Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 95 of 226
Found at i:32769569 original size:39 final size:39
Alignment explanation
Indices: 32769475--32769929 Score: 352
Period size: 44 Copynumber: 10.9 Consensus size: 39
32769465 CCAGTATGGA
* * *
32769475 AAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACG-C----CATG
32769519 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
32769558 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
*
32769597 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCC-AT----G
* *
32769641 AAGACAAGATCTGCTTTCTTCGATCTACTT--CGCC---
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
*
32769675 ---ACAAGATCTGCTATATTTGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACG-C----CATG
32769716 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACG-C----CATG
* * * *
32769760 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCC---AT--G
* *
32769805 AAGACAAGATCTGCTATGTTTGATCTACTTCACACCAGTACATG
1 AAGACAAGATCTGCTATCTTTGATCTACTT--CA-C-G-CCATG
* * ** *
32769849 AAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCC---AT--G
32769894 AAGACAAGAT-TGCTATCTTTGATCTACTTCACGCCA
1 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA
32769930 GTACATGAAG
Statistics
Matches: 345, Mismatches: 32, Indels: 72
0.77 0.07 0.16
Matches are distributed among these distances:
31 24 0.07
33 2 0.01
34 1 0.00
38 1 0.00
39 78 0.23
40 5 0.01
42 8 0.02
43 8 0.02
44 173 0.50
45 40 0.12
46 2 0.01
47 2 0.01
49 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (39 bp):
AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCATG
Found at i:32769679 original size:31 final size:31
Alignment explanation
Indices: 32769644--32769702 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
32769634 ATACAGGAAG
* *
32769644 ACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACAAGATCTGCTATATTCGATCTACTTCGCC
*
32769675 ACAAGATCTGCTATATTTGATCTACTTC
1 ACAAGATCTGCTATATTCGATCTACTTC
32769703 ACGCCAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (31 bp):
ACAAGATCTGCTATATTCGATCTACTTCGCC
Found at i:32769697 original size:75 final size:75
Alignment explanation
Indices: 32769600--32769746 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 75
32769590 CGCCATGAAG
* *
32769600 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGAT
1 ACAAGATCTGCTATATTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGAT
32769665 CTACTTCGCC
66 CTACTTCGCC
* * *
32769675 ACAAGATCTGCTATATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGAT
1 ACAAGATCTGCTATATTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGAT
32769740 CTACTTC
66 CTACTTC
32769747 ACGCCAGTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (75 bp):
ACAAGATCTGCTATATTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGAT
CTACTTCGCC
Found at i:32769763 original size:119 final size:114
Alignment explanation
Indices: 32769561--32769795 Score: 389
Period size: 119 Copynumber: 2.0 Consensus size: 114
32769551 CGCCATGAAG
*
32769561 ACAAGATCTGCTATCTTTGATCTACTTCACGCCATGAAGACAAGATCTGCTATCTTCGATCTACT
1 ACAAGATCTGCTATATTTGATCTACTTCACGCCATGAAGACAAGATCTGCTATCTTCGATCTACT
32769626 TCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
66 TCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
32769675 ACAAGATCTGCTATATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGAT
1 ACAAGATCTGCTATATTTGATCTACTTCACG-C----CATGAAGACAAGATCTGCTATCTTCGAT
* *
32769740 CTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
61 CTACTTCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
32769794 AC
1 AC
32769796 CAGTATGGGA
Statistics
Matches: 112, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
114 30 0.27
115 1 0.01
119 81 0.72
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (114 bp):
ACAAGATCTGCTATATTTGATCTACTTCACGCCATGAAGACAAGATCTGCTATCTTCGATCTACT
TCACGCCAATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
Found at i:32769853 original size:133 final size:133
Alignment explanation
Indices: 32769675--32769923 Score: 365
Period size: 133 Copynumber: 1.9 Consensus size: 133
32769665 CTACTTCGCC
* **
32769675 ACAAGATCTGCTATATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGAT
1 ACAAGATCTGCTATATTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTCAAT
* * *
32769740 CTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
66 CTACTTCACCACCAGTACAGGAAGACAAGAT-TGCTATCTTCGATCTACTTCGCCACCAGTATGG
32769804 GAAG
130 GAAG
* * * *
32769808 ACAAGATCTGCTATGTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGTTTTCTTCAAT
1 ACAAGATCTGCTATATTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTCAAT
** *
32769873 CTACTTCACCACCAGTATGGGAAGACAAGATTGCTATCTTTGATCTACTTC
66 CTACTTCACCACCAGTACAGGAAGACAAGATTGCTATCTTCGATCTACTTC
32769924 ACGCCAGTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
133 84 0.82
134 18 0.18
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
ACAAGATCTGCTATATTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCTATCTTCAAT
CTACTTCACCACCAGTACAGGAAGACAAGATTGCTATCTTCGATCTACTTCGCCACCAGTATGGG
AAG
Found at i:32769960 original size:89 final size:89
Alignment explanation
Indices: 32769715--32769951 Score: 413
Period size: 89 Copynumber: 2.7 Consensus size: 89
32769705 GCCAATACAT
32769715 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
32769780 CGATCTACTTCGCCACCAGTATGG
66 CAATCTACTTCACCACCAGTATGG
* * *
32769804 GAAGACAAGATCTGCTATGTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
32769869 CAATCTACTTCACCACCAGTATGG
66 CAATCTACTTCACCACCAGTATGG
*
32769893 GAAGACAAGAT-TGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
32769952 GCTTTTCAAC
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 44 0.32
89 95 0.68
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CAATCTACTTCACCACCAGTATGG
Found at i:32777357 original size:17 final size:17
Alignment explanation
Indices: 32777335--32777368 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32777325 CTTTTTAAAA
32777335 GCAATGAAAACTAGCCC
1 GCAATGAAAACTAGCCC
*
32777352 GCAATGAAAACTGGCCC
1 GCAATGAAAACTAGCCC
32777369 TTAGATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (17 bp):
GCAATGAAAACTAGCCC
Found at i:32784920 original size:20 final size:20
Alignment explanation
Indices: 32784895--32784941 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
32784885 CAGTAAAATA
32784895 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
*
32784915 TTTTCT-AAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
32784934 TTTTCTGG
1 TTTTCTGG
32784942 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:32785043 original size:18 final size:18
Alignment explanation
Indices: 32785017--32785059 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32785007 AAAAGCTATT
*
32785017 TTTACATATACTAATAAA
1 TTTATATATACTAATAAA
*
32785035 TTTATATATATTAATAAA
1 TTTATATATACTAATAAA
*
32785053 ATTATAT
1 TTTATAT
32785060 TTTAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATATATACTAATAAA
Found at i:32790474 original size:32 final size:31
Alignment explanation
Indices: 32790432--32790515 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
32790422 TATTGAAATT
* **
32790432 AGTTTGTTGGATTTTGAAATTATTATGTTTTAA
1 AGTTT-TTGGATATTGAAATTATTACATTTT-A
*
32790465 AGTTTTTGGATATTGAATTTATTACATTTTA
1 AGTTTTTGGATATTGAAATTATTACATTTTA
*
32790496 AGCTTGTTGGATATTGAAAT
1 AG-TTTTTGGATATTGAAAT
32790516 GATTGACAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.07
32 36 0.82
33 5 0.11
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (31 bp):
AGTTTTTGGATATTGAAATTATTACATTTTA
Found at i:32791635 original size:24 final size:24
Alignment explanation
Indices: 32791607--32791681 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
32791597 TGTAATATTC
32791607 GTTATGCACTTGGATGATATTGTA
1 GTTATGCACTTGGATGATATTGTA
32791631 GTTAT-CA-TGTGG-TG-TAATAT-TA
1 GTTATGCACT-TGGATGAT-AT-TGTA
**
32791653 GTTATGCACTTGGAAAATATTGTA
1 GTTATGCACTTGGATGATATTGTA
32791677 GTTAT
1 GTTAT
32791682 CATGTAGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
21 1 0.02
22 12 0.29
23 12 0.29
24 15 0.37
25 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.43
Consensus pattern (24 bp):
GTTATGCACTTGGATGATATTGTA
Found at i:32791649 original size:46 final size:46
Alignment explanation
Indices: 32791597--32791692 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
32791587 ACTACTAATT
* ** *
32791597 TGTAATATTCGTTATGCACTTGGATGATATTGTAGTTATCATGTGG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
32791643 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
1 TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
32791689 TGTA
1 TGTA
32791693 CTACTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (46 bp):
TGTAATATTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAG
Found at i:32792923 original size:28 final size:27
Alignment explanation
Indices: 32792880--32792936 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
32792870 GCAATATGGA
* * * *
32792880 TGCTTAAATTACAAATTTTTATTTTAAT
1 TGCTTAAAATAAAAATGTTT-TTATAAT
32792908 TGCTTAAAATAAAAATGTTTTTATAAT
