 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33616817 CAATTCAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33617519 original size:4 final size:4
Alignment explanation
Indices: 33617502--33617587 Score: 70
Period size: 4 Copynumber: 20.8 Consensus size: 4
33617492 ACCCTAGCCT
* *
33617502 TTTC TTTC -TCC TTTC TTTC TTTC TTTTT TTTC TTTTC TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC -TTTC TTTC -TTTC TTTC
*
33617552 TTTCC TTTC -TT- TTTC ATTTTG TTTC TTTC TTTC TTT
1 TTT-C TTTC TTTC TTTC --TTTC TTTC TTTC TTTC TTT
33617588 ATTCGTTTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
3 6 0.09
4 43 0.64
5 15 0.22
6 3 0.04
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:33617535 original size:9 final size:9
Alignment explanation
Indices: 33617502--33617587 Score: 88
Period size: 9 Copynumber: 9.3 Consensus size: 9
33617492 ACCCTAGCCT
33617502 TTTCTTTCTCC
1 TTTCTTT-T-C
33617513 TTTC-TTTC
1 TTTCTTTTC
*
33617521 TTTCTTTTT
1 TTTCTTTTC
33617530 TTTCTTTTC
1 TTTCTTTTC
33617539 TTTCTTTTC
1 TTTCTTTTC
*
33617548 TTTCTTTCC
1 TTTCTTTTC
33617557 TTTCTTTTTC
1 TTTC-TTTTC
33617567 ATTT-TGTTTC
1 -TTTCT-TTTC
33617577 TTTC-TTTC
1 TTTCTTTTC
33617585 TTT
1 TTT
33617588 ATTCGTTTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
8 12 0.18
9 37 0.56
10 10 0.15
11 7 0.11
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:33617581 original size:42 final size:42
Alignment explanation
Indices: 33617500--33617587 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
33617490 AAACCCTAGC
*
33617500 CTTTTCTTTCTCCTTTCTTTCTTTCTTTTTTTTCTTTTCTTT
1 CTTTTCTTTCTCCTTTCTTTCTTTCTTTTGTTTCTTTTCTTT
33617542 CTTTTCTTTCTTTCCTTTC-TT-TTTCATTTTGTTTC-TTTCTTT
1 CTTTTCTTTC--TCCTTTCTTTCTTTC-TTTTGTTTCTTTTCTTT
33617584 CTTT
1 CTTT
33617588 ATTCGTTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 25 0.60
43 10 0.24
44 7 0.17
ACGTcount: A:0.01, C:0.23, G:0.01, T:0.75
Consensus pattern (42 bp):
CTTTTCTTTCTCCTTTCTTTCTTTCTTTTGTTTCTTTTCTTT
Found at i:33621862 original size:21 final size:22
Alignment explanation
Indices: 33621821--33621871 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
33621811 ATTTTCTCCC
* **
33621821 ATTATTTATTATTATTGTTA-T
1 ATTATTTATTATCATCATTATT
33621842 ATTATTTATTATCATCATTATT
1 ATTATTTATTATCATCATTATT
33621864 ATT-TTTAT
1 ATTATTTAT
33621872 ATTTGTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTATTTATTATCATCATTATT
Found at i:33622053 original size:2 final size:2
Alignment explanation
Indices: 33622035--33622073 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
33622025 TGTAAATGTG
* *
33622035 TA TA TA CA TA TA CA 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 TA TA TA T
33622074 TACATGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:33625302 original size:9 final size:9
Alignment explanation
Indices: 33625283--33625319 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33625273 TGAGTTTTCG
*
33625283 AATTTGAAT
1 AATTCGAAT
*
33625292 AACTCGAAT
1 AATTCGAAT
33625301 AATTCGAAT
1 AATTCGAAT
33625310 AATTCGAAT
1 AATTCGAAT
33625319 A
1 A
33625320 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33626118 original size:4 final size:4
Alignment explanation
Indices: 33626109--33626136 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33626099 AATGAAAATG
33626109 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
33626137 ATGAATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:33626273 original size:18 final size:18
Alignment explanation
Indices: 33626250--33626309 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
33626240 AAATATAAAA
33626250 ATATATATAAGTATGTAT
1 ATATATATAAGTATGTAT
*
33626268 ATATATACATA-TATGTAT
1 ATATATATA-AGTATGTAT
*
33626286 ATA-A-ATTAGCATATGTAT
1 ATATATATAAG--TATGTAT
33626304 ATATAT
1 ATATAT
33626310 GTATGTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 1 0.03
16 1 0.03
17 1 0.03
18 28 0.85
19 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (18 bp):
ATATATATAAGTATGTAT
Found at i:33628745 original size:43 final size:43
Alignment explanation
Indices: 33628681--33628767 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
33628671 CTTACCAGAC
33628681 TAAATTGCAGAAATACCAAAATTCAGGGATATTTTGGAAGTTT
1 TAAATTGCAGAAATACCAAAATTCAGGGATATTTTGGAAGTTT
*
33628724 TAAATTGCAGAAATACTAAAATTCAGGGATATTTTGGAAGTTT
