Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold82
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: 2626005
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 196346 characters in sequence are not A, C, G, or T
File 13 of 17
Found at i:1724868 original size:8 final size:7
Alignment explanation
Indices: 1724839--1724865 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1724829 AAATATATAT
1724839 AATTTTA
1 AATTTTA
1724846 AATTTTA
1 AATTTTA
1724853 AATTTTA
1 AATTTTA
1724860 AATTTT
1 AATTTT
1724866 TAATAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:1724893 original size:28 final size:28
Alignment explanation
Indices: 1724860--1724924 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
1724850 TTAAATTTTA
* *
1724860 AATTTTTAATAATTT-AATATTTTTATT
1 AATTTTTAATAATTTAAATAATTTAATT
*
1724887 AAGTTTTAA-AATTTAAATAATTTAATAT
1 AATTTTTAATAATTTAAATAATTTAAT-T
1724915 AATTTTTAAT
1 AATTTTTAAT
1724925 GTCTATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 5 0.16
27 17 0.55
28 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
AATTTTTAATAATTTAAATAATTTAATT
Found at i:1725081 original size:19 final size:19
Alignment explanation
Indices: 1725059--1725097 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1725049 GATTTTTTTT
*
1725059 ATTTAA-ATTTATTTTTTAA
1 ATTTAATATTT-TTATTTAA
1725078 ATTTAATATTTTTATTTAA
1 ATTTAATATTTTTATTTAA
1725097 A
1 A
1725098 CCCTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTAATATTTTTATTTAA
Found at i:1725223 original size:17 final size:16
Alignment explanation
Indices: 1725193--1725229 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1725183 TATTATTTTT
1725193 TTTATTTCTCAAATTA
1 TTTATTTCTCAAATTA
*
1725209 TTTATATTCTTAAATTA
1 TTTAT-TTCTCAAATTA
1725226 TTTA
1 TTTA
1725230 CTAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTTCTCAAATTA
Found at i:1725658 original size:23 final size:23
Alignment explanation
Indices: 1725623--1725686 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
1725613 AACTAAATAT
* * *
1725623 TAATAAAAAATTTAAAATTATTTT
1 TAATTAAATATTTAAAATT-TTTA
*
1725647 TAATT-AATATTTATATATTTTTA
1 TAATTAAATATTTA-AAATTTTTA
*
1725670 TAATTAAATTTTTAAAA
1 TAATTAAATATTTAAAA
1725687 AAATATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTAAATATTTAAAATTTTTA
Found at i:1726760 original size:15 final size:15
Alignment explanation
Indices: 1726728--1726769 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
1726718 TTATACTTAA
*
1726728 TTTAAATT-AATTTT
1 TTTAAATTAAATATT
1726742 TTTAAATTAAATATT
1 TTTAAATTAAATATT
1726757 TTTAAATTTAAAT
1 TTTAAA-TTAAAT
1726770 TAATCGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.32
15 11 0.44
16 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAATTAAATATT
Found at i:1726768 original size:35 final size:38
Alignment explanation
Indices: 1726725--1726814 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 38
1726715 AAATTATACT
1726725 TAATTTAAATTAATTTTTTTAAATTA-AATATTTTT-A
1 TAATTTAAATTAATTTTTTTAAATTATAATATTTTTAA
** * *
1726761 -AATTTAAATTAATCGATTTTAAATTATTATTTTTTTAA
1 TAATTTAAATTAAT-TTTTTTAAATTATAATATTTTTAA
*
1726799 TAAATTAAATTAATTT
1 TAATTTAAATTAATTT
1726815 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
35 13 0.30
36 10 0.23
37 7 0.16
38 1 0.02
39 12 0.28
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (38 bp):
TAATTTAAATTAATTTTTTTAAATTATAATATTTTTAA
Found at i:1727477 original size:15 final size:18
Alignment explanation
Indices: 1727447--1727483 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
1727437 TTTTAATAAA
1727447 ATTTTATAAATATTAT-T
1 ATTTTATAAATATTATAT
1727464 ATTTTA-AAAT-TTATAT
1 ATTTTATAAATATTATAT
1727480 ATTT
1 ATTT
1727484 AATATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 9 0.47
17 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATAAATATTATAT
Found at i:1727493 original size:16 final size:16
Alignment explanation
Indices: 1727447--1727494 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
1727437 TTTTAATAAA
1727447 ATTTTATAAATATTATT
1 ATTTTA-AAATATTATT
1727464 ATTTTAAAAT-TTA-T
1 ATTTTAAAATATTATT
*
1727478 ATATTTAATATATTATT
1 AT-TTTAAAATATTATT
1727495 TTCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 7 0.26
17 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAAAATATTATT
Found at i:1727514 original size:29 final size:31
Alignment explanation
Indices: 1727456--1727526 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
1727446 AATTTTATAA
* *
1727456 ATATTATTATTTTAAAATTTATATATTTAAT
1 ATATTATTATTTTAAAATTTATAAAGTTAAT
1727487 ATATTATT-TTCTT-AAATTTA-AAAGTTAAT
1 ATATTATTATT-TTAAAATTTATAAAGTTAAT
*
1727516 GTATTAATTAT
1 ATATT-ATTAT
1727527 ATTTTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 11 0.32
30 12 0.35
31 11 0.32
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (31 bp):
ATATTATTATTTTAAAATTTATAAAGTTAAT
Found at i:1727833 original size:21 final size:21
Alignment explanation
Indices: 1727791--1727832 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1727781 TATGACTTGA
1727791 AATAATATTTTTAAATTAAAAT
1 AATAATATTTTT-AATTAAAAT
*
1727813 AATATATATTTTTATTTAAA
1 AATA-ATATTTTTAATTAAA
1727833 TTTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAATATTTTTAATTAAAAT
Found at i:1727995 original size:18 final size:18
Alignment explanation
Indices: 1727969--1728006 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1727959 AAATTTTTTC