1 TGCTTAAAATAAAAATGTTTTTATAAT
32792935 TG
1 TG
32792937 GGTGACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (27 bp):
TGCTTAAAATAAAAATGTTTTTATAAT
Found at i:32799781 original size:30 final size:26
Alignment explanation
Indices: 32799747--32799802 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 26
32799737 CCATAATTAT
32799747 TATTTTATTAAACTTTTGATATATTTTTTA
1 TATTTTATTAAA--TTT-ATA-ATTTTTTA
*
32799777 TATTTTTTTAAATTTATAATTTTTTA
1 TATTTTATTAAATTTATAATTTTTTA
32799803 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 3 0.12
28 3 0.12
30 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTTTATTAAATTTATAATTTTTTA
Found at i:32799794 original size:16 final size:16
Alignment explanation
Indices: 32799773--32799804 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32799763 TGATATATTT
*
32799773 TTTATATTTTTTTAAA
1 TTTATAATTTTTTAAA
32799789 TTTATAATTTTTTAAA
1 TTTATAATTTTTTAAA
32799805 AAAATTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATAATTTTTTAAA
Found at i:32799811 original size:20 final size:21
Alignment explanation
Indices: 32799786--32799825 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32799776 ATATTTTTTT
32799786 AAATTTATA-ATTTTT-TAAAA
1 AAATTTA-ACATTTTTATAAAA
32799806 AAATTTAACATTTTTATAAA
1 AAATTTAACATTTTTATAAA
32799826 TATTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTTAACATTTTTATAAAA
Found at i:32802742 original size:19 final size:20
Alignment explanation
Indices: 32802718--32802757 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
32802708 TTCTCTTGAA
*
32802718 AATTGCAATTAA-AATATGT
1 AATTGCAATCAATAATATGT
*
32802737 AATTGCAGTCAATAATATGT
1 AATTGCAATCAATAATATGT
32802757 A
1 A
32802758 GTAATTACTG
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:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (20 bp):
AATTGCAATCAATAATATGT
Found at i:32805600 original size:18 final size:18
Alignment explanation
Indices: 32805569--32805621 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
32805559 ATTCACCAAA
*
32805569 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
32805588 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
32805606 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
32805622 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:32805754 original size:9 final size:9
Alignment explanation
Indices: 32805725--32805773 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
32805715 GTAGTGATTC
32805725 AATTCGGTT
1 AATTCGGTT
*
32805734 AATTCAAG-T
1 AATTC-GGTT
32805743 AATTCGGTT
1 AATTCGGTT
32805752 AATTCGGTT
1 AATTCGGTT
* *
32805761 AGTTTGGTT
1 AATTCGGTT
32805770 AATT
1 AATT
32805774 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 1 0.03
9 31 0.94
10 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:32813101 original size:59 final size:61
Alignment explanation
Indices: 32813025--32813140 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
32813015 ATCACTTTAA
* * *
32813025 ATTAAATTAATATAATATTCA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCTT
1 ATTAAATTAATAGAATATTCACTACAAGATAAACATTAAATTAAATTTAATATTAAATCTT
* *
32813084 ATTAAGTTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 ATTAAATTAATAGAATATTCA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
32813141 GATAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 18 0.37
61 1 0.02
62 30 0.61
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (61 bp):
ATTAAATTAATAGAATATTCACTACAAGATAAACATTAAATTAAATTTAATATTAAATCTT
Found at i:32813166 original size:20 final size:18
Alignment explanation
Indices: 32813119--32813167 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
32813109 CAAGATAAAC
32813119 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
32813136 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
32813156 ATTAAATTAATA
1 ATTAAATTAATA
32813168 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:32815363 original size:52 final size:51
Alignment explanation
Indices: 32815306--32815420 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
32815296 ATAAAAATGG
* *
32815306 TGAAAATGGAAAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAA
1 TGAAAATGGAAAAATGA-AAACATTTAGAAATGAATATGGTTTTATCCAAAA
* * * *
32815358 TGAAAATGGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTCCAAAA
1 TGAAAATGGAAAAATGAAAACATTTAGAAATGAATATGGTTTTATCCAAAA
*
32815409 TAAAAAT-GAAAA
1 TGAAAATGGAAAA
32815421 TGATCTGGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 4 0.07
51 35 0.64
52 16 0.29
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (51 bp):
TGAAAATGGAAAAATGAAAACATTTAGAAATGAATATGGTTTTATCCAAAA
Found at i:32817699 original size:2 final size:2
Alignment explanation
Indices: 32817692--32817728 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32817682 TGTGTTCTAT
32817692 TA 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 TA T
32817729 TTGTGTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32822414 original size:16 final size:17
Alignment explanation
Indices: 32822385--32822429 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
32822375 ATTTCACCTA
*
32822385 ATAAAAACTAAAATATT
1 ATAAAAAATAAAATATT
32822402 ATAAAAAAT-AAATATT
1 ATAAAAAATAAAATATT
*
32822418 -T-AACAATAAAAT
1 ATAAAAAATAAAAT
32822430 GTGTCATGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 7 0.28
17 8 0.32
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAAATAAAATATT
Found at i:32822928 original size:2 final size:2
Alignment explanation
Indices: 32822921--32822948 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32822911 ACACATTTTA
32822921 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
32822949 TTAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32823173 original size:10 final size:10
Alignment explanation
Indices: 32823140--32823177 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
32823130 TAGAAAAGAT
32823140 AATT-TTTTA
1 AATTATTTTA
*
32823149 AATTCTTTTA
1 AATTATTTTA
32823159 AATTATTTTA
1 AATTATTTTA
*
32823169 CATTATTTT
1 AATTATTTT
32823178 TCTCTCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTATTTTA
Found at i:32823924 original size:31 final size:30
Alignment explanation
Indices: 32823866--32823946 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
32823856 GGTACTACTT
* *
32823866 ATGACAAAAA-AA-ATATTTATGTACCAAA
1 ATGAAAAAAATAACATATTTAGGTACCAAA
32823894 ATGAAAAAAATAACATAGTTTAGGTACCAAA
1 ATGAAAAAAATAACATA-TTTAGGTACCAAA
*
32823925 ATGAGAAAAATAACATGATTTA
1 ATGAAAAAAATAACAT-ATTTA
32823947 AGACTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.20
29 2 0.04
30 3 0.07
31 31 0.67
32 1 0.02
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.25
Consensus pattern (30 bp):
ATGAAAAAAATAACATATTTAGGTACCAAA
Found at i:32824285 original size:25 final size:25
Alignment explanation
Indices: 32824231--32824288 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
32824221 AATGGTTCGT
**
32824231 AAGCAACCTTCAATGAACGGTCTGC
1 AAGCAACCTTCAATGAACGGTCCAC
32824256 AAGCAACCTTCAATGAACGGTCCAC
1 AAGCAACCTTCAATGAACGGTCCAC
*
32824281 GAGCAACC
1 AAGCAACC
32824289 CTTCGCATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (25 bp):
AAGCAACCTTCAATGAACGGTCCAC
Found at i:32824970 original size:33 final size:33
Alignment explanation
Indices: 32824917--32824987 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
32824907 ATTATTATAA
* * *
32824917 GATATTATCTTTTAGAAATTTGATTCTTAATAG
1 GATATCATCTCTTAGAAATTTGATTCCTAATAG
* *
32824950 GATATCATCTCTTAGGAATTTGATTCCTAATGG
1 GATATCATCTCTTAGAAATTTGATTCCTAATAG
32824983 GATAT
1 GATAT
32824988 TATAGGATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (33 bp):
GATATCATCTCTTAGAAATTTGATTCCTAATAG
Found at i:32827117 original size:22 final size:22
Alignment explanation
Indices: 32827089--32827227 Score: 197
Period size: 22 Copynumber: 6.3 Consensus size: 22
32827079 TTTATTGTTC
*
32827089 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
32827111 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
32827133 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
32827155 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
32827177 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
32827199 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
32827221 AAACATG
1 AAACATG
32827228 GTGACTGTTC
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:32828596 original size:56 final size:56
Alignment explanation
Indices: 32828509--32828657 Score: 217
Period size: 56 Copynumber: 2.7 Consensus size: 56
32828499 GGGTATTAAT
* * *
32828509 ATATTATTATGGGATATTATATTTTAACAATTTGATTGCTAATAGGATATTATAGG
1 ATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTATAGA
* * * *
32828565 ATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAGTGGGATATTATAGA
1 ATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTATAGA
* *
32828621 ATATTATTCTGGGATATTATTTTTTAGCAATTTGATT
1 ATATTATTATGGGATATTATATTTTAGCAATTTGATT
32828658 TCTACGTAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (56 bp):
ATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAATAGGATATTATAGA
Found at i:32831118 original size:31 final size:31
Alignment explanation
Indices: 32831083--32831145 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32831073 TAAAGTTAGA
*
32831083 TTTAACATAAAAGTCGAATAGTTAAATTCAT
1 TTTAACATAAAAGTCGAATAATTAAATTCAT
32831114 TTTAACATAAAAGTCGAATAATTAAATTCAT
1 TTTAACATAAAAGTCGAATAATTAAATTCAT
32831145 T
1 T
32831146 CTATTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (31 bp):
TTTAACATAAAAGTCGAATAATTAAATTCAT
Found at i:32843796 original size:2 final size:2
Alignment explanation
Indices: 32843791--32843840 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
32843781 TTACAGTAGC
32843791 TA TA TA TA 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 TA TA TA TA
32843833 TA TA TA TA
1 TA TA TA TA
32843841 CTACTACGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32843915 original size:2 final size:2
Alignment explanation
Indices: 32843908--32843938 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32843898 TATTTTAGAA
32843908 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 A
32843939 GAATTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32850752 original size:20 final size:20
Alignment explanation
Indices: 32850727--32850767 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
32850717 GTCTAGTAAG
*
32850727 TTAGGGCATGATATCTTGAA
1 TTAGGGCACGATATCTTGAA
32850747 TTAGGGCACGATATCTTGAA
1 TTAGGGCACGATATCTTGAA
32850767 T
1 T
32850768 CCTCGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (20 bp):
TTAGGGCACGATATCTTGAA
Found at i:32852857 original size:14 final size:15
Alignment explanation
Indices: 32852838--32852871 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
32852828 TTTAATGGAC
32852838 TATTTATTTATTT-T
1 TATTTATTTATTTAT
*
32852852 TATTTATTTGTTTAT
1 TATTTATTTATTTAT
32852867 TATTT
1 TATTT
32852872 GGTTGGGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TATTTATTTATTTAT
Found at i:32853160 original size:55 final size:55
Alignment explanation
Indices: 32853100--32853204 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
32853090 TTTAGTGTTA
* * *
32853100 TAGTTTCATCTTGCTTCATTGTAACTTCAAGGAGATAAGATTCGCTATGGATTTG
1 TAGTTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGATTTG
* * *
32853155 TAGTTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGG
1 TAGTTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGG
32853205 TAACTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (55 bp):
TAGTTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGATTTG
Found at i:32853274 original size:44 final size:44
Alignment explanation
Indices: 32853165--32853474 Score: 221
Period size: 44 Copynumber: 6.8 Consensus size: 44
32853155 TAGTTTTATC
* *
32853165 TTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAACTTCAAT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TA--G---CTTCATT
*
32853215 CTGAC-CCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATT
1 TTG-CTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATT
* *
32853259 TTGCTCCATTGCAACTTCAGGGAGATAAGATTCGTGGCTTCATT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATT
* *
32853303 TTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCCTCGTAGTTTCATT
1 TTGCTCCACTGCAACTTCAGGGAGATAAGA--T----TCGTAGCTTCATT
* * * * * * * * *
32853353 CTGATCCACTGTAACTTTAAAGG-TATAGGAATT-GTAGCTTTAAT
1 TTGCTCCACTGCAAC-TTCAGGGAGATAAG-ATTCGTAGCTTCATT
*** ** * * * *
32853397 TCAATCCACTGTGACTTCAGGGATATAGGATTTGTAGCTTCATC
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATT
* *
32853441 TTACTCCACTGCAACTTCAGGGATATAAGATTCG
1 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
32853475 CTATGGTAGG
Statistics
Matches: 214, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
43 9 0.04
44 136 0.64
45 1 0.00
46 1 0.00
47 1 0.00
49 3 0.01
50 56 0.26
51 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAGCTTCATT
Found at i:32853494 original size:138 final size:137
Alignment explanation
Indices: 32853148--32853519 Score: 379
Period size: 138 Copynumber: 2.7 Consensus size: 137
32853138 GATTCGCTAT
* * * * *
32853148 GGATTTGTAGTTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAACTTCA
1 GGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGT-AGTTTA
* * * * *** *
32853213 ATCTGACCCACTGCAAC-TTCAGGGAGATAAGATTCGTAGCTTCATTTTGCTCCATTGCAACTTC
65 ATCTGACCCACTGCAACTTTAAGGG-TATAGGATTCGTAGCTTCAATTCAATCCACTGCAACTTC
32853277 AGGGAGATA
129 AGGGAGATA
* * * * * * ** *
32853286 AGATTCGTGGCTTCATTTTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCCTCGTAGTTTCA
1 GGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGTTT-A
* * * * * **
32853351 TTCTGATCCACTGTAACTTTAAAGGTATAGGAATT-GTAGCTTTAATTCAATCCACTGTGACTTC
65 ATCTGACCCACTGCAACTTTAAGGGTATAGG-ATTCGTAGCTTCAATTCAATCCACTGCAACTTC
*
32853415 AGGGATATA
129 AGGGAGATA
* *
32853424 GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGATATAAGATTCGCTATGGTAGGTTTA
1 GGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTA-GTTTA
* *
32853489 ATCTGACCCATTGCAACTTCAAGGGTATAGG
65 ATCTGACCCACTGCAACTTTAAGGGTATAGG
32853520 GTCTGTGGTT
Statistics
Matches: 183, Mismatches: 47, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
137 3 0.02
138 168 0.92
139 12 0.07
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (137 bp):
GGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAGTTTAA
TCTGACCCACTGCAACTTTAAGGGTATAGGATTCGTAGCTTCAATTCAATCCACTGCAACTTCAG
GGAGATA
Found at i:32853508 original size:94 final size:93
Alignment explanation
Indices: 32853148--32853509 Score: 230
Period size: 94 Copynumber: 3.9 Consensus size: 93
32853138 GATTCGCTAT
* * * * *
32853148 GGATTTGTAGTTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAACTTCA
1 GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCG-TATGGTAGCTTCA
32853213 ATCTGACCCACTGCAACTTCAGGGAGATA
65 ATCTGACCCACTGCAACTTCAGGGAGATA
* * * * * *
32853242 AGATTCGTAGCTTCATTTTGCTCCATTGCAACTTCAGGGAGATAAGATTCG--T-G--GCTTCAT
1 GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGTATGGTAGCTTCAA
* *
32853302 TTTG-CTCCATTGCAACTTCAGGGAGATA
66 TCTGAC-CCACTGCAACTTCAGGGAGATA
* * * * * * * * *
32853330 AGATTTGCCCTCGTAGTTTCATTCTGA-TCCACTGTAACTTTA--AAGGTATAG----GAATTGT
1 GGA-TT----T-GTAGCTTCA-TCTTACTCCACTGCAACTTCAGGGAGATA-AGATTCGTATGGT
* * * ** *
32853388 AGCTTTAAT-TCAATCCACTGTGACTTCAGGGATATA
58 AGCTTCAATCT-GACCCACTGCAACTTCAGGGAGATA
* * *
32853424 GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGATATAAGATTCGCTATGGTAGGTTTA
1 GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCG-TATGGTAGCTTCA
*
32853489 ATCTGACCCATTGCAACTTCA
65 ATCTGACCCACTGCAACTTCA
32853510 AGGGTATAGG
Statistics
Matches: 198, Mismatches: 45, Indels: 50
0.68 0.15 0.17
Matches are distributed among these distances:
87 5 0.03
88 53 0.27
89 6 0.03
90 4 0.02
91 2 0.01
92 5 0.03
93 6 0.03
94 114 0.58
95 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (93 bp):
GGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTCGTATGGTAGCTTCAA
TCTGACCCACTGCAACTTCAGGGAGATA
Found at i:32860016 original size:16 final size:16
Alignment explanation
Indices: 32859994--32860028 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32859984 TAGTAATGAC
32859994 AAAAAAAAATGTATAAT
1 AAAAAAAAA-GTATAAT
*
32860011 AAAAAAAAAGTATGAT
1 AAAAAAAAAGTATAAT
32860027 AA
1 AA
32860029 TGCTAGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (16 bp):
AAAAAAAAAGTATAAT
Found at i:32871563 original size:13 final size:13
Alignment explanation
Indices: 32871541--32871581 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32871531 TCATGAGCAA
32871541 TTTC-TTTATCCT
1 TTTCTTTTATCCT
32871553 TTTCTTTTATCCT
1 TTTCTTTTATCCT
* *
32871566 TTGCTTTTATTCT
1 TTTCTTTTATCCT
32871579 TTT
1 TTT
32871582 AATTATACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTCTTTTATCCT
Found at i:32873210 original size:15 final size:16
Alignment explanation
Indices: 32873179--32873211 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32873169 ATAATTGTTG
*
32873179 ATATTTATAATTTTTT
1 ATATTTATAAATTTTT
32873195 ATATTT-TAAATTTTT
1 ATATTTATAAATTTTT
32873210 AT
1 AT
32873212 CACTATGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTATAAATTTTT
Found at i:32874563 original size:22 final size:21
Alignment explanation
Indices: 32874521--32874569 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
32874511 ATGAATTCTT
* **
32874521 ATTTTACATTAAAAATTTTAA
1 ATTTTAAATTAAAAAAATTAA
32874542 ATTTTAAATTTAAAAAAATTAA
1 ATTTTAAA-TTAAAAAAATTAA
32874564 ACTTTT
1 A-TTTT
32874570 GGTTTGATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAAATTAAAAAAATTAA
Found at i:32877308 original size:2 final size:2
Alignment explanation
Indices: 32877298--32877350 Score: 88
Period size: 2 Copynumber: 26.0 Consensus size: 2
32877288 TTTTAACCAC
*
32877298 AT AT CAT AT AT AT AT AT AT AT AT AC 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
32877341 AT AT AT AT AT
1 AT AT AT AT AT
32877351 CAAGGTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32878604 original size:21 final size:20
Alignment explanation
Indices: 32878565--32878605 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
32878555 AAATTTAAAA