1 TAAATTGCAGAAATACCAAAATTCAGGGATATTTTGGAAGTTT
33628767 T
1 T
33628768 CTATTTTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (43 bp):
TAAATTGCAGAAATACCAAAATTCAGGGATATTTTGGAAGTTT
Found at i:33633518 original size:7 final size:7
Alignment explanation
Indices: 33633490--33633531 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
33633480 ATTACAGTTA
33633490 CATTTCC
1 CATTTCC
*
33633497 CAATTCC
1 CATTTCC
* *
33633504 C-CTCCC
1 CATTTCC
33633510 CATTTCC
1 CATTTCC
33633517 CATTTCC
1 CATTTCC
33633524 CATTTCC
1 CATTTCC
33633531 C
1 C
33633532 GACCCCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (7 bp):
CATTTCC
Found at i:33634808 original size:13 final size:13
Alignment explanation
Indices: 33634786--33634891 Score: 76
Period size: 13 Copynumber: 8.0 Consensus size: 13
33634776 TCTATTGTAG
33634786 TTAATATACTGTT
1 TTAATATACTGTT
*
33634799 TTAGTATACTGTT
1 TTAATATACTGTT
33634812 TTAATATACTGTTAT
1 TTAATATACTG-T-T
*
33634827 AAATGTAATATACTGGT
1 ---T-TAATATACTGTT
*
33634844 TTAATATATTGTT
1 TTAATATACTGTT
*
33634857 ATAA-A-A-T-TT
1 TTAATATACTGTT
* *
33634866 GTAATATACTATT
1 TTAATATACTGTT
33634879 TTAATATACTGTT
1 TTAATATACTGTT
33634892 ATAAATTATC
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
11 2 0.03
12 2 0.03
13 48 0.65
14 2 0.03
15 1 0.01
17 1 0.01
18 1 0.01
19 10 0.14
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (13 bp):
TTAATATACTGTT
Found at i:33634882 original size:35 final size:33
Alignment explanation
Indices: 33634803--33634896 Score: 136
Period size: 35 Copynumber: 2.8 Consensus size: 33
33634793 ACTGTTTTAG
33634803 TATACTGTTTTAATATACTGTTAT-AAATGTAA
1 TATACTGTTTTAATATACTGTTATAAAATGTAA
* *
33634835 TATACTGGTTTAATATATTGTTATAAAATTTGTAA
1 TATACTGTTTTAATATACTGTTATAAAA--TGTAA
*
33634870 TATACTATTTTAATATACTGTTATAAA
1 TATACTGTTTTAATATACTGTTATAAA
33634897 TTATCACAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 22 0.41
33 3 0.06
35 29 0.54
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (33 bp):
TATACTGTTTTAATATACTGTTATAAAATGTAA
Found at i:33636819 original size:31 final size:31
Alignment explanation
Indices: 33636784--33636846 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
33636774 AGACAAATTC
33636784 ACTTAATTAAAACCTAATTAACTACACAACT
1 ACTTAATTAAAACCTAATTAACTACACAACT
33636815 ACTTAATTAAAACCTAATTAACTACACAACT
1 ACTTAATTAAAACCTAATTAACTACACAACT
33636846 A
1 A
33636847 ACTTCGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (31 bp):
ACTTAATTAAAACCTAATTAACTACACAACT
Found at i:33640615 original size:20 final size:20
Alignment explanation
Indices: 33640592--33640630 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33640582 TGTTAGCTTA
*
33640592 TTTTAGATA-AAAATTTTTAT
1 TTTTA-ATATAAAACTTTTAT
33640612 TTTTAATATAAAACTTTTA
1 TTTTAATATAAAACTTTTA
33640631 ACTTTAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTAATATAAAACTTTTAT
Found at i:33660609 original size:21 final size:20
Alignment explanation
Indices: 33660583--33660621 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33660573 ATTGGGTGGA
*
33660583 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTAACGAG-TTTTGT
33660604 TCAGCTCTAACGAGTTTT
1 TCAGCTCTAACGAGTTTT
33660622 AGTTGGCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (20 bp):
TCAGCTCTAACGAGTTTTGT
Found at i:33663667 original size:3 final size:3
Alignment explanation
Indices: 33663659--33663686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33663649 CTTCATCTCT
33663659 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33663687 AAATTTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33669600 original size:19 final size:20
Alignment explanation
Indices: 33669572--33669611 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
33669562 TTCTAAATTA
*
33669572 TTATCCACATGA-TTTAAAT
1 TTATCAACATGATTTTAAAT
*
33669591 TTATCAACATTATTTTAAAT
1 TTATCAACATGATTTTAAAT
33669611 T
1 T
33669612 CTTTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (20 bp):
TTATCAACATGATTTTAAAT
Found at i:33669925 original size:26 final size:27
Alignment explanation
Indices: 33669895--33669945 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
33669885 TAGAATTTGT
33669895 TTGTTATTC-ATCAT-TTGCTTTGTATA
1 TTGTTATTCAATCATATTG-TTTGTATA
33669921 TTGTTATTCAATCATATTGTTTGTA
1 TTGTTATTCAATCATATTGTTTGTA