1727969 TGACCACAGCTTGGCCTG
1 TGACCACAGCTTGGCCTG
*
1727987 TGACTACAGCTTGGCCTG
1 TGACCACAGCTTGGCCTG
1728005 TG
1 TG
1728007 GATGCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (18 bp):
TGACCACAGCTTGGCCTG
Found at i:1728522 original size:3 final size:3
Alignment explanation
Indices: 1728514--1728557 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1728504 AGTTTAAAGG
1728514 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1728558 TCTTCATCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1734679 original size:52 final size:52
Alignment explanation
Indices: 1734623--1734748 Score: 180
Period size: 52 Copynumber: 2.4 Consensus size: 52
1734613 ATCGATACTT
* * ** *
1734623 TGAAAAATGTATTGATATATTTAGGTCAAAAACTTAGAACGTATCAATATAA
1 TGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGAACGTATCAATACAA
* * *
1734675 TGAAAAATGTATCAATACATTTGGGTCAAAAACCCAGAACGTATCGATACAA
1 TGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGAACGTATCAATACAA
1734727 TGAAAAATGTATCGATACATTT
1 TGAAAAATGTATCGATACATTT
1734749 TCTTTCCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.29
Consensus pattern (52 bp):
TGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGAACGTATCAATACAA
Found at i:1734851 original size:21 final size:20
Alignment explanation
Indices: 1734785--1734855 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
1734775 GCGTGATCCA
***
1734785 GTATCGATACATTTCAAGCAT
1 GTATCGATACA-TTCACTTAT
1734806 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
*
1734826 ATATCGATACTATTCA-TTATT
1 GTATCGATAC-ATTCACTTA-T
1734847 GTATCGATA
1 GTATCGATA
1734856 TAAATTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 18 0.42
21 25 0.58
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTCACTTAT
Found at i:1735479 original size:21 final size:20
Alignment explanation
Indices: 1735455--1735500 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1735445 TTTTATAATT
1735455 TGTATCAATACAAACAGTAAA
1 TGTATCAATACAAA-AGTAAA
* * *
1735476 TGTATCGATACATAAGTGAA
1 TGTATCAATACAAAAGTAAA
1735496 TGTAT
1 TGTAT
1735501 TGATATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
TGTATCAATACAAAAGTAAA
Found at i:1735499 original size:20 final size:21
Alignment explanation
Indices: 1735455--1735505 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
1735445 TTTTATAATT
*
1735455 TGTATCAATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* *
1735476 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAACAGTAAA
*
1735496 TGTATTGATA
1 TGTATCGATA
1735506 TACATGCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:1740948 original size:52 final size:51
Alignment explanation
Indices: 1740800--1740928 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 51
1740790 CGAAATATGA
*
1740800 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTTGGC
1 AAATTTG-CTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1740852 AAATTTGCGTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGC-TGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1740904 AAATTTGTCTGCATGTATTGATACA
1 AAATTTG-CTGCATGTATCGATACA
1740929 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
51 1 0.01
52 69 0.97
53 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (51 bp):
AAATTTGCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1740955 original size:13 final size:13
Alignment explanation
Indices: 1740937--1740961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1740927 CAAAGATCAG
1740937 TGTATCGATACAA
1 TGTATCGATACAA
1740950 TGTATCGATACA
1 TGTATCGATACA
1740962 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1741024 original size:13 final size:13
Alignment explanation
Indices: 1741006--1741121 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
1740996 AGCTTCGTAG
1741006 CGATACATTGTAT
1 CGATACATTGTAT
1741019 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1741038 CGATACATTGTAT
1 CGATACATTGTAT
1741051 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
1741070 CGATACATTGTAT
1 CGATACATTGTAT
1741083 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
1741102 CGATACATTGTAT
1 CGATACATTGTAT
1741115 CGATACA
1 CGATACA
1741122 AATCGTTGAA
Statistics
Matches: 85, Mismatches: 0, Indels: 36
0.70 0.00 0.30
Matches are distributed among these distances:
13 35 0.41
14 2 0.02
15 2 0.02
16 14 0.16
17 2 0.02
18 2 0.02
19 28 0.33
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1741038 original size:19 final size:18
Alignment explanation
Indices: 1741014--1741108 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
1741004 AGCGATACAT
1741014 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1741033 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1741046 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1741065 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1741078 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1741097 TGTATCGATACA
1 TGTATCGATACA
1741109 TTGTATCGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1741047 original size:32 final size:32
Alignment explanation
Indices: 1741006--1741123 Score: 218
Period size: 32 Copynumber: 3.7 Consensus size: 32
1740996 AGCTTCGTAG
1741006 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1741038 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1741070 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1741102 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