**
32878565 ATTTATTATTAAGGTAAATT
1 ATTTATTATTAAGAAAAATT
32878585 ATTTATATATTAAGAAAAATT
1 ATTTAT-TATTAAGAAAAATT
32878606 TTAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
ATTTATTATTAAGAAAAATT
Found at i:32880185 original size:29 final size:29
Alignment explanation
Indices: 32880123--32880233 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 29
32880113 TCATTAGGGT
* ** *
32880123 TTATCAGGCACTATGTGCCCGTGATTACAA
1 TTATCAGGTACTATGTATCGGTG-TTACAA
* * * *
32880153 TTATCAAGTATTTTGTATCGGTGTTACAG
1 TTATCAGGTACTATGTATCGGTGTTACAA
* * * * *
32880182 TTATCAGGCACTCTGTGTCGGTGTTATAT
1 TTATCAGGTACTATGTATCGGTGTTACAA
32880211 TTATCAGGTACTATGTATCGGTG
1 TTATCAGGTACTATGTATCGGTG
32880234 GTGGATACCA
Statistics
Matches: 63, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
29 47 0.75
30 16 0.25
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (29 bp):
TTATCAGGTACTATGTATCGGTGTTACAA
Found at i:32880229 original size:58 final size:59
Alignment explanation
Indices: 32880123--32880233 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 59
32880113 TCATTAGGGT
* *
32880123 TTATCAGGCACTATGTGCCCGTGATTACAATTATCAAGTATTTTGTATCGGTGTTACAG
1 TTATCAGGCACTATGTGCCCGTGATTACAATTATCAAGTACTATGTATCGGTGTTACAG
* * * * * *
32880182 TTATCAGGCACTCTGTGTCGGTG-TTATATTTATCAGGTACTATGTATCGGTG
1 TTATCAGGCACTATGTGCCCGTGATTACAATTATCAAGTACTATGTATCGGTG
32880234 GTGGATACCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 24 0.55
59 20 0.45
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (59 bp):
TTATCAGGCACTATGTGCCCGTGATTACAATTATCAAGTACTATGTATCGGTGTTACAG
Found at i:32883937 original size:41 final size:41
Alignment explanation
Indices: 32883879--32884025 Score: 125
Period size: 41 Copynumber: 3.6 Consensus size: 41
32883869 ACCGGCATGT
* * * *
32883879 AGCCTGCTAGGCTTAAAGCCTG-ATTCAGAACACCAGTATTA
1 AGCCTGCTAGACGTAAAGCCTGAAAT-AGAACACCAGCATTA
* ***
32883920 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCAGCATTA
** * *** **
32883961 AGCCTGCTAGACGTAAATTCTGAATTATTTCACTGGCATTA
1 AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCAGCATTA
*
32884002 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGCCTGAA
32884026 TTGTTTCACT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 90 0.98
42 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCAGCATTA
Found at i:32884026 original size:41 final size:41
Alignment explanation
Indices: 32883916--32884051 Score: 227
Period size: 41 Copynumber: 3.3 Consensus size: 41
32883906 GAACACCAGT
* **
32883916 ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
*
32883957 ATTAAGCCTGCTAGACGTAAATTCTGAATTATTTCACTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
*
32883998 ATTAAGCCTGCTAGACGTAAAGTCTGAATTGTTTCACTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
32884039 ATTAAGCCTGCTA
1 ATTAAGCCTGCTA
32884052 AGCACAGAGC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
Found at i:32884673 original size:2 final size:2
Alignment explanation
Indices: 32884666--32884690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32884656 CTAATGTACG
32884666 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32884691 AATTCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32886428 original size:2 final size:2
Alignment explanation
Indices: 32886421--32886457 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32886411 GCAAAAATTC
32886421 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 A
32886458 CTAATACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32886949 original size:41 final size:41
Alignment explanation
Indices: 32886877--32886977 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
32886867 GGCACAAAGC
*
32886877 CTGCTAGACATAAA-TC-GCAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
32886916 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
* * *
32886957 CTGCTAGGCATTAAGCCTGAA
1 CTGCTAGACATAAAGTCTGAA
32886978 AATCTCAGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 14 0.25
40 2 0.04
41 40 0.71
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
Found at i:32887209 original size:64 final size:63
Alignment explanation
Indices: 32887093--32887266 Score: 228
Period size: 64 Copynumber: 2.7 Consensus size: 63
32887083 GCAAACAAAC
* * *
32887093 ATTCGAACCACATATGTA-T-AATTTACA-ACTTTAAAATTCAGCTCAAAGAATTTGTAACCTAT
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTCAAAAAATTTGTAACCTAT
32887155 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAAAATTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAAATTTGTAACCTAT
* * * *
32887219 ATTTGAACCACATGTGTATATAAAATTCATACATTAAATACAACTCAA
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAA
32887267 GAACTTTAAA
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
62 18 0.18
64 74 0.74
65 8 0.08
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAAAAATTTGTAACCTAT
Found at i:32887308 original size:2 final size:2
Alignment explanation
Indices: 32887301--32887333 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32887291 CCATATGTGC
32887301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32887334 ATTCATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32888419 original size:28 final size:28
Alignment explanation
Indices: 32888365--32888421 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
32888355 TTGTTTTTCG
*
32888365 TTTATTATAATATCTTTATAATATATTA
1 TTTATTATAATACCTTTATAATATATTA
*
32888393 TTTATTATTATAACCTTTATAAT-TATTA
1 TTTATTATAAT-ACCTTTATAATATATTA
32888421 T
1 T
32888422 AAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATAATACCTTTATAATATATTA
Found at i:32889669 original size:19 final size:18
Alignment explanation
Indices: 32889627--32889671 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32889617 TTCACAACAT
* *
32889627 ATTTCACATTTCATTTTC
1 ATTTCACATCTCATTTCC
*
32889645 AGTTCACTATCTCATTTCC
1 ATTTCAC-ATCTCATTTCC
32889664 ATTTCACA
1 ATTTCACA
32889672 AACCATGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTCACATCTCATTTCC
Found at i:32899761 original size:19 final size:18
Alignment explanation
Indices: 32899719--32899764 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
32899709 TTCACAACAT
* *
32899719 ATTTCACATTTCATTTTC
1 ATTTCACATCTCATTTCC
*
32899737 AATTCACTATCTCATTTCC
1 ATTTCAC-ATCTCATTTCC
32899756 ATTTCACAT
1 ATTTCACAT
32899765 ACCATGTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTCACATCTCATTTCC
Found at i:32904770 original size:15 final size:15
Alignment explanation
Indices: 32904752--32904782 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32904742 ATTTTACTAC
*
32904752 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
32904767 TATGTCTTTTATATT
1 TATGTCTTTTATATT
32904782 T
1 T
32904783 TTCATGCATA
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:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:32906433 original size:20 final size:20
Alignment explanation
Indices: 32906408--32906445 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
32906398 ATTTTATTAA
32906408 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
32906428 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
32906446 AGTTTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:32908144 original size:16 final size:16
Alignment explanation
Indices: 32908123--32908192 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
32908113 TTTGGTTCGC
*
32908123 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
32908139 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
32908155 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
32908171 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
32908187 TGTAAT
1 TGTAAT
32908193 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:32908227 original size:45 final size:41
Alignment explanation
Indices: 32908171--32908280 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
32908161 GGATTAGAGG
*
32908171 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
32908213 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
32908256 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
32908281 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:32908447 original size:18 final size:17
Alignment explanation
Indices: 32908426--32908460 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32908416 TTATTATTAA
*
32908426 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32908444 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32908461 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32908514 original size:157 final size:157
Alignment explanation
Indices: 32908313--32908629 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
32908303 TAGAATACCC
* *
32908313 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAGATTATTA
*
32908378 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
32908443 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
32908470 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAAATTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAGATTATTA
32908535 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