33669946 AGAATTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 11 0.48
28 3 0.13
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (27 bp):
TTGTTATTCAATCATATTGTTTGTATA
Found at i:33680535 original size:51 final size:51
Alignment explanation
Indices: 33680477--33680644 Score: 291
Period size: 51 Copynumber: 3.3 Consensus size: 51
33680467 ACTTCTAATC
* * *
33680477 AGTGACAAATGATAAGTGGTAGCGTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
33680528 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
33680579 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
33680630 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
33680645 ATGTGATCCG
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 111 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:33681556 original size:155 final size:156
Alignment explanation
Indices: 33681272--33681585 Score: 603
Period size: 155 Copynumber: 2.0 Consensus size: 156
33681262 CTATTCCGGT
33681272 GTTGGATACGGGTAAGGGGTGTTACAATATATGATTTTTTTATAAGTTTTATTATGAATATTGAT
1 GTTGGATACGGGTAAGGGGTGTTACAATATATGA-TTTTTTATAAGTTTTATTATGAATATTGAT
33681337 ATGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTGTAACCC
65 ATGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTGTAACCC
33681402 TGTTTCGGTAACAGATACGGGTTAGGG
130 TGTTTCGGTAACAGATACGGGTTAGGG
33681429 GTTGGATACGGGTAAGGGGTGTTACAATATATGA-TTTTTATAAGTTTTATTATGAATATTGATA
1 GTTGGATACGGGTAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
33681493 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTGTAACCCT
66 TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTGTAACCCT
*
33681558 GTTTCGGTAACAGATGCGGGTTAGGG
131 GTTTCGGTAACAGATACGGGTTAGGG
33681584 GT
1 GT
33681586 GTTACAGGGA
Statistics
Matches: 156, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
155 122 0.78
157 34 0.22
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.37
Consensus pattern (156 bp):
GTTGGATACGGGTAAGGGGTGTTACAATATATGATTTTTTATAAGTTTTATTATGAATATTGATA
TGTAATGAAACATTTGAAATTTCTATCTGATTGATCCGTAAACCCTGATAATGCTCTGTAACCCT
GTTTCGGTAACAGATACGGGTTAGGG
Found at i:33682617 original size:40 final size:40
Alignment explanation
Indices: 33682527--33682790 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33682517 GTCGAGGTAT
* * * * *
33682527 AAACAGGGGCACAAAAGTGCATTCA-GAGTACCGAATTAC
1 AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
* *
33682566 AAACAGGGGCACATATGTGCAATCAGGGGTATCAAAGTAC
1 AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
* * **
33682606 AAACAGGGGCACTTATGTACAA-CAAGGGGTATTGAAGTAC
1 AAACAGGGGCACATATGTGCAATC-AGGGGTACCGAAGTAC
* *
33682646 AAACAGGGGCACGTATGTGTAATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
** *
33682686 AAACAGGGGCATGTATGTGCAATTAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
** * *
33682726 AAACAACGGCACGTATGTGCAATCAGGGGTACCGGAGTAC
1 AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
33682766 AAACAGGGGCACATATGTGCAATCA
1 AAACAGGGGCACATATGTGCAATCA
33682791 TACAATAATT
Statistics
Matches: 195, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 23 0.12
40 171 0.88
41 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (40 bp):
AAACAGGGGCACATATGTGCAATCAGGGGTACCGAAGTAC
Found at i:33684057 original size:25 final size:25
Alignment explanation
Indices: 33684023--33684075 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
33684013 AAATAATTTC
33684023 TAAAATTAAATATAACAATTAATAA
1 TAAAATTAAATATAACAATTAATAA
* *
33684048 TAAATTTAAATATAATAATTAATAA
1 TAAAATTAAATATAACAATTAATAA
33684073 TAA
1 TAA
33684076 GTTTTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAATTAAATATAACAATTAATAA
Found at i:33684071 original size:12 final size:12
Alignment explanation
Indices: 33684023--33684069 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
33684013 AAATAATTTC
33684023 TAAAATTAAATA
1 TAAAATTAAATA
33684035 TAACAATT-AATAA
1 TAA-AATTAAAT-A
*
33684048 TAAATTTAAATA
1 TAAAATTAAATA
33684060 TAATAATTAA
1 TAA-AATTAA
33684070 TAATAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:33691889 original size:205 final size:205
Alignment explanation
Indices: 33691515--33691903 Score: 595
Period size: 205 Copynumber: 1.9 Consensus size: 205
33691505 CAAGACTAAA
33691515 AATTGAATTTAACCAAATAGATCTAATTGTTACAGATTGAGTCAAGATTAAAATTTAAAAACCCG
1 AATTGAATTTAACCAAATAGATCTAATTGTTACAGATTGAGTCAAGATTAAAATTTAAAAACCCG