1741124 TCGTTGAAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 84 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1742305 original size:92 final size:94
Alignment explanation
Indices: 1741819--1742385 Score: 687
Period size: 92 Copynumber: 5.9 Consensus size: 94
1741809 ATAAGAAGAA
* ** *
1741819 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAAATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT-AAAA-GATGAAGGCGCCAATATGCT
* *
1741884 GATTCAAGGCCAGCGATACTAGACTTAAAGATGAAGG
63 GATTCAAGGCCAGCGATATTGGACTT-AA-AT---GG
* * * *
1741921 TGCTAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAAAAGACGTCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATG---AAGGCGCCAATATGCT
*
1741986 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
63 GATTCAAGGCCAGCGATATTGGACTT-AA-AT---GG
1742023 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATG---AAGGCGCCAATATGCT
1742087 GATTCAAGGCCAGCGATATTGGACTTAAA-GG
63 GATTCAAGGCCAGCGATATTGGACTTAAATGG
* * * *
1742118 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGCGCCAATATGCTGAT
* **
1742183 TCAAGGCCAACGATATTGGACTTGGA-GG
66 TCAAGGCCAGCGATATTGGACTTAAATGG
* * *
1742211 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGATGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGCGCCAATATGCTGAT
1742275 TCAAGGCCAGCGATATTGGACTT-AATGG
66 TCAAGGCCAGCGATATTGGACTTAAATGG
* * * *
1742303 TGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTT-AAAGATGATGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGCGCCAATATGCTGAT
*
1742367 TCAAGGCCAACGATATTGG
66 TCAAGGCCAGCGATATTGG
1742386 GTTTAAAAGA
Statistics
Matches: 428, Mismatches: 32, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
91 1 0.00
92 130 0.30
93 77 0.18
95 38 0.09
96 7 0.02
99 4 0.01
100 6 0.01
101 52 0.12
102 113 0.26
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (94 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAGGCGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAATGG
Found at i:1742392 original size:49 final size:49
Alignment explanation
Indices: 1741770--1742385 Score: 584
Period size: 49 Copynumber: 12.6 Consensus size: 49
1741760 AAAAGGATGT
* * * * * * *
1741770 CAATGTGCTAATTCATGGTCAGCGACATTAGACTTGAAGATAAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG-GTGC
* * ** * *
1741822 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAAATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTT--AAA-GATGAAGGTGC
* * *
1741875 CAATATGCTGATTCAAGGCCAGCGATACTAGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** *
1741924 TAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAAGATGAAAAAGACGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG---AAGGTGC
* *
1741977 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
1742026 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
*
1742078 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
1742121 TAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAAGGTGC
* *
1742171 CAATATGCTGATTCAAGGCCAACGATATTGGACTT---G--G-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
1742214 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
1742263 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-AT---GGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
1742306 CAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGATGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
1742355 CAATATGCTGATTCAAGGCCAACGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
1742386 GTTTAAAAGA
Statistics
Matches: 464, Mismatches: 70, Indels: 63
0.78 0.12 0.11
Matches are distributed among these distances:
43 109 0.23
44 1 0.00
45 1 0.00
46 6 0.01
47 1 0.00
48 3 0.01
49 151 0.33
50 46 0.10
52 74 0.16
53 64 0.14
54 4 0.01
55 2 0.00
56 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:1742428 original size:32 final size:33
Alignment explanation
Indices: 1742383--1742559 Score: 215
Period size: 32 Copynumber: 5.5 Consensus size: 33
1742373 CCAACGATAT
* * *
1742383 TGGG-TTTAAAAGAA-GATGCCACCAACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
1742414 TGGGCTTTTGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
* *
1742447 TGGGCTTTAG-AG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAAGAAGG-TTGCCACCGACTTGTG
*
1742479 TGGGCTTTAGAAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1742512 TGGGCTTT-G-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
*
1742544 TGGGCTTT-GGAGAAGG
1 TGGGCTTTAGAAGAAGG
1742560 GAAAGGTGCC
Statistics
Matches: 128, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
31 9 0.07
32 65 0.51
33 52 0.41
34 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:1742503 original size:65 final size:65
Alignment explanation
Indices: 1742399--1742551 Score: 254
Period size: 65 Copynumber: 2.4 Consensus size: 65
1742389 TAAAAGAAGA
* * *
1742399 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAGGGGA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGG-
1742463 T
65 T
1742464 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
*
1742529 TGCCACCGACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
1742552 GGAGAAGGGA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
65 77 0.93
66 6 0.07
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (65 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
Found at i:1742604 original size:34 final size:33
Alignment explanation
Indices: 1742561--1742734 Score: 216