32908600 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
32908627 TTA
1 TTA
32908630 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAAATTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:32908604 original size:18 final size:17
Alignment explanation
Indices: 32908583--32908617 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32908573 TTATTATTAA
*
32908583 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32908601 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32908618 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32908721 original size:157 final size:155
Alignment explanation
Indices: 32908363--32908678 Score: 413
Period size: 157 Copynumber: 2.0 Consensus size: 155
32908353 TATTTAAATT
*
32908363 TTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAT
1 TTAATAAGATTA-TAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAT
* * * * *
32908428 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAA
65 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTGCTAA
* * * * *
32908493 ATTATTATTGTTATTGTTATTTAAAA
130 ATCATTAATGATATTGATATGTAAAA
32908519 TTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAA
1 -TTAATAAGATTA-TAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAA
* **
32908584 TATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTG
64 TATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTG
32908649 CTCAAATCA-TAAT-ATA-TGATACTGTAAAA
126 CT-AAATCATTAATGATATTGATA-TGTAAAA
32908678 T
1 T
32908679 ATAAATTAAC
Statistics
Matches: 140, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
157 110 0.79
158 5 0.04
159 12 0.09
160 8 0.06
161 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (155 bp):
TTAATAAGATTATAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTGCTAAA
TCATTAATGATATTGATATGTAAAA
Found at i:32911498 original size:16 final size:16
Alignment explanation
Indices: 32911477--32911512 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32911467 TTTGGTTCGC
32911477 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32911493 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32911509 TGTA
1 TGTA
32911513 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32911577 original size:44 final size:45
Alignment explanation
Indices: 32911493--32911583 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
32911483 GGATTAGAGG
* * *
32911493 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
32911538 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
32911582 TG
1 TG
32911584 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:32918653 original size:19 final size:17
Alignment explanation
Indices: 32918620--32918654 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
32918610 GTTTCTACAA
32918620 ATTCTTTACTTTAATTT
1 ATTCTTTACTTTAATTT
32918637 ATTCTTTTACATTTAATT
1 ATTC-TTTAC-TTTAATT
32918655 CATTTATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTCTTTACTTTAATTT
Found at i:32918720 original size:2 final size:2
Alignment explanation
Indices: 32918708--32918758 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
32918698 TGCATACAAC
* *
32918708 AT AT AT CAT AT AT AC AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
32918751 TT AT AT AT
1 AT AT AT AT
32918759 GATAATTAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32919988 original size:17 final size:17
Alignment explanation
Indices: 32919962--32920019 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
32919952 GCTACGTGAC
32919962 AAATATAAATTTAAAAA-
1 AAATA-AAATTTAAAAAT
32919979 AAATAGAAATGTTTAAAAAT
1 AAATA-AAA--TTTAAAAAT
*
32919999 ATATAAAATTTAAAACAT
1 AAATAAAATTTAAAA-AT
32920017 AAA
1 AAA
32920020 ATATGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 15 0.44
18 4 0.12
19 11 0.32
20 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAATTTAAAAAT
Found at i:32923709 original size:42 final size:42
Alignment explanation
Indices: 32923615--32923710 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
32923605 AGATATTCTA
**
32923615 GAATTATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGG
1 GAATTATTTTCCTTTATCTTTTAGTAGTTTATTAGAATAAGG
*
32923657 AAATTATTTTCCTTTATCTTTTAGTAGTTTATTAGAATAAGG
1 GAATTATTTTCCTTTATCTTTTAGTAGTTTATTAGAATAAGG
32923699 GAATTATTTTCC
1 GAATTATTTTCC
32923711 CAATTAGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (42 bp):
GAATTATTTTCCTTTATCTTTTAGTAGTTTATTAGAATAAGG
Found at i:32942011 original size:31 final size:29
Alignment explanation
Indices: 32941936--32942014 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
32941926 TGTTTGGCTC
* *
32941936 ATGTTACATTTTAGTCACTTATGTTTGAA
1 ATGTAACATTTTAGTCACTTATGTTTCAA
* * *
32941965 ATGTTACGTTTTAGTCACTTATGTTATCACG
1 ATGTAACATTTTAGTCACTTATGTT-TCA-A
*
32941996 TTGTAACATTTTAGTCACT
1 ATGTAACATTTTAGTCACT
32942015 GAGCTGTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 24 0.57
30 2 0.05
31 16 0.38
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATGTTTCAA
Found at i:32952469 original size:27 final size:27
Alignment explanation
Indices: 32952431--32952488 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
32952421 TAAGGAGAGA
*
32952431 GGTAGACATCTCCATTTTCGGATTCCC
1 GGTAGACATCTCCATTTTCGGATACCC
32952458 GGTAGACATCTCCATTTTCGGATACCC
1 GGTAGACATCTCCATTTTCGGATACCC
32952485 GGTA
1 GGTA
32952489 CAATATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (27 bp):
GGTAGACATCTCCATTTTCGGATACCC
Found at i:32961589 original size:20 final size:20
Alignment explanation
Indices: 32961564--32961604 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32961554 AATACATTCA
32961564 AATAGTCATTTGAAAAAACT
1 AATAGTCATTTGAAAAAACT
32961584 AATAGTCATTTGAAAAAACT
1 AATAGTCATTTGAAAAAACT
32961604 A
1 A
32961605 GTATTCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AATAGTCATTTGAAAAAACT
Found at i:32971002 original size:23 final size:23
Alignment explanation
Indices: 32970976--32971021 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
32970966 TTGAACAAAA
32970976 AATAAGATCCGTTTTCCAAATAG
1 AATAAGATCCGTTTTCCAAATAG
32970999 AATAAGATCCGTTTTCCAAATAG
1 AATAAGATCCGTTTTCCAAATAG
32971022 GTTAGGCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
AATAAGATCCGTTTTCCAAATAG
Found at i:32975062 original size:3 final size:3
Alignment explanation
Indices: 32975054--32975099 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
32975044 AAATTGAGTC
32975054 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32975100 TATTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32975104 original size:3 final size:3
Alignment explanation
Indices: 32975098--32975134 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
32975088 AATAATAATA
32975098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32975135 AGCCCGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32991236 original size:25 final size:24
Alignment explanation
Indices: 32991182--32991237 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
32991172 TCATTAGGGT
32991182 TACCGATTTATAAATCTAAGAGCA
1 TACCGATTTATAAATCTAAGAGCA
* ** *
32991206 TGCCGATTTATAGCTCGTGAGAGCA
1 TACCGATTTATAAATC-TAAGAGCA
32991231 TACCGAT
1 TACCGAT
32991238 CTTCAGCTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
TACCGATTTATAAATCTAAGAGCA
Found at i:32991947 original size:20 final size:20
Alignment explanation
Indices: 32991924--32991967 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32991914 TAAAGAAAGT
*
32991924 AAATGC-AATAGAAAGTAATA
1 AAATGCAAAT-GAAAGTAAGA
*
32991944 AAATGTAAATGAAAGTAAGA
1 AAATGCAAATGAAAGTAAGA
32991964 AAAT
1 AAAT
32991968 TTGGAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.02, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGCAAATGAAAGTAAGA
Found at i:32992434 original size:15 final size:16
Alignment explanation
Indices: 32992414--32992443 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32992404 TGGTGCCTTG
32992414 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
32992429 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
32992444 AGCCTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:33005724 original size:17 final size:19
Alignment explanation
Indices: 33005699--33005735 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
33005689 AATTCAAAGT
*
33005699 ATATTCAATT-AA-CACAA
1 ATATACAATTCAATCACAA
33005716 ATATACAATTCAATCACAA
1 ATATACAATTCAATCACAA
33005735 A
1 A
33005736 CATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (19 bp):
ATATACAATTCAATCACAA
Found at i:33009714 original size:37 final size:37
Alignment explanation
Indices: 33009634--33009808 Score: 206
Period size: 37 Copynumber: 4.7 Consensus size: 37
33009624 TCGTTCAAGT
* * ** * *
33009634 TTCACTCAGTATAACAGTAGGATTTTGCTCAATTAAAC
1 TTCATTCAGTATAACAGTAAGA-TTTGCTCGGTTGAGC
* * *
33009672 ATCATTCAATATAACTGTAAGATTTGCTCGGTTGAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTCGGTTGAGC
*
33009709 TTCATTCAGTATAACAGTAAGATTTGCTCAGTTGAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTCGGTTGAGC
* * *
33009746 TTCATTCAGTATAACAGTATGATTTGCTCGATTAAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTCGGTTGAGC
* *
33009783 CTCATTCAGTATAATAGTAAGATTTG
1 TTCATTCAGTATAACAGTAAGATTTG
33009809 GCTTGATATA
Statistics
Matches: 117, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
37 100 0.85
38 17 0.15
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (37 bp):
TTCATTCAGTATAACAGTAAGATTTGCTCGGTTGAGC
Found at i:33010168 original size:22 final size:23
Alignment explanation
Indices: 33010142--33010197 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
33010132 CTTTAACTTT
* *
33010142 CTTAATTAAGCTTAAATAAATCA
1 CTTAATTAAGCCTAAATAAACCA
*
33010165 -TTAATTAAGCCTAATTAAACCA
1 CTTAATTAAGCCTAAATAAACCA
*
33010187 CTTTATTAAGC
1 CTTAATTAAGC
33010198 ATAACCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (23 bp):
CTTAATTAAGCCTAAATAAACCA
Found at i:33012176 original size:103 final size:103
Alignment explanation
Indices: 33011996--33012204 Score: 303
Period size: 103 Copynumber: 2.0 Consensus size: 103
33011986 ACACAACAAC
* * * * *
33011996 AAAAATATTCTTTTCCTTAAATACGAAAAACTAATATAAAATACTACAAAAAATTTTAATAAAAC
1 AAAAATATTATTTCCCTTAAAAACGAAAAACTAATATAAAATACCACAAAAAACTTTAATAAAAC
*
33012061 AAATTAACCATACATTTAATACAAACTTAAACCTAATA
66 AAACTAACCATACATTTAATACAAACTTAAACCTAATA
* * *
33012099 AAAAATTATTATTTCCCTTAAAAATGAAAAACTGATATAAAATACCAC-CAAAACTTTAATAAAA
1 AAAAA-TATTATTTCCCTTAAAAACGAAAAACTAATATAAAATACCACAAAAAACTTTAATAAAA
* *
33012163 CAAACTAATCATACCTTTAATACAAACTTAAACCTAATA
65 CAAACTAACCATACATTTAATACAAACTTAAACCTAATA
33012202 AAA
1 AAA
33012205 CACAACAACA
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 58 0.62
104 36 0.38
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (103 bp):
AAAAATATTATTTCCCTTAAAAACGAAAAACTAATATAAAATACCACAAAAAACTTTAATAAAAC
AAACTAACCATACATTTAATACAAACTTAAACCTAATA
Found at i:33013625 original size:80 final size:80
Alignment explanation
Indices: 33013485--33013648 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 80
33013475 AAAGATTAAA
* *
33013485 AAAAAAAACCTTCACTTGTTAAGTTGGCATTGGGGTATATATAGCTGGTGGTGCCATCACATCTG
1 AAAAAAAACCTTCACTTGTTAAGTCGGCATTGGGGTATATATAGCTGGTGGTGCCATCACATCTA
33013550 GAGTAGGTACCAAGG
66 GAGTAGGTACCAAGG
* * * *
33013565 AAAAAAAACCTTCACTTGTTAAGTCGGCATTGTGGTGTATATAGCTGGTGGTGTCGTCACATCTA
1 AAAAAAAACCTTCACTTGTTAAGTCGGCATTGGGGTATATATAGCTGGTGGTGCCATCACATCTA
33013630 GAGTAGGTACCAAGG
66 GAGTAGGTACCAAGG
33013645 AAAA
1 AAAA
33013649 TTTTATTACT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (80 bp):
AAAAAAAACCTTCACTTGTTAAGTCGGCATTGGGGTATATATAGCTGGTGGTGCCATCACATCTA
GAGTAGGTACCAAGG
Found at i:33014022 original size:97 final size:101
Alignment explanation
Indices: 33013818--33014023 Score: 226
Period size: 97 Copynumber: 2.0 Consensus size: 101
33013808 AAAAAAAATA
* *
33013818 TTTTTACTGAAATTTGGTGCCTCCATTGAAAGAGGTGGCACCAAAAAATAAAAATAAGATTCCTA
1 TTTTTACTGAAATTTAGTGCCTCCATTGAAAGAGGCGGCACC---AAATAAAAATAAGATTCCTA
* * *
33013883 CATTGATGTCGTCAATTATAAACCTGCAACCAAAATTTT
63 CATTGATGTCGCCAATTAAAAACCTGCAACCAAAATTAT
* * *
33013922 TTTTTACTGATATTTAGTGCCTCCATTGAAGGAGGCGGCACC-AA-AAACA-AA-ATTCCTACAT
1 TTTTTACTGAAATTTAGTGCCTCCATTGAAAGAGGCGGCACCAAATAAAAATAAGATTCCTACAT
* * *
33013983 TGCTG-CTGCCACTTAAAAACCTATC-ACCAAAATTAT
66 TGATGTC-GCCAATTAAAAACCT-GCAACCAAAATTAT
33014019 TTTTT
1 TTTTT
33014024 TTTTACTCCG
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
96 1 0.01
97 41 0.46
98 3 0.03
99 4 0.04
100 2 0.02
104 38 0.43
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (101 bp):
TTTTTACTGAAATTTAGTGCCTCCATTGAAAGAGGCGGCACCAAATAAAAATAAGATTCCTACAT
TGATGTCGCCAATTAAAAACCTGCAACCAAAATTAT
Found at i:33020025 original size:13 final size:11
Alignment explanation
Indices: 33019997--33020028 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33019987 TCTTTCAATA
33019997 TTCTCTCAAAT
1 TTCTCTCAAAT
33020008 TTCTCTCAAAT
1 TTCTCTCAAAT
*
33020019 TCCTCTCAAA
1 TTCTCTCAAA
33020029 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:33020034 original size:22 final size:22
Alignment explanation
Indices: 33019991--33020035 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33019981 CTTCAATCTT
**
33019991 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
33020013 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
33020035 T
1 T
33020036 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:33023441 original size:13 final size:11
Alignment explanation
Indices: 33023413--33023444 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33023403 TCTTTCAATA
33023413 TTCTCTCAAAT
1 TTCTCTCAAAT
33023424 TTCTCTCAAAT
1 TTCTCTCAAAT
*
33023435 TCCTCTCAAA
1 TTCTCTCAAA
33023445 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:33023450 original size:22 final size:22
Alignment explanation
Indices: 33023407--33023451 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33023397 CTTCAATCTT
**
33023407 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
33023429 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
33023451 T
1 T
33023452 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:33025501 original size:28 final size:27
Alignment explanation
Indices: 33025454--33025511 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
33025444 AGTCTAATCA
* *
33025454 TTTTAAGTTACTTTATATATTATTTTAT
1 TTTTAAGTTACTTTACATATTA-CTTAT
* *
33025482 TTTTAAGTTATTTTGCATATTACTTAT
1 TTTTAAGTTACTTTACATATTACTTAT
33025509 TTT
1 TTT
33025512 ATAATTAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTTAAGTTACTTTACATATTACTTAT
Found at i:33031056 original size:13 final size:13
Alignment explanation
Indices: 33031033--33031068 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33031023 CTTTGAGTAA
33031033 AAAAATG-AAATG
1 AAAAATGAAAATG
33031045 AAAAATGAAAATG
1 AAAAATGAAAATG
*
33031058 ACAAATGAAAA
1 AAAAATGAAAA
33031069 AATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:33032711 original size:218 final size:218
Alignment explanation
Indices: 33032333--33032987 Score: 1130
Period size: 218 Copynumber: 3.0 Consensus size: 218
33032323 AACAGATCGG
* * *
33032333 TGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGTAATAGATCTTATATA
1 TGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATATC
*
33032398 TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAACGGAGTAGACT
66 TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT
33032463 GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
131 GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
*
33032528 CCTGAGGTTGCAGTGGAGTAGAT
196 CCTGAGGTTGCAGTGGAGCAGAT
*
33032551 TGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAGTAAAGTAATAGATCTTATATC
1 TGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATATC
*
33032616 TCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT
66 TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT
33032681 GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
131 GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
33032746 CCTGAGGTTGCAGTGGAGCAGAT
196 CCTGAGGTTGCAGTGGAGCAGAT
* * * * *
33032769 TGAAGCTGATAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATTTTATCTC
1 TGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATATC
*
33032834 TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT
66 TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT
* * * *
33032899 GAGTAAGCAGGTCTTATCCCCTTGAAGTTGCAATGGGACAGATCGAAGATGGCAAATCCTATCTC
131 GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
* * *
33032964 CCTGAAGTTGTAGTGGAGCGGAT
196 CCTGAGGTTGCAGTGGAGCAGAT
33032987 T
1 T
33032988 AAAGTAATAG
Statistics
Matches: 415, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 415 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (218 bp):
TGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATATC
TCTGAAGTTGCAGTAGAGTAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT
GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTC
CCTGAGGTTGCAGTGGAGCAGAT
Found at i:33032870 original size:174 final size:173
Alignment explanation
Indices: 33032688--33033241 Score: 676
Period size: 174 Copynumber: 3.2 Consensus size: 173
33032678 ACTGAGTAAG
* * * *
33032688 CAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CGAAGATAGCAAATCTTATCTCCCTGAGG
* *
33032753 TTGCAGTGGAGCAGATTGAAGCTGATAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
65 TTGCAGTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG
*
33032818 TAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
130 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
* **
33032862 CGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG-AG-TAAGCAGGTCTTATC-CCCTTGA
1 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGAC-GAAGAT-AGCAAATCTTATCTCCC-TGA
* * * *
33032924 AGTTGCAATGG-GACAGATCGAAGATGGCA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
63 GGTTGCAGTGGAG-CAGATTGAAGCT-G-ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
* *
33032987 TAAAGTAATAGCTCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACAT
125 TAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
* * * * *
33033036 CAGGTC-TATCTCCCTGAGGTTACAGCGGAG-ATGACCAAGA-AGCAAATATTATCTCACTGAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCA-GACGAAGATAGCAAATCTTATCTCCCTGAGG