*
33691580 AAAAATATAAAAACTAAATCCACAATTTTCATAAAGTATAGGGATTTATAGCAGAATATAAGTAC
66 AAAAATATAAAAACTAAATCCACAATTTTCATAAAATATAGGGATTTATAGCAGAATATAAGTAC
33691645 AGGGGTTTGGCAGAATGTGTGTTTGGTTTCCTAGTCCAACTAGTTAAGAAAAATAGGCATATCTA
131 AGGGGTTTGGCAGAATGTGTGTTTGGTTTCCTAGTCCAACTAGTTAAGAAAAATAGGCATATCTA
33691710 TAATACTAGT
196 TAATACTAGT
* * * * **
33691720 AATTGAATTTAACCAAATAGATTTAATTGTTACCA-TTTGGGTCAAGATTAAAATTTCAAAACTT
1 AATTGAATTTAACCAAATAGATCTAATTGTTA-CAGATTGAGTCAAGATTAAAATTTAAAAACCC
* * * * *
33691784 GAAAAGTATAGAAACTATATCCACAATTTTTATAAAATATAGGGACTTATATAGCAGAATTTAAG
65 GAAAAATATAAAAACTAAATCCACAATTTTCATAAAATATAGGGA-TT-TATAGCAGAATATAAG
* * *
33691849 TA-GGGGGTTTGGCTGAATGTGTGTTTGGTTTCCT-GTCCAACTAGTTAGGAAAAAT
128 TACAGGGGTTTGGCAGAATGTGTGTTTGGTTTCCTAGTCCAACTAGTTAAGAAAAAT
33691904 GAGGGTATCT
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
205 115 0.69
206 34 0.20
207 17 0.10
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (205 bp):
AATTGAATTTAACCAAATAGATCTAATTGTTACAGATTGAGTCAAGATTAAAATTTAAAAACCCG
AAAAATATAAAAACTAAATCCACAATTTTCATAAAATATAGGGATTTATAGCAGAATATAAGTAC
AGGGGTTTGGCAGAATGTGTGTTTGGTTTCCTAGTCCAACTAGTTAAGAAAAATAGGCATATCTA
TAATACTAGT
Found at i:33694384 original size:13 final size:12
Alignment explanation
Indices: 33694356--33694391 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
33694346 AATTAGTCCC
*
33694356 TTTCAACAAAAA
1 TTTCAAAAAAAA
33694368 TTTCAAAAAAAA
1 TTTCAAAAAAAA
33694380 TTTTCAAAAAAA
1 -TTTCAAAAAAA
33694392 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (12 bp):
TTTCAAAAAAAA
Found at i:33694408 original size:18 final size:18
Alignment explanation
Indices: 33694387--33694452 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 18
33694377 AAATTTTCAA
33694387 AAAAATTAAAATAATTTT
1 AAAAATTAAAATAATTTT
*
33694405 AAAATTTAAAAT-ATTTAT
1 AAAAATTAAAATAATTT-T
33694423 AAAAATTTCAAAATTTATATTTT
1 AAAAA-TT-AAAA--TA-ATTTT
33694446 AAAAATT
1 AAAAATT
33694453 TGTAAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 4 0.10
18 16 0.41
19 2 0.05
20 4 0.10
22 3 0.08
23 6 0.15
24 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTAAAATAATTTT
Found at i:33694476 original size:16 final size:16
Alignment explanation
Indices: 33694455--33694488 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33694445 TAAAAATTTG
33694455 TAAAAATTCTAAAAAA
1 TAAAAATTCTAAAAAA
*
33694471 TAAAAATTCTAAAGAA
1 TAAAAATTCTAAAAAA
33694487 TA
1 TA
33694489 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAAATTCTAAAAAA
Found at i:33695425 original size:31 final size:31
Alignment explanation
Indices: 33695379--33695439 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
33695369 CAAAATGGTC
*
33695379 ACTGAACTATTCAAAAGTT-TTCATTTAAGTT
1 ACTGAACTATGCAAAAGTTCTT-ATTTAAGTT
*
33695410 ACTGAATTATGCAAAAGTTCTTATTTAAGT
1 ACTGAACTATGCAAAAGTTCTTATTTAAGT
33695440 AGTTGGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (31 bp):
ACTGAACTATGCAAAAGTTCTTATTTAAGTT
Found at i:33698014 original size:13 final size:15
Alignment explanation
Indices: 33697988--33698019 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
33697978 AATTTAATTT
33697988 TTTTCTTTATTTTCC
1 TTTTCTTTATTTTCC
33698003 TTTTC-TTA-TTTCC
1 TTTTCTTTATTTTCC
33698016 TTTT
1 TTTT
33698020 GTTTTAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTTATTTTCC
Found at i:33701235 original size:4 final size:4
Alignment explanation
Indices: 33701226--33701278 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
33701216 AATTATAACT
33701226 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
33701274 CATA C
1 CATA C
33701279 CTTGGGAGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:33703180 original size:181 final size:180
Alignment explanation
Indices: 33703029--33703408 Score: 476
Period size: 181 Copynumber: 2.1 Consensus size: 180
33703019 GAATTGGTCT
* * *
33703029 GAAC-CCTTAATGACCCGACCTGAAAAAATTCAAATTTGAATATTCGAATCAATCGATTCAAACT
1 GAACTCCTTAATGACCCAACCTGAAAAAATCCAAATTTGAATATTCGAATCAATCAATTCAAACT
* * * * *
33703093 CAAATTCGATCTCATCCAATTTGATCATTAAAAAACTCAAACCACCTAACCTTAAATCCAAATTG
66 CAAATTC-ACCCCATCCAATTTGATCATTAAAAAACTCAAACCACCCAACCCTAAACCCAAATTG
*
33703158 AATCAAATTTGGATTAACTTGAACATAAAGTGAGTAAAACTTGAACTGATTC
130 AATCAAATTT-GAATAACTTGAACATAAAGTGAGTAAAACTTGAACTGATTC
* ** * * * *