Period size: 34 Copynumber: 5.3 Consensus size: 33
1742551 TGGAGAAGGG
1742561 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAAGAA
* * *
1742595 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAA
1742628 AAAGAGTGCCACGGAGTTGTGGGCTT-AAAAG--
1 AAAG-GTGCCACGGAGTTGTGGGCTTAAAAAGAA
* * *
1742659 ---GGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAA
1742689 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAAGAA
1742724 AAAGGTGCCAC
1 AAAGGTGCCAC
1742735 TAAGTCGTGG
Statistics
Matches: 119, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
27 20 0.17
28 4 0.03
33 16 0.13
34 67 0.56
35 12 0.10
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAA
Found at i:1742657 original size:27 final size:27
Alignment explanation
Indices: 1742627--1742719 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
1742617 CTTAGAAGGA
1742627 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
* *
1742654 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
1742681 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 -------AAAAGAGTGCCACGGAGTTGTGGGC-TT
1742716 AAAA
1 AAAA
1742720 AGAAAAAGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
27 25 0.46
28 4 0.07
34 23 0.43
35 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1742669 original size:61 final size:62
Alignment explanation
Indices: 1742561--1742721 Score: 245
Period size: 61 Copynumber: 2.5 Consensus size: 62
1742551 TGGAGAAGGG
1742561 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTT------AAAAAGGTGCCACGGAGTTGTGGACTTAGAAG
1742625 GAA
60 GAA
*
1742628 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
1742689 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1742722 AAAAAGGTGC
Statistics
Matches: 90, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
61 58 0.64
62 7 0.08
67 6 0.07
68 19 0.21
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.20
Consensus pattern (62 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA
Found at i:1742805 original size:64 final size:61
Alignment explanation
Indices: 1742723--1742874 Score: 209
Period size: 61 Copynumber: 2.5 Consensus size: 61
1742713 TTTAAAAAGA
* * *
1742723 AAAAGG-TGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCCACTGGGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGAC-AAA-ACGCCACTGAGTCGTGGACTTT-AAG
*
1742786 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAACGCCACTGAGTCGTGGGCTTTAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAACGCCACTGAGTCGTGGACTTTAAG
*
1742847 AAGA-GATTGCCACTGAGTCGTGGACTTT
1 AAAAGGA-TGCCACTGAGTCGTGGACTTT
1742875 AAGAAGGTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
60 2 0.02
61 27 0.33
62 19 0.23
63 9 0.11
64 25 0.30
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (61 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAACGCCACTGAGTCGTGGACTTTAAG
Found at i:1742880 original size:31 final size:30
Alignment explanation
Indices: 1742723--1742879 Score: 181
Period size: 32 Copynumber: 5.1 Consensus size: 30
1742713 TTTAAAAAGA
* * *
1742723 AAAAGGTGCCACTAAGTCGTGGACTTTGAGAC
1 AAAAGATGCCACTGAGTCGTGGACTTT-A-AG
*
1742755 AAAAGATGCCACTGGGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT-AAG
*
1742786 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTAAG
* *
1742817 ACAAA-ACGCCACTGAGTCGTGGGCTTTAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAG
*
1742847 AAGAGATTGCCACTGAGTCGTGGACTTTAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTAAG
1742878 AA
1 AA
1742880 GGTATTTGAA
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.02
30 24 0.22
31 32 0.29
32 51 0.47
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAG
Found at i:1743873 original size:11 final size:11
Alignment explanation
Indices: 1743828--1743873 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
1743818 TTTTCCTCTC
1743828 TTTCTTTTT-T
1 TTTCTTTTTGT
*
1743838 TTTATTTTTGT
1 TTTCTTTTTGT
*
1743849 TTTGTTTTTGT
1 TTTCTTTTTGT
1743860 TTTCCTTTTT-T
1 TTT-CTTTTTGT
1743871 TTT
1 TTT
1743874 GTGTTGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 8 0.26
11 18 0.58
12 5 0.16
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTGT
Found at i:1751254 original size:19 final size:17
Alignment explanation
Indices: 1751226--1751324 Score: 88
Period size: 19 Copynumber: 5.9 Consensus size: 17
1751216 TCGTAGCGAT
1751226 ACTTTGTATCGATACAAA
1 ACTTTGTATCGATAC-AA
1751244 ACTTATGTATCGATAC--
1 ACTT-TGTATCGATACAA
1751260 A--TTGTATCGATACAA
1 ACTTTGTATCGATACAA
1751275 CACTTATGTATCGATAC--
1 -ACTT-TGTATCGATACAA
1751292 A--TTGTATCGATACAA
1 ACTTTGTATCGATACAA
1751307 CACTTATGTATCGATACA
1 -ACTT-TGTATCGATACA
1751325 TTGTATCGAT
Statistics
Matches: 68, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.32
14 2 0.03
16 4 0.06
18 6 0.09
19 34 0.50
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (17 bp):
ACTTTGTATCGATACAA
Found at i:1751265 original size:32 final size:32
Alignment explanation
Indices: 1751222--1751339 Score: 200
Period size: 32 Copynumber: 3.7 Consensus size: 32
1751212 AGCTTCGTAG
*
1751222 CGATACTTTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1751254 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1751286 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1751318 CGATACATTGTATCGATGCAAA
1 CGATACATTGTATCGATACAAA
1751340 TCGTTGAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1751267 original size:13 final size:13
Alignment explanation