* ** * * *
33033098 TTACAGTGGAGCAGATTGAAGCCAATAATCCCATCTCTCTGAAGTTGTAGTAGAGCGGATTAAAG
65 TTGCAGTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG
**
33033163 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCGGATCGCAT
130 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
* * * *
33033207 TAGGTCTTATTTCCCTG-GGTTGCAGCAGAGCAGAC
1 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGAC
33033242 AGAGAAAGCA
Statistics
Matches: 324, Mismatches: 42, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
170 1 0.00
171 95 0.29
172 46 0.14
173 65 0.20
174 116 0.36
175 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (173 bp):
CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACGAAGATAGCAAATCTTATCTCCCTGAGGT
TGCAGTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT
AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCAT
Found at i:33032893 original size:85 final size:85
Alignment explanation
Indices: 33032348--33033240 Score: 299
Period size: 85 Copynumber: 10.3 Consensus size: 85
33032338 CCAATAATCC
* ** * * *
33032348 TATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGTAATAGATCTTATATATCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
33032413 GAGTAGATCGCATCGGGTCT
66 GAGTAGATCGCATCGGGTCT
* * * * * * * *
33032433 TATCTCCCTGAAGTTGCAACGGAGTAGACT-GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAA-TAGATCTTATCTCTCTGAAGTTGCAGT
* * * * *
33032497 GGGGCAGATCGAAGAT-GGCAAATCT
65 AGAGTAGATCG--CATCGG---GTCT
* * * * ** * * *
33032522 TATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATA-ATCCTATCTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAG-TAATAGATCTTATCTCTCTGAAGTTGCAGT
* * ** * * *
33032586 GGAGCGGAGTAAAGTAAT-AGATCT
65 --AGAGTAG-ATCG-CATCGGGTCT
* * ** * * * * * *
33032610 TATATCTCTGAAGTTGCAGTAGAGTAGA-T--CG-CATCAGGTCTTATCTCCCTGAAGTTGCAGC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAAT-AGATCTTATCTCTCTGAAGTTGCAGT
* * * * *
33032671 GGAGTAGACTGAGTAAGCAGGTCT
65 AGAGTAGA-T-CG-CATCGGGTCT
* * * ** *** * * *
33032695 TATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAG-TAATAGATCTTATCTCTCTGAAGTTGCAGT
* * * * * **
33032760 GGAGCAGATTGAAGCTGATAATCT
65 AGAGTAGATCGCATC-G--GGTCT
* * *
33032784 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATTTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
33032849 GAGTAGATCGCATCGGGTCT
66 GAGTAGATCGCATCGGGTCT
* * * * * *
33032869 TATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAGTAAGCAGGTCTTATC-CCCTTGAAGTTGCAA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAA-TAGATCTTATCTCTC-TGAAGTTGCAG
* * * * *
33032932 T-GGGACAGATCGAAGAT-GGCAAATCC
64 TAGAG-TAGATCG--CATCGG---GTCT
* * * *
33032958 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGCTCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
* *
33033023 GAGTAGATCACATCAGGTC-
66 GAGTAGATCGCATCGGGTCT
* * ** * * * * * *
33033042 TATCTCCCTGAGGTTACAGCGGAG-ATGA-CCAAG-AAGCAAATATTATCTCACTGAGGTTACAG
1 TATCTCCCTGAAGTTGCAGCGGAGCA-GATTAAAGTAA-TAGATCTTATCTCTCTGAAGTTGCAG
* * * * * *** *
33033104 TGGAGCAGATTGAAGCCAATAATCC
64 TAGAGTAGATCGCA-TC--GGGTCT
* * * ** *
33033129 CATCTCTCTGAAGTTGTAGTAGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
** **
33033194 GAGCGGATCGCATTAGGTCT
66 GAGTAGATCGCATCGGGTCT
* * *
33033214 TATTTCCCTG-GGTTGCAGCAGAGCAGA
1 TATCTCCCTGAAGTTGCAGCGGAGCAGA
33033241 CAGAGAAAGC
Statistics
Matches: 584, Mismatches: 179, Indels: 91
0.68 0.21 0.11
Matches are distributed among these distances:
82 3 0.01
83 37 0.06
84 56 0.10
85 166 0.28
86 10 0.02
87 28 0.05
88 97 0.17
89 165 0.28
90 12 0.02
91 8 0.01
92 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTA
GAGTAGATCGCATCGGGTCT
Found at i:33033201 original size:44 final size:44
Alignment explanation
Indices: 33032340--33033197 Score: 350
Period size: 44 Copynumber: 19.8 Consensus size: 44
33032330 CGGTGAAGCC
* * * *
33032340 AATA-ATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAGT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* ** * * *
33032383 AATAGATCTTATATATCTGAAGTTGCAGTAGAGTAGA-T--CG-
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * ** * * *
33032423 CATCGGGTCTTATCTCCCTGAAGTTGCAACGGAGTAGACT-GAGT
1 AAT-AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * **
33032467 AAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT
1 AA-TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T
*** * * * * *
33032513 GGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCC
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T
* * * * *
33032558 GATA-ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAGTAAAGT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * *
33032601 AATAGATCTTATATCTCTGAAGTTGCAGTAGAGTAGA-T--CG-
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * * *
33032641 CATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACT-GAGT
1 AAT-AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * **
33032685 AAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGAT
1 AA-TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T
*** * * *
33032731 GGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T
* *
33032776 GATA-ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * *
33032819 AATAGATTTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T--CG-
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * * *
33032859 CATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAGT
1 AAT-AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * **
33032903 AAGCAGGTCTTATC-CCCTTGAAGTTGCAATGG-GACAGATCGAAGAT
1 AA-TAGATCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTAAAG-T
*** * * * *
33032949 GGCAAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * * *
33032993 AATAGCTCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACA-T
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* * * * * **
33033036 --CAGGTC-TATCTCCCTGAGGTTACAGCGGAG-ATGA-CCAAG-
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGT
* * * * * * * *
33033075 AAGCAAATATTATCTCACTGAGGTTACAGTGGAGCAGATTGAAGCC
1 AA-TAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T
** * * * *
33033121 AATA-ATCCCATCTCTCTGAAGTTGTAGTAGAGCGGATTAAAGT
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
* *
33033164 AATAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
1 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGC
33033198 GGATCGCATT
Statistics
Matches: 609, Mismatches: 167, Indels: 77
0.71 0.20 0.09
Matches are distributed among these distances:
39 3 0.00
40 27 0.04
41 89 0.15
42 6 0.01
43 50 0.08
44 317 0.52
45 108 0.18
46 9 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
Found at i:33034104 original size:28 final size:28
Alignment explanation
Indices: 33034065--33034169 Score: 97
Period size: 28 Copynumber: 3.6 Consensus size: 28
33034055 AAAAAGGTAC
* *
33034065 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATATATAAAA
*
33034092 AAAATTATATACATATATAGATTATAAAA
1 AAAATTATATACATATATATA-TATAAAA
* *
33034121 AAGATAAT-TACATATATATATATAAACA
1 AAAATTATATACATATATATATATAAA-A
*
33034149 AATAATAATATTTACATATAT
1 AA-AAT--TATATACATATAT
33034170 TGAAATTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
27 10 0.16
28 27 0.43
29 15 0.24
31 2 0.03
32 9 0.14
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTATATACATATATATATATAAAA
Found at i:33034338 original size:17 final size:17
Alignment explanation
Indices: 33034316--33034359 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
33034306 TAGGAAATAA
33034316 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
33034333 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
33034350 -ATATGTATAT
1 AAAATGTATAT
33034360 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:33034362 original size:60 final size:61
Alignment explanation
Indices: 33034270--33034414 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 61
33034260 GTAAAAAAAA
* * * *
33034270 ATATAAAAGTATATATATATATATGCATATAAAAGTTA-GGAAATA-AAAAATGTATATGT
1 ATATAAAAGTAAATATATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATAT
* * *
33034329 ATATAAAATGTAAATGTATATATATGTATATAAAAGTTATGCAAATAGAATAATATATATAT
1 ATATAAAA-GTAAATATATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATAT
* *
33034391 ATATATATA-TATATATATATATAT
1 ATATA-AAAGTAAATATATATATAT
33034415 ATAATATGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 8 0.11
60 27 0.38
61 19 0.26
62 16 0.22
63 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (61 bp):
ATATAAAAGTAAATATATATATATGCATATAAAAGTTATGCAAATAGAAAAATATATATAT
Found at i:33034385 original size:33 final size:33
Alignment explanation
Indices: 33034288--33034393 Score: 84
Period size: 33 Copynumber: 3.4 Consensus size: 33
33034278 GTATATATAT
* * *
33034288 ATATATGCATATAAAAGTTA-GGAAATA-AAAA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
* *
33034319 ATGTATATGTATAT-AAA---ATGTAAAT-GTAT-
1 A--TATATGTATATAAAAGTTATGCAAATAGAATA
33034348 ATATATGTATATAAAAGTTATGCAAATAGAATA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
*
33034381 ATATATATATATA