33703210 GAACTTCTTAATGACCCAATTTGGAAATATCCGAATTTGAATATTCGAATCGATCAATTCAAACT
1 GAACTCCTTAATGACCCAACCTGAAAAAATCCAAATTTGAATATTCGAATCAATCAATTCAAACT
* * *
33703275 CCAATTCACCCCATCCTATTTGATCATTAAAAATCTCAAACCACCCAACCCTAAACCCAAATTGA
66 CAAATTCACCCCATCCAATTTGATCATTAAAAAACTCAAACCACCCAACCCTAAACCCAAATTGA
** * * * *
33703340 ATTGAATTTGAATAACTTGAACGTGAAGTGATTAAAACCCTGAACTGATTC
131 ATCAAATTTGAATAACTTGAACATAAAGTGAGTAAAA-CTTGAACTGATTC
* *
33703391 GAAC-CATTGATGACCCAA
1 GAACTCCTTAATGACCCAA
33703409 TCCAAAAAAA
Statistics
Matches: 169, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
180 35 0.21
181 78 0.46
182 56 0.33
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (180 bp):
GAACTCCTTAATGACCCAACCTGAAAAAATCCAAATTTGAATATTCGAATCAATCAATTCAAACT
CAAATTCACCCCATCCAATTTGATCATTAAAAAACTCAAACCACCCAACCCTAAACCCAAATTGA
ATCAAATTTGAATAACTTGAACATAAAGTGAGTAAAACTTGAACTGATTC
Found at i:33703272 original size:182 final size:181
Alignment explanation
Indices: 33703061--33703394 Score: 490
Period size: 181 Copynumber: 1.8 Consensus size: 181
33703051 AAAAAATTCA
* * *
33703061 AATTTGAATATTCGAATCAATCGATTCAAACTCAAATTCGATCTCATCCAATTTGATCATTAAAA
1 AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTC-ACCCCATCCAATTTGATCATTAAAA
* * * *
33703126 AACTCAAACCACCTAACCTTAAATCCAAATTGAATCAAATTTGGATTAACTTGAACATAAAGTGA
65 AACTCAAACCACCCAACCCTAAACCCAAATTGAATCAAATTT-GAATAACTTGAACATAAAGTGA
*
33703191 GTAAAA-CTTGAACTGATTCGAACTTCTTAATGACCCAATTTGGAAATATCCG
129 GTAAAACCCTGAACTGATTCGAACTTCTTAATGACCCAATTTGGAAATATCCG
* * *
33703243 AATTTGAATATTCGAATCGATCAATTCAAACTCCAATTCACCCCATCCTATTTGATCATTAAAAA
1 AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTCACCCCATCCAATTTGATCATTAAAAA
* ** * * *
33703308 TCTCAAACCACCCAACCCTAAACCCAAATTGAATTGAATTTGAATAACTTGAACGTGAAGTGATT
66 ACTCAAACCACCCAACCCTAAACCCAAATTGAATCAAATTTGAATAACTTGAACATAAAGTGAGT
33703373 AAAACCCTGAACTGATTCGAAC
131 AAAACCCTGAACTGATTCGAAC
33703395 CATTGATGAC
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
180 24 0.18
181 74 0.55
182 36 0.27
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (181 bp):
AATTTGAATATTCGAATCAATCAATTCAAACTCAAATTCACCCCATCCAATTTGATCATTAAAAA
ACTCAAACCACCCAACCCTAAACCCAAATTGAATCAAATTTGAATAACTTGAACATAAAGTGAGT
AAAACCCTGAACTGATTCGAACTTCTTAATGACCCAATTTGGAAATATCCG
Found at i:33704553 original size:2 final size:2
Alignment explanation
Indices: 33704546--33704571 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33704536 GATAAAGTAA
33704546 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
33704572 TGAACTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33705505 original size:2 final size:2
Alignment explanation
Indices: 33705498--33705538 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
33705488 TCAGTTGAAC
* *
33705498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33705539 TACCTATGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33708636 original size:3 final size:3
Alignment explanation
Indices: 33708628--33708659 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33708618 AATGACAAAA
33708628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33708660 AAAGGAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33709809 original size:60 final size:60
Alignment explanation
Indices: 33709716--33709847 Score: 228
Period size: 60 Copynumber: 2.2 Consensus size: 60
33709706 CTTTAGATGG
* *
33709716 GCGGTGAGATTGCTTTTGATGAGATTAAAAATAGTAGTGGCGGTGAGATTAATTACTATA
1 GCGGTAAGATTGCTTTTGATGAGATTAAAAATAGCAGTGGCGGTGAGATTAATTACTATA
* *
33709776 GCGGTAAGATTGCTTTTGATGAGGTTAAAAATAGCGGTGGCGGTGAGATTAATTACTATA
1 GCGGTAAGATTGCTTTTGATGAGATTAAAAATAGCAGTGGCGGTGAGATTAATTACTATA
33709836 GCGGTAAGATTG
1 GCGGTAAGATTG
33709848 AATACCGTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (60 bp):
GCGGTAAGATTGCTTTTGATGAGATTAAAAATAGCAGTGGCGGTGAGATTAATTACTATA
Found at i:33709976 original size:21 final size:21
Alignment explanation
Indices: 33709950--33709990 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
33709940 TATTTATGTT
33709950 AAAATAATAAATTTATTAATA
1 AAAATAATAAATTTATTAATA
*
33709971 AAAATAATAATTTTATTAAT
1 AAAATAATAAATTTATTAAT
33709991 TATATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATAATAAATTTATTAATA
Found at i:33710006 original size:19 final size:19
Alignment explanation
Indices: 33709982--33710020 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33709972 AAATAATAAT