Indices: 1751249--1751334 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 13
1751239 ACAAAACTTA
1751249 TGTATCGATACAT
1 TGTATCGATACAT
1751262 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1751280 ATGTATCGATACAT
1 -TGTATCGATACAT
1751294 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1751312 ATGTATCGATACAT
1 -TGTATCGATACAT
1751326 TGTATCGAT
1 TGTATCGAT
1751335 GCAAATCGTT
Statistics
Matches: 61, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
13 27 0.44
14 2 0.03
16 12 0.20
18 2 0.03
19 18 0.30
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1753405 original size:32 final size:32
Alignment explanation
Indices: 1753369--1753462 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
1753359 TAGAGAAATG
* * *
1753369 TTAACTAATGCTTGTTGGTAATTAAATAATCT
1 TTAACTAATACTTATTAGTAATTAAATAATCT
*
1753401 TTAACTAATATTTATTAGTAATTAAATAATCT
1 TTAACTAATACTTATTAGTAATTAAATAATCT
* * *
1753433 TTAACCAATATTTA-TCGATAATTAAATAAT
1 TTAACTAATACTTATTAG-TAATTAAATAAT
1753463 GGCTAAAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 2 0.04
32 53 0.96
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (32 bp):
TTAACTAATACTTATTAGTAATTAAATAATCT
Found at i:1753589 original size:28 final size:29
Alignment explanation
Indices: 1753534--1753589 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
1753524 TATTTCACCC
* * *
1753534 AAATAAGTCTCAATCTTTAATTTTTACTT
1 AAATAAGCCTCAATCTTTAAATTATACTT
*
1753563 AAATAAGCCTTAA-CTTTAAATTATACT
1 AAATAAGCCTCAATCTTTAAATTATACT
1753590 CAATAAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (29 bp):
AAATAAGCCTCAATCTTTAAATTATACTT
Found at i:1753858 original size:25 final size:26
Alignment explanation
Indices: 1753826--1753874 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1753816 GAGGAAGAAA
1753826 AAAGGAAAAAA-AGAAAATTTTTTAG
1 AAAGGAAAAAAGAGAAAATTTTTTAG
*
1753851 AAAGGAAAAAAGAGAAATTTTTTT
1 AAAGGAAAAAAGAGAAAATTTTTT
1753875 TTAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (26 bp):
AAAGGAAAAAAGAGAAAATTTTTTAG
Found at i:1753882 original size:21 final size:22
Alignment explanation
Indices: 1753856--1753902 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1753846 TTTAGAAAGG
* *
1753856 AAAAAAGAGAAA-TTTTTTTTT
1 AAAAAAGAAAAAGTTATTTTTT
1753877 AAAAAAGAAAAAGTTATTTTTT
1 AAAAAAGAAAAAGTTATTTTTT
1753899 AAAA
1 AAAA
1753903 TTTTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
AAAAAAGAAAAAGTTATTTTTT
Found at i:1754657 original size:140 final size:137
Alignment explanation
Indices: 1754406--1754678 Score: 318
Period size: 140 Copynumber: 1.9 Consensus size: 137
1754396 TCCAATTCTT
*
1754406 ATGTATCAAAAGATAATAAAAATTTTATCGATTTTAAGAAAAATATGAATAAAAAATGAAATAAA
1 ATGTATCAAAAGATAATAAAAATTTTATCAATTTTAAGAAAAATATGAATAAAAAATGAAATAAA
* * * * *
1754471 AATACTAGTTGATTTATTTTTTTATTTGTCAAATTGGATTAAAAAAAATCTAACTATGAAAAGAT
66 AATA-GAGTTGATTTATCTTTTCATTTATCAAATTAGATTAAAAAAAATCTAACTATGAAAAGAT
1754536 AATAAGAA
130 AATAAGAA
* ** *
1754544 ATGTATTAAAAGATAATAATATTTTTTTATCAATTTTAAGAAAAATATGAATTAAAAATGATAAT
1 ATGTATCAAAAGATAATAA-A-AATTTTATCAATTTTAAGAAAAATATGAATAAAAAATGA-AAT
* * * *
1754609 AACAAT-GA-TTGATTTATCCCTTTTCATTTATCAAATTAAGTTTTAAAAAAATTCTAGA-TATA
63 AAAAATAGAGTTGATTTAT--CTTTTCATTTATCAAATT-AG-ATTAAAAAAAATCTA-ACTATG
1754671 AAAAGATA
123 AAAAGATA
1754679 GTAAAATATG
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
138 27 0.24
139 2 0.02
140 50 0.44
141 9 0.08
142 24 0.21
143 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (137 bp):
ATGTATCAAAAGATAATAAAAATTTTATCAATTTTAAGAAAAATATGAATAAAAAATGAAATAAA
AATAGAGTTGATTTATCTTTTCATTTATCAAATTAGATTAAAAAAAATCTAACTATGAAAAGATA
ATAAGAA
Found at i:1755170 original size:23 final size:20
Alignment explanation
Indices: 1755129--1755166 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1755119 GACAATTTAG
*
1755129 ATTTTTATTATATTTTAAAT
1 ATTTTTATTATATTATAAAT
1755149 ATTTTTATTGATA-TATAA
1 ATTTTTATT-ATATTATAA
1755167 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTTATTATATTATAAAT
Found at i:1755183 original size:19 final size:17
Alignment explanation
Indices: 1755161--1755202 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
1755151 TTTTATTGAT
1755161 ATATAATAAAAATTATTAA
1 ATATAATAAAAA-T-TTAA
*
1755180 ATAT-ATTAAAATTTAA
1 ATATAATAAAAATTTAA
1755196 ATATAAT
1 ATATAAT
1755203 TATAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 3 0.14
18 6 0.29
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATAAAAATTTAA
Found at i:1755218 original size:17 final size:17
Alignment explanation
Indices: 1755198--1755250 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
1755188 AAATTTAAAT
1755198 ATAATTATAATATATTA
1 ATAATTATAATATATTA
* **
1755215 ATAAATATAGCATATTA
1 ATAATTATAATATATTA
*
1755232 ATAATGTTTAAATATATTA
1 ATAAT-TAT-AATATATTA
1755251 TACTTATTAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 18 0.67
18 2 0.07
19 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAATTATAATATATTA
Found at i:1755447 original size:2 final size:2
Alignment explanation
Indices: 1755440--1755472 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1755430 TATCCTTTAC
1755440 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
1755473 AACATAGATG
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:1759367 original size:6 final size:6
Alignment explanation
Indices: 1759358--1759399 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
1759348 ATTATTATTA