1 ATATATGTATATA
33034394 TATATATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
27 11 0.19
28 3 0.05
29 2 0.03
30 6 0.10
31 8 0.14
32 6 0.10
33 22 0.38
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (33 bp):
ATATATGTATATAAAAGTTATGCAAATAGAATA
Found at i:33034388 original size:2 final size:2
Alignment explanation
Indices: 33034381--33034421 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
33034371 AAATAGAATA
33034381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33034422 GTGCATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33034504 original size:3 final size:3
Alignment explanation
Indices: 33034496--33034597 Score: 84
Period size: 3 Copynumber: 33.3 Consensus size: 3
33034486 GTGTATGTAT
* *
33034496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ACA ACTTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * *
33034546 ATA ACA AGA A-A ATC A-A AT- TTA ATA ATA ATAA ATA ATAA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA AT-A
33034591 ATA ATA A
1 ATA ATA A
33034598 ATAAAAAAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.05
3 66 0.81
4 9 0.11
5 2 0.02
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:33034581 original size:7 final size:7
Alignment explanation
Indices: 33034565--33034601 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
33034555 AAATCAAATT
33034565 TAAT-AA
1 TAATAAA
33034571 TAATAAA
1 TAATAAA
33034578 TAATAAA
1 TAATAAA
33034585 TAATAAA
1 TAATAAA
33034592 TAATAAA
1 TAATAAA
33034599 TAA
1 TAA
33034602 AAAAAGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:33034922 original size:19 final size:19
Alignment explanation
Indices: 33034898--33034947 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
33034888 AATCATATCT
*
33034898 TCTAAGATTGGATATCATA
1 TCTAAGATTGCATATCATA
33034917 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33034936 TCTAAGATTGCA
1 TCTAAGATTGCA
33034948 CATCCTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33043250 original size:25 final size:25
Alignment explanation
Indices: 33043222--33043312 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
33043212 TCCGACCCAC
*
33043222 AGCTCGTGTGAGCATATCGATTTAT
1 AGCTCGTGTGAGCATACCGATTTAT
* * * *
33043247 AGCTCATGAGAGCATACCAATTTAC
1 AGCTCGTGTGAGCATACCGATTTAT
* * *
33043272 AGTTCGAGTGAGCATACCGATTCAT
1 AGCTCGTGTGAGCATACCGATTTAT
* *
33043297 AACTCGTATGAGCATA
1 AGCTCGTGTGAGCATA
33043313 TATGTACATG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATTTAT
Found at i:33044495 original size:12 final size:12
Alignment explanation
Indices: 33044478--33044507 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33044468 TCAGGCTGTT
33044478 ACACGGCCTAGC
1 ACACGGCCTAGC
*
33044490 ACACGGCCTAGT
1 ACACGGCCTAGC
33044502 ACACGG
1 ACACGG
33044508 GAGTATGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:33048794 original size:51 final size:51
Alignment explanation
Indices: 33048734--33048839 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
33048724 TTGGGCTAGG
33048734 AACAAAAATAACTGAATTTTCCCAAAAATGATACTTGAACCCATAACCTCA
1 AACAAAAATAACTGAATTTTCCCAAAAATGATACTTGAACCCATAACCTCA
33048785 AACAAAAATAACTGAATTTTCCCAAAAATGATACTTGAACCCATAACCTCA
1 AACAAAAATAACTGAATTTTCCCAAAAATGATACTTGAACCCATAACCTCA
33048836 AACA
1 AACA
33048840 CACATCCAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.23
Consensus pattern (51 bp):
AACAAAAATAACTGAATTTTCCCAAAAATGATACTTGAACCCATAACCTCA
Found at i:33060232 original size:21 final size:22
Alignment explanation
Indices: 33060199--33060248 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
33060189 AATTTTTTTC
*
33060199 TATT-TTTTTAATTTTT-GAAT
1 TATTATTTTGAATTTTTAGAAT
*
33060219 TATTATTTTGAATTTTTAGATT
1 TATTATTTTGAATTTTTAGAAT
33060241 TA-TATTTT
1 TATTATTTT
33060249 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (22 bp):
TATTATTTTGAATTTTTAGAAT
Found at i:33060400 original size:29 final size:30
Alignment explanation
Indices: 33060367--33060427 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
33060357 TTTTCAATTT
*
33060367 TTATATTTAT-TATTTTGACATTTTA-AAAA
1 TTATATTTATATATTTAGA-ATTTTATAAAA
33060396 TTATATTTATATATTTAGAATTTTATAAAA
1 TTATATTTATATATTTAGAATTTTATAAAA
33060426 TT
1 TT
33060428 TTATAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
TTATATTTATATATTTAGAATTTTATAAAA
Found at i:33060419 original size:37 final size:39
Alignment explanation
Indices: 33060345--33060419 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
33060335 AATATGTTTT
* * **
33060345 CATTTTATAAAATTTTCAATTTTTATATTTATTATTTTGA
1 CATTTTATAAAATTAT-AATTTATATATTTAGAATTTTGA
33060385 CATTTTA-AAAATTAT-ATTTATATATTTAGAATTTT
1 CATTTTATAAAATTATAATTTATATATTTAGAATTTT
33060420 ATAAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 17 0.55
39 7 0.23
40 7 0.23
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (39 bp):
CATTTTATAAAATTATAATTTATATATTTAGAATTTTGA
Found at i:33062787 original size:10 final size:10
Alignment explanation
Indices: 33062772--33062802 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33062762 ATATTATTTA
*
33062772 TTAAATTATT
1 TTAAATTAAT
33062782 TTAAATTAAT
1 TTAAATTAAT
33062792 TTAAATTAAT
1 TTAAATTAAT
33062802 T
1 T
33062803 AATTTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:33075737 original size:24 final size:24
Alignment explanation
Indices: 33075710--33075757 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33075700 GCAAATTCTA
*
33075710 GGACTGAGGGTGGAGAAGATGTTG
1 GGACTAAGGGTGGAGAAGATGTTG
* *
33075734 GGACTAAGGGTGGGGACGATGTTG
1 GGACTAAGGGTGGAGAAGATGTTG
33075758 ATAGTGAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.50, T:0.21
Consensus pattern (24 bp):
GGACTAAGGGTGGAGAAGATGTTG
Found at i:33081593 original size:51 final size:51
Alignment explanation
Indices: 33081517--33081620 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 51
33081507 GAGCTAACGA
*
33081517 AATCCCGATACTATCCTTAAATCAATCAAGAGTTAATCTGCGAAGCTTTTC
1 AATCCCGATACTACCCTTAAATCAATCAAGAGTTAATCTGCGAAGCTTTTC
* * * *
33081568 AATCCCGATAGC-ACCCTTAAATCAATCAATAGTTAATTTGTGAAGTTTTTC
1 AATCCCGATA-CTACCCTTAAATCAATCAAGAGTTAATCTGCGAAGCTTTTC
33081619 AA
1 AA
33081621 ATATTCAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCCCGATACTACCCTTAAATCAATCAAGAGTTAATCTGCGAAGCTTTTC
Found at i:33082605 original size:28 final size:29
Alignment explanation
Indices: 33082565--33082634 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
33082555 GAGATCAGGG
*
33082565 TTGCTCACACAAG-TTGACA-TTTATGAAT
1 TTGCTCACACAAGCTAG-CATTTTATGAAT
*
33082593 TTGCTCACTCAAGCTAGCATTTTATGAAT
1 TTGCTCACACAAGCTAGCATTTTATGAAT
*
33082622 TTTCTCACACAAG
1 TTGCTCACACAAG
33082635 ATGAAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (29 bp):
TTGCTCACACAAGCTAGCATTTTATGAAT
Found at i:33083759 original size:20 final size:20
Alignment explanation
Indices: 33083734--33083771 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33083724 TTATTTAATC
33083734 ATTAATCCTTAATTAATTTA
1 ATTAATCCTTAATTAATTTA
*
33083754 ATTAATCTTTAATTAATT
1 ATTAATCCTTAATTAATT
33083772 AATCTTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAATCCTTAATTAATTTA
Found at i:33083771 original size:15 final size:16
Alignment explanation
Indices: 33083746--33083777 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33083736 TAATCCTTAA
33083746 TTAATTTAATTAATCT
1 TTAATTTAATTAATCT
33083762 TTAA-TTAATTAATCT
1 TTAATTTAATTAATCT
33083777 T
1 T
33083778 AACCTCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTTAATTAATCT
Found at i:33086744 original size:24 final size:24
Alignment explanation
Indices: 33086690--33086774 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
33086680 CTGATATTTA
33086690 CTCGTATGAGCTTACCG-TTACTCAG
1 CTCGTATGAGCTTACCGATTA--CAG
33086715 CTCGTATGAGCTTACCGATTACAG
1 CTCGTATGAGCTTACCGATTACAG
* * ** *
33086739 CTCGTAAGAGCATACTAATTCAGAG
1 CTCGTATGAGCTTACCGATT-ACAG
33086764 CTCGTATGAGC
1 CTCGTATGAGC
33086775 ATGCATGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
24 19 0.37
25 30 0.58
26 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
CTCGTATGAGCTTACCGATTACAG
Found at i:33099165 original size:44 final size:44
Alignment explanation
Indices: 33099102--33099187 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
33099092 TGGGAAGGTT
* ** *
33099102 GGAGTGATTTTAGGAGAAGATTATGGGATTGGGGAGGTTATCCC
1 GGAGTGATTTTAGGAGAAGACTATAAGATTGGGGAAGTTATCCC
33099146 GGAGTGATTTTAGGAGAAGACTATAAGATTGGGGAAGTTATC
1 GGAGTGATTTTAGGAGAAGACTATAAGATTGGGGAAGTTATC
33099188 TCGATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.36, T:0.29
Consensus pattern (44 bp):
GGAGTGATTTTAGGAGAAGACTATAAGATTGGGGAAGTTATCCC
Found at i:33100459 original size:27 final size:27
Alignment explanation
Indices: 33100400--33100461 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
33100390 CCCAAACTGA
* *
33100400 TATAAAATGACTGTTTTGCCCCTACAT
1 TATAAAATAACTGTTATGCCCCTACAT
** **
33100427 GGTAAAATAACTGTTATGCCCCTATGT
1 TATAAAATAACTGTTATGCCCCTACAT
33100454 TATAAAAT
1 TATAAAAT
33100462 GATTGTATGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (27 bp):
TATAAAATAACTGTTATGCCCCTACAT
Done.