33709982 TTTATTAATTA-TATTTGTA
1 TTTATT-ATTATTATTTGTA
*
33710001 TTTATTTTTATTATTTGTA
1 TTTATTATTATTATTTGTA
33710020 T
1 T
33710021 ATCTACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTTGTA
Found at i:33711760 original size:29 final size:29
Alignment explanation
Indices: 33711728--33711804 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
33711718 TAAAAAATAT
* *
33711728 ATTTCGACCCCTGAATTTTTTGAAATTAC
1 ATTTTGACCCCTAAATTTTTTGAAATTAC
* * *
33711757 ATTTTGACCCATTAACTTTTTGAAATTAC
1 ATTTTGACCCCTAAATTTTTTGAAATTAC
33711786 ATTTTGACCCCTAAATTTT
1 ATTTTGACCCCTAAATTTT
33711805 CTCAAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (29 bp):
ATTTTGACCCCTAAATTTTTTGAAATTAC
Found at i:33711763 original size:13 final size:13
Alignment explanation
Indices: 33711745--33711792 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
33711735 CCCCTGAATT
33711745 TTTTGAAATTACA
1 TTTTGAAATTACA
* *
33711758 TTTTGACCCATTAACT
1 TTTTGA--AATT-ACA
33711774 TTTTGAAATTACA
1 TTTTGAAATTACA
33711787 TTTTGA
1 TTTTGA
33711793 CCCCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 14 0.50
14 3 0.11
15 3 0.11
16 8 0.29
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTGAAATTACA
Found at i:33712059 original size:16 final size:16
Alignment explanation
Indices: 33712038--33712093 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
33712028 AGTTTCGAAA
33712038 AAAAGA-AATAGGAGAG
1 AAAAGAGAA-AGGAGAG
33712054 AAAAGAGAAAGGAGAGG
1 AAAAGAGAAAGGAGA-G
* *
33712071 AAGAA-AGGAAGAAGAG
1 AA-AAGAGAAAGGAGAG
33712087 AAAAGAG
1 AAAAGAG
33712094 GGGAAGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 2 0.06
16 17 0.50
17 13 0.38
18 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (16 bp):
AAAAGAGAAAGGAGAG
Found at i:33712191 original size:13 final size:13
Alignment explanation
Indices: 33712170--33712220 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
33712160 AGAGAAGAAG
33712170 AAGAAGAAGAAAA
1 AAGAAGAAGAAAA
*
33712183 AAGAGGAAGAAAAA
1 AAGAAGAAG-AAAA
*
33712197 AAGAA-AATAAAA
1 AAGAAGAAGAAAA
33712209 AA-AA-AAGAAAA
1 AAGAAGAAGAAAA
33712220 A
1 A
33712221 GAAAGTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.27
12 6 0.18
13 10 0.30
14 8 0.24
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAGAAGAAGAAAA
Found at i:33712191 original size:16 final size:15
Alignment explanation
Indices: 33712167--33712224 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
33712157 CCAAGAGAAG
33712167 AAGAAGAAGAAGAAAA
1 AAGAAGAAGAA-AAAA
*
33712183 AAGAGGAAG-AAAAA
1 AAGAAGAAGAAAAAA
* *
33712197 AAGAAAATAAAAAAAA
1 AAGAAGA-AGAAAAAA
*
33712213 AAGAAAAAGAAA
1 AAGAAGAAGAAA
33712225 GTTTCAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.26
15 6 0.17
16 20 0.57
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
AAGAAGAAGAAAAAA
Found at i:33712362 original size:13 final size:13
Alignment explanation
Indices: 33712344--33712414 Score: 66
Period size: 12 Copynumber: 5.9 Consensus size: 13
33712334 ACGGAGAAGA
33712344 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
*
33712357 AGAAAGAAAGAAG
1 AGAAAGAAAAAAG
*
33712370 -G-AAG-AAGAAG
1 AGAAAGAAAAAAG
33712380 AAGAAAG--AAAA-
1 -AGAAAGAAAAAAG
33712391 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
33712404 AG-AAGAAAAAA
1 AGAAAGAAAAAA
33712415 TAAAAATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
10 12 0.24
11 3 0.06
12 18 0.36
13 17 0.34
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:33712365 original size:17 final size:16
Alignment explanation
Indices: 33712341--33712411 Score: 76
Period size: 16 Copynumber: 4.5 Consensus size: 16
33712331 CGAACGGAGA
33712341 AGAAGAAAGAAAAAAG
1 AGAAGAAAGAAAAAAG
**
33712357 AGAAAGAAAGAAGGAAG
1 AG-AAGAAAGAAAAAAG
*
33712374 AAGAAG-AAGAAAGAA-
1 -AGAAGAAAGAAAAAAG
33712389 A-AAGAAAGAAAAAAG
1 AGAAGAAAGAAAAAAG
33712404 AGAAGAAA
1 AGAAGAAA
33712412 AAATAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
13 3 0.07
14 9 0.20
15 1 0.02
16 16 0.35
17 15 0.33
18 2 0.04
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AGAAGAAAGAAAAAAG
Found at i:33712769 original size:9 final size:9
Alignment explanation
Indices: 33712741--33712787 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
33712731 CAAAGGCAGC
33712741 AAAAA-AAA
1 AAAAAGAAA
* *
33712749 AAGAAGAGA