* * *
1759358 TTCCAT TTCCAC TTCCAT TTCCAC TTCCAT TTCCAC TTCCAC
1 TTCCAC TTCCAC TTCCAC TTCCAC TTCCAC TTCCAC TTCCAC
1759400 GCTTCCACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (6 bp):
TTCCAC
Found at i:1759373 original size:12 final size:12
Alignment explanation
Indices: 1759358--1759398 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
1759348 ATTATTATTA
1759358 TTCCATTTCCAC
1 TTCCATTTCCAC
1759370 TTCCATTTCCAC
1 TTCCATTTCCAC
1759382 TTCCATTTCCAC
1 TTCCATTTCCAC
1759394 TTCCA
1 TTCCA
1759399 CGCTTCCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.17, C:0.41, G:0.00, T:0.41
Consensus pattern (12 bp):
TTCCATTTCCAC
Found at i:1764506 original size:40 final size:39
Alignment explanation
Indices: 1764462--1764557 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 39
1764452 TATAAATATA
*
1764462 ATTAAAATTTTTTATATATATTTTTATATTAATAATTTAT
1 ATTAAAATTTTTTA-ATATATTTATATATTAATAATTTAT
* * *
1764502 ATTAAATAATAATTTTAATATATTTATATATTTATATTTTAT
1 ATT-AA-AAT-TTTTTAATATATTTATATATTAATAATTTAT
1764544 -TTAAATTATTTTTT
1 ATTAAA--ATTTTTT
1764558 TCTGCTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
39 1 0.02
40 9 0.20
41 6 0.13
42 25 0.54
43 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (39 bp):
ATTAAAATTTTTTAATATATTTATATATTAATAATTTAT
Found at i:1764511 original size:14 final size:13
Alignment explanation
Indices: 1764484--1764530 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
1764474 TATATATATT
1764484 TTTATATTAATAA
1 TTTATATTAATAA
1764497 TTTATATTAAATAA
1 TTTATATT-AATAA
* *
1764511 -TAATTTTAATATA
1 TTTATATTAATA-A
1764524 TTTATAT
1 TTTATAT
1764531 ATTTATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.15
13 14 0.52
14 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTATATTAATAA
Found at i:1765155 original size:21 final size:21
Alignment explanation
Indices: 1765118--1765157 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1765108 TTATACGTGA
*
1765118 ATTTATAAATTTAATTTTTTT
1 ATTTATAAATATAATTTTTTT
1765139 ATTTATAAA-ATATATTTTT
1 ATTTATAAATATA-ATTTTT
1765158 ACTTCAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATAAATATAATTTTTTT
Found at i:1770731 original size:32 final size:31
Alignment explanation
Indices: 1770672--1770735 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
1770662 GAAAATTTTA
*
1770672 TTTTATTATGTAAATTATTAAAATAAATATAT
1 TTTTATTATGTAAATTATCAAAATAAAT-TAT
* **
1770704 TTTTATTATTTAAATTATCAATCTAAATTAT
1 TTTTATTATGTAAATTATCAAAATAAATTAT
1770735 T
1 T
1770736 AAGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTTATTATGTAAATTATCAAAATAAATTAT
Found at i:1774116 original size:20 final size:20
Alignment explanation
Indices: 1774069--1774141 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
1774059 AAAAAGACAT
*
1774069 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1774088 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1774109 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1774129 AATGTATCGATAC
1 AATGTATCGATAC
1774142 CTCAGGGTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1774137 original size:40 final size:39
Alignment explanation
Indices: 1774066--1774141 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
1774056 GGTAAAAAGA
* *
1774066 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1774105 CATACATGTATCGATATATTGAAAAATGTATCGATAC
1 CATA-ATGTATCGATACATTGAAAAATATATCGATAC
1774142 CTCAGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1775390 original size:202 final size:201
Alignment explanation
Indices: 1774532--1775742 Score: 1641
Period size: 199 Copynumber: 6.1 Consensus size: 201
1774522 AGCAAACTTC
* *
1774532 ATATTAT-AAAAAATTTATTGATTTCAAAAAAAATTTTTGAGAAAAAACTCATAATAAACATTAG
1 ATATTATAAAAAAATTTATTGATTTC-AAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAG
* * * *
1774596 CGTTTATATTAAAAAATCATAATTTATCTATTAATTAATATTATGAAGTTTAGACTCAATTAATC
65 CATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATC
* *
1774661 TATATAAATTAAAAAAA-AGTTAAAGCAAAATTCTTAATAATTTATT-ATAAATAAATATAATTA
130 TATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATTAAAAAATAAATAAAATTA
*
1774724 ATAATTA
195 TTAATTA
* * *
1774731 ATATTATAAAAAATTTTATTGATTTCAAAAAAATCGTTGAGAAAAAACCCATAATAAATATTAGC
1 ATATTATAAAAAAATTTATTGATTTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAGC
** * * *
1774796 ATTTATGTT-AAAAATTGTATTTTATTTATTAATTAATATTATGAAGTTTAAAATCAATGAATCT
66 ATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATCT
*
1774860 ATATAAATTAAAAAAAGAGTTAAAGCAAAATTCCTAATAATTTATTAAAAAATAAATAAAATTAT
131 ATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATTAAAAAATAAATAAAATTAT
1774925 TAATTA
196 TAATTA
* * *
1774931 ATATTATAAAAAAATTTATTGATTTCAAAAAAATCTTTAAGAAAAAA-CTATAATAAATATTAGC
1 ATATTATAAAAAAATTTATTGATTTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAGC
* * * * * *
1774995 ATTTATGTT-TAAAACCGTATTTTATTTATTAATTAATATTATGAAATTTAGACTTAATGAATC-
66 ATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATCT
* * * *
1775058 -TAT--ATGAAAAAAA-AGTTAAAGTAAAATTTTTAATAATTTATTAAAAAATAAAT-AAATCAA
131 ATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATTAAAAAATAAATAAAAT-TA
*
1775118 TTACTTA
195 TTAATTA
* *
1775125 ATATTACTAAAAAAA-AT-TTGATTTCAAAAAAATCTTTGAGAAAAAATCCATAATAAACATTAG
1 ATATTA-TAAAAAAATTTATTGATTTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAG
* * *
1775188 CATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTACGAATTTTAGATTCAATGAATC
65 CATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATC
* * *
1775253 TATATAAGTGAAAAAAAGAGTTAAAGCAAAATTCTTAATAACTTATTGAAAACAATAAATAAAAT
130 TATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATT-AAAA-AATAAATAAAAT
1775318 TATTAATTA
193 TATTAATTA
1775327 ATATTATAAAAAAATTTATTGATATT-AAAAAAATCTTTGA-AAAAAACCCATAATAAACATTAG
1 ATATTATAAAAAAATTTATTGAT-TTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAG
* * * * *
1775390 CATTTCTGTTAAAAAATCGTATTTTATCTATTAATTAATACTATAAAGTTTAGACTCATTGAATC
65 CATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATC
* *
1775455 TATATAAATTAAAAAAGGAGTTAAAAAGCAAATTTCTTAATAATTTATTAAAAAAATAAATAAAA
130 TATATAAATTAAAAAAAGAGTT--AAAGCAAAATTCTTAATAATTTATT-AAAAAATAAATAAAA
1775520 TTATTAATTA
192 TTATTAATTA
* * ** * *
1775530 ATATTAT-AAAAAGTTTAGTGATTT-AAAAAAA-AATTAAGAAAAAACCCGTAATAAACATTAGC
1 ATATTATAAAAAAATTTATTGATTTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAGC
*
1775592 ATTTATGTTAAAAAATTATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATCT
66 ATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATCT
* * * * *
1775657 ATGTAAATTAACATAAGAGTTAAAGCAAAATTCTCAATAATTTATTGAAAAAAATAAATAAATTT
131 ATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATT--AAAAAATAAATAAAATT
*
1775722 TTTAATTA
194 ATTAATTA
*
1775730 TTATTATAAAAAA
1 ATATTATAAAAAA
1775743 TTGAAAAAAT
Statistics
Matches: 899, Mismatches: 90, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
193 32 0.04
194 75 0.08
195 63 0.07
197 6 0.01
198 64 0.07
199 181 0.20
200 141 0.16
201 125 0.14
202 132 0.15
203 51 0.06
204 29 0.03
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (201 bp):
ATATTATAAAAAAATTTATTGATTTCAAAAAAATCTTTGAGAAAAAACCCATAATAAACATTAGC
ATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATTATGAAGTTTAGACTCAATGAATCT
ATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATAATTTATTAAAAAATAAATAAAATTAT
TAATTA
Found at i:1775786 original size:42 final size:42
Alignment explanation
Indices: 1775700--1775783 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 42
1775690 TCAATAATTT
* *
1775700 ATTGAAAAAAATAAATAAATTTTTTAATTATTATTATAAAAA
1 ATTGAAAAAAATAAATAAAATTATTAATTATTATTATAAAAA
1775742 ATTG-AAAAAATAAATAAAATTATTAATTAATT-TTATAAAAA
1 ATTGAAAAAAATAAATAAAATTATTAATT-ATTATTATAAAAA
1775783 A
1 A
1775784 ATTTATTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
41 32 0.82
42 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (42 bp):
ATTGAAAAAAATAAATAAAATTATTAATTATTATTATAAAAA
Found at i:1775931 original size:243 final size:242
Alignment explanation
Indices: 1775505--1775988 Score: 738
Period size: 243 Copynumber: 2.0 Consensus size: 242
1775495 TAATTTATTA
*
1775505 AAAAAATAAATAAAATTATTAATTAATATTATAAAAAGTTTAGTGATTTAAAAAAAAATTAAGAA
1 AAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTAGTGATTTAAAAAAAAATTAAGAA
* ** *
1775570 AAAACCCGTAATAAACATTAGCATTTATGTTAAAAAATTATATTTTATCTATTAATTAATATTAT
66 AAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAATATTAT
* *
1775635 GAAGTTTAGACTCAATGAATCTATGTAAATTAACATAAGAGTTAAAGCAAAATTCTCAATAATTT
131 GAAGTTTAGACTCAATGAATCTATATAAATTAACAAAAGAGTTAAAGCAAAATTCTCAATAATTT
* * * *
1775700 ATTGAAAAAAATAAATAAATTTTTTAATTATTATT-ATAAAAAATTG
196 ATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTG
* * *
1775746 AAAAAATAAATAAAATTATTAATTAATTTTATAAAAAAATTTATTGATTTCAAAAAAAAATTGAG
1 AAAAAATAAATAAAATTATTAATTAATATTAT-AAAAAATTTAGTGATTT-AAAAAAAAATTAAG
* * * * *
1775811 AAAAGACCCATAATAAACATTTGGATTTATGTTATAAAACCGTATTTTATCCATTAATTAATATT
64 AAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAATATT
* *
1775876 ATGAAGTTTAGACTCAATGTATCTATATAAATTGAA-AAAAGAGTTAAAGCAAAATTCTTAATAA
129 ATGAAGTTTAGACTCAATGAATCTATATAAATT-AACAAAAGAGTTAAAGCAAAATTCTCAATAA
1775940 TTTATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATT
193 TTTATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATT
1775989 TATTGATTTC
Statistics
Matches: 218, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
241 31 0.14
242 15 0.07
243 160 0.73
244 12 0.06
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (242 bp):
AAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTAGTGATTTAAAAAAAAATTAAGAA
AAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAATATTAT
GAAGTTTAGACTCAATGAATCTATATAAATTAACAAAAGAGTTAAAGCAAAATTCTCAATAATTT
ATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTG
Found at i:1775966 original size:22 final size:22
Alignment explanation
Indices: 1775941--1775984 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1775931 TCTTAATAAT
1775941 TTATTGAAA-AAAATAAATAAAA
1 TTATT-AAATAAAATAAATAAAA
* *
1775963 TTATTAAATAATATTAATAAAA
1 TTATTAAATAAAATAAATAAAA
1775985 AATTTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TTATTAAATAAAATAAATAAAA
Found at i:1776266 original size:200 final size:199
Alignment explanation
Indices: 1775742--1776570 Score: 1107
Period size: 202 Copynumber: 4.2 Consensus size: 199
1775732 ATTATAAAAA
*
1775742 ATTGAAAAAATAAATAAAATTATTAATTAATTTTATAAAAAAATTTATTGATTTCAAAAAAAA--
1 ATTGAAAAAATAAATAAAATTATTAATTAATATTAT-AAAAAATTTATTGATTTCAAAAAAAATC
* * * * *
1775805 ATTGAGAAAAGACCCATAATAAACATTTGGATTTATGTTATAAAACCGTATTTTATCCATTAATT
65 TTTGAGAAAA-ACCCATAATAAACATTAGCATTTATGTTA-AAAA-TGTATTTTATCTATTAATT
* *
1775870 AATATTATGAAGTTTAGACTCAATGTATCTATATAAATTGAAAAAAGAGTTAAAGCAAAATTCTT
127 AATATTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTT
1775935 AATAATTT