1 AAAAAGAAA
33712758 AAAAAGAAA
1 AAAAAGAAA
33712767 AAAAAGAAA
1 AAAAAGAAA
33712776 AAAAAGGAAA
1 AAAAA-GAAA
33712786 AA
1 AA
33712788 GCCCAAGTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 4 0.12
9 23 0.70
10 6 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:33712966 original size:32 final size:33
Alignment explanation
Indices: 33712907--33712969 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
33712897 TAATATTCTT
*
33712907 GTTTCTTAAAGCATTTTTTTTATTTCGTATTAC
1 GTTTCTTAAAGCATTTTTTGTATTTCGTATTAC
*
33712940 GTTTTTTAAAGCATTTTTTGTA-TTCGTATT
1 GTTTCTTAAAGCATTTTTTGTATTTCGTATT
33712970 TAATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.59
Consensus pattern (33 bp):
GTTTCTTAAAGCATTTTTTGTATTTCGTATTAC
Found at i:33715500 original size:35 final size:35
Alignment explanation
Indices: 33715460--33715528 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
33715450 TTCAATTTTG
33715460 GAAAGTGATAATTTATCAGTCAATAGATACATTTA
1 GAAAGTGATAATTTATCAGTCAATAGATACATTTA
* *
33715495 GAAAGTGATAATTTATCATTCAATGGATACATTT
1 GAAAGTGATAATTTATCAGTCAATAGATACATTT
33715529 TCATGGGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (35 bp):
GAAAGTGATAATTTATCAGTCAATAGATACATTTA
Found at i:33723782 original size:2 final size:2
Alignment explanation
Indices: 33723775--33723808 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33723765 CAAATTTTGT
33723775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33723809 CTTGCATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33723998 original size:20 final size:20
Alignment explanation
Indices: 33723975--33724027 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
33723965 ATATCCATAC
33723975 ATATTTTTATATACATATGT
1 ATATTTTTATATACATATGT
* * * *
33723995 ATATATGTATGTACTTATGT
1 ATATTTTTATATACATATGT
33724015 ATATTTTCTATAT
1 ATATTTT-TATAT
33724028 TTTATAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (20 bp):
ATATTTTTATATACATATGT
Found at i:33724326 original size:17 final size:16
Alignment explanation
Indices: 33724296--33724348 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
33724286 TTAAAACATG
33724296 TATATTATACATATAT
1 TATATTATACATATAT
*
33724312 TATATATATATATATAT
1 TATAT-TATACATATAT
33724329 TATATTCACATACATATAT
1 TATATT---ATACATATAT
33724348 T
1 T
33724349 TTTCTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
19 10 0.32
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATTATACATATAT
Found at i:33724332 original size:11 final size:11
Alignment explanation
Indices: 33724296--33724334 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
33724286 TTAAAACATG
*
33724296 TATATTATACA
1 TATATTATATA
33724307 TATATTATATA
1 TATATTATATA
33724318 TATA-TATATA
1 TATATTATATA
33724328 TTATATT
1 -TATATT
33724335 CACATACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 6 0.24
11 18 0.72
12 1 0.04
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATTATATA
Found at i:33724356 original size:25 final size:25
Alignment explanation
Indices: 33724328--33724376 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33724318 TATATATATA
33724328 TTATAT-TCACATACATATATTTTTC
1 TTATATGT-ACATACATATATTTTTC
**
33724353 TTATATGTACATATGTATATTTTT
1 TTATATGTACATACATATATTTTT
33724377 ATATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (25 bp):
TTATATGTACATACATATATTTTTC
Found at i:33729941 original size:37 final size:35
Alignment explanation
Indices: 33729885--33729954 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 35
33729875 CACTTTAATA
33729885 TTAAATTAATAAAATACTA-TAAAGATAAGTATTAAG
1 TTAAATTAATAAAATACTATTAAA-ATAA-TATTAAG
33729921 TTAAATTTAATATAAA-ACTATTAAAATAATATTA
1 TTAAA-TTAATA-AAATACTATTAAAATAATATTA
33729955 TTTTTGGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
36 10 0.32
37 14 0.45
38 7 0.23
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (35 bp):
TTAAATTAATAAAATACTATTAAAATAATATTAAG
Found at i:33733041 original size:9 final size:9
Alignment explanation
Indices: 33733024--33733060 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33733014 TGAGTTTTCG
33733024 AATTCGAAT
1 AATTCGAAT
*
33733033 AACTCGAAT
1 AATTCGAAT
33733042 AATTCGAAT
1 AATTCGAAT
33733051 AATTCGAAT
1 AATTCGAAT
33733060 A
1 A
33733061 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33734632 original size:33 final size:33
Alignment explanation
Indices: 33734551--33734634 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
33734541 GTGTTTACCG
* *
33734551 TCCCGATAGACT-TACTCTGTTCTGTGTTTATTA
1 TCCCGATAGACTAT-CTCTATTCTGTATTTATTA
** *
33734584 TCTTGATAGATTATCTCTATTCTGTATTTATTA
1 TCCCGATAGACTATCTCTATTCTGTATTTATTA
*
33734617 TCCCGACAGACTATCTCT
1 TCCCGATAGACTATCTCT
33734635 GTGGATGTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
33 40 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (33 bp):
TCCCGATAGACTATCTCTATTCTGTATTTATTA
Found at i:33736595 original size:22 final size:23
Alignment explanation
Indices: 33736569--33736638 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 23
33736559 TGATAAAATG
33736569 AGACT-TGTTCGAAAATGGAACA
1 AGACTATGTTCGAAAATGGAACA
*
33736591 AGACTATGAT--AAAAT-G----
1 AGACTATGTTCGAAAATGGAACA
33736607 AGACT-TGTTCGAAAATGGAACA
1 AGACTATGTTCGAAAATGGAACA
33736629 AGACTATGTT
1 AGACTATGTT
33736639 AAAAATTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 17
0.66 0.04 0.30
Matches are distributed among these distances:
15 3 0.08
16 5 0.14
17 5 0.14
18 1 0.03
20 1 0.03
21 5 0.14
22 10 0.27
23 7 0.19
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.26
Consensus pattern (23 bp):
AGACTATGTTCGAAAATGGAACA
Found at i:33736609 original size:38 final size:38
Alignment explanation
Indices: 33736558--33736642 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
33736548 GAGATTATAA
33736558 ATGATAAAATGAGACTTGTTCGAAAATGGAACAAGACT
1 ATGATAAAATGAGACTTGTTCGAAAATGGAACAAGACT
33736596 ATGATAAAATGAGACTTGTTCGAAAATGGAACAAGACT
1 ATGATAAAATGAGACTTGTTCGAAAATGGAACAAGACT
*
33736634 ATGTTAAAA
1 ATGATAAAA
33736643 ATTAGTGAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (38 bp):
ATGATAAAATGAGACTTGTTCGAAAATGGAACAAGACT
Found at i:33736644 original size:22 final size:21
Alignment explanation
Indices: 33736580--33736642 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
33736570 GACTTGTTCG
*
33736580 AAAATGGAACAAGACTATGAT
1 AAAATGGAACAAGACTATGTT
33736601 AAAAT-G----AGACT-TGTT
1 AAAATGGAACAAGACTATGTT
33736616 CGAAAATGGAACAAGACTATGTT
1 --AAAATGGAACAAGACTATGTT
33736639 AAAA
1 AAAA
33736643 ATTAGTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 16
0.66 0.02 0.32
Matches are distributed among these distances:
15 3 0.09
16 5 0.15
17 5 0.15
18 1 0.03
20 1 0.03
21 9 0.27
22 5 0.15
23 4 0.12
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (21 bp):
AAAATGGAACAAGACTATGTT
Found at i:33744600 original size:2 final size:2
Alignment explanation
Indices: 33744593--33744621 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33744583 GCTAACAGAA
33744593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33744622 AAACAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33745083 original size:15 final size:15
Alignment explanation
Indices: 33745063--33745092 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33745053 GAGATATGTT
33745063 GAAGCAGCAGCTTGG
1 GAAGCAGCAGCTTGG
*
33745078 GAAGCAGCGGCTTGG
1 GAAGCAGCAGCTTGG
33745093 ATTTCCTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.43, T:0.13
Consensus pattern (15 bp):
GAAGCAGCAGCTTGG
Found at i:33749349 original size:2 final size:2
Alignment explanation
Indices: 33749342--33749380 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
33749332 CGAAGATACA
33749342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33749381 ACCAATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33751716 original size:19 final size:19
Alignment explanation
Indices: 33751675--33751727 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
33751665 GATTTTTGGA
* *
33751675 AAAATTAAATTTGATCAAGT
1 AAAATTAAA-TTAATCAAAT
33751695 AAAATTAAATTAATCAAAT
1 AAAATTAAATTAATCAAAT
33751714 -AAATTAAAATTAAT
1 AAAATT-AAATTAAT
33751728 ATGATACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 16 0.53
20 9 0.30
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTAAATTAATCAAAT
Found at i:33754403 original size:18 final size:17
Alignment explanation
Indices: 33754370--33754408 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33754360 TTTTATAAAT
33754370 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
33754388 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
33754405 TGTG
1 TGTG
33754409 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.