192 AATAATTT
* *
1775943 ATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTTATTGATTTCAAAAAAATT
1 ATTG-AAAAAATAAATAAAATTATTAATTAATATT-ATAAAAAATTTATTGATTTCAAAAAAAAT
* * * *
1776008 CTTTCAGAAAAACCCATTATAAACATTAGCATTTATGTTAAAAATCATATTTTATCTATGAATTA
64 CTTTGAGAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAT-GTATTTTATCTATTAATTA
* * * *
1776073 ATATTATGAAGTTTAGATTCAATTAACCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCCTA
128 ATATTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTA
1776138 ATAATTT
193 ATAATTT
* *
1776145 ATTGAATAAATAAATAAAATTATTAATTAATATTATAAAAAAGTTATTGATTT-AAAAAAAATCT
1 ATTGAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTATTGATTTCAAAAAAAATCT
*
1776209 TTGAGAAAGAACCCATAATAAACATTAGCATTTATGTTAAAAACTGTATTTTATCTATTAATTGA
66 TTGAGAAA-AACCCATAATAAACATTAGCATTTATGTTAAAAA-TGTATTTTATCTATTAATTAA
* * *
1776274 TACTATGAAGTTTAGACTTAGTGAATCTATATAAATTAAAAAAATGAGTTAAAGCAAAATTCTTA
129 TATTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAA-GAGTTAAAGCAAAATTCTTA
*
1776339 GTAATTT
193 ATAATTT
1776346 ATTAGAAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTTATTGATTTC-AAAAAAAT
1 ATT-GAAAAAATAAATAAAATTATTAATTAATATTATAAA-AAATTTATTGATTTCAAAAAAAAT
* * * * *
1776410 ATTTAAGAAAAAACCTATAATAAATATTGGC----AT-TT----ATG--TTTTATCTATTAATTA
64 CTTTGAG-AAAAACCCATAATAAACATTAGCATTTATGTTAAAAATGTATTTTATCTATTAATTA
* * * *
1776464 ATGTTATGAAGTTTAAACTCAATGAATCTATATATATTAAAAAATA-AGTTAAAGTAAAATTCTT
128 ATATTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAA-AGAGTTAAAGCAAAATTCTT
1776528 AATAATTT
192 AATAATTT
1776536 ATTG-AAAAATAAATAAAATTATTAATTAATATTAT
1 ATTGAAAAAATAAATAAAATTATTAATTAATATTAT
1776571 TATTAGCTCA
Statistics
Matches: 564, Mismatches: 51, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
188 31 0.05
189 1 0.00
190 27 0.05
191 53 0.09
192 1 0.00
193 2 0.00
194 1 0.00
198 2 0.00
199 19 0.03
200 106 0.19
201 61 0.11
202 178 0.32
203 71 0.13
204 11 0.02
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.37
Consensus pattern (199 bp):
ATTGAAAAAATAAATAAAATTATTAATTAATATTATAAAAAATTTATTGATTTCAAAAAAAATCT
TTGAGAAAAACCCATAATAAACATTAGCATTTATGTTAAAAATGTATTTTATCTATTAATTAATA
TTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAATA
ATTT
Found at i:1776330 original size:646 final size:646
Alignment explanation
Indices: 1775100--1776391 Score: 1863
Period size: 646 Copynumber: 2.0 Consensus size: 646
1775090 ATAATTTATT
* **
1775100 AAAAAATAAATAAATCAATTACTTAATATTACTAAAAAAAATTTGATTTCAAAAAAATCTTTGAG
1 AAAAAATAAATAAATCAATTAATTAATATTACTAAAAAAAATTTGATTTCAAAAAAATAATTGAG
* * *
1775165 AAAAAATCCATAATAAACATTAGCATTTATGTTAAAAAATCATATTTTATCTATTAATTAATATT
66 AAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAATATT
* *
1775230 ACGAATTTTAGATTCAATGAATCTATATAAGTGAAAAAAAGAGTTAAAGCAAAATTCTTAATAAC
131 ACGAAGTTTAGACTCAATGAATCTATATAAGTGAAAAAAAGAGTTAAAGCAAAATTCTTAATAAC
* *
1775295 TTATTGAAAACAATAAATAAAATTATTAATTAATATTATAAAAAAATTTATTGATATTAAAAAAA
196 TTATTGAAAAAAATAAATAAAATTATTAAATAATATTATAAAAAAATTTATTGATATTAAAAAAA
* * * *
1775360 TCTTTGAAAAAAACCCATAATAAACATTAGCATTTCTGTTAAAAAATCGTATTTTATCTATTAAT
261 TCTTTCAAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAATCATATTTTATCTATGAAT
* * *
1775425 TAATACTATAAAGTTTAGACTCATTGAATCTATATAAATTAAAAAAGGAGTTAAAAAGCAAATTT
326 TAATACTATAAAGTTTAGACTCATTGAACCTATATAAATTAAAAAAAGAGTT-AAAAGCAAAATT
*
1775490 CTTAATAATTTATTAAAAAAATAAATAAAATTATTAATTAATATTATAAAAAGTTTAGTGATTTA
390 CCTAATAATTTATTAAAAAAATAAATAAAATTATTAATTAATATTATAAAAAGTTTAGTGATTTA
* *
1775555 AAAAAAAATTAAGAAAAAACCCGTAATAAACATTAGCATTTATGTTAAAAAATTATATTTTATCT
455 AAAAAAAATTAAGAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACTATATTTTATCT
* * * *
1775620 ATTAATTAATATTATGAAGTTTAGACTCAATGAATCTATGTAAATTAACATAAGAGTTAAAGCAA
520 ATTAATTAATACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAA
* * *
1775685 AATTCTCAATAATTTATT-GAAAAAAATAAATAAATTTTTTAATTATTATTATAAA-AAATTG
585 AATTCTCAATAATTTATTAG-AAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTG
* * *
1775746 AAAAAATAAATAAAAT-TATTAATTAATTTTA-TAAAAAAATTTATTGATTTCAAAAAAA-AATT
1 AAAAAATAAAT-AAATCAATTAATTAATATTACTAAAAAAA-AT-TTGATTTCAAAAAAATAATT
* * * * *
1775808 GAGAAAAGACCCATAATAAACATTTGGATTTATGTTATAAAACCGTATTTTATCCATTAATTAAT
63 GAGAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAAT
* * *
1775873 ATTATGAAGTTTAGACTCAATGTATCTATATAAATTG-AAAAAAGAGTTAAAGCAAAATTCTTAA
128 ATTACGAAGTTTAGACTCAATGAATCTATAT-AAGTGAAAAAAAGAGTTAAAGCAAAATTCTTAA
*
1775937 TAATTTATTGAAAAAAATAAATAAAATTATTAAATAATATTA-ATAAAAAATTTATTGAT-TTCA
192 TAACTTATTGAAAAAAATAAATAAAATTATTAAATAATATTATA-AAAAAATTTATTGATATT-A
* *
1776000 AAAAAATTCTTTCAGAAAAACCCATTATAAACATTAGCATTTATGTT-AAAAATCATATTTTATC
255 AAAAAA-TCTTTCAAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAATCATATTTTATC
* * *
1776064 TATGAATTAATATTATGAAGTTTAGATTCAATT-AACCTATATAAATTAAAAAAAGAGTT-AAAG
319 TATGAATTAATACTATAAAGTTTAGACTC-ATTGAACCTATATAAATTAAAAAAAGAGTTAAAAG
* *
1776127 CAAAATTCCTAATAATTTATTGAATAAATAAATAAAATTATTAATTAATATTATAAAAAAG-TTA
383 CAAAATTCCTAATAATTTATTAAAAAAATAAATAAAATTATTAATTAATATTAT-AAAAAGTTTA
* * * * *
1776191 TTGATTTAAAAAAAATCTTTGAGAAAGAACCCATAATAAACATTAGCATTTATGTT-AAAAACTG
447 GTGATTTAAAAAAAA--ATTAAGAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACTA
* * *
1776255 TATTTTATCTATTAATTGATACTATGAAGTTTAGACTTAGTGAATCTATATAAATTAAAAAAATG
510 TATTTTATCTATTAATTAATACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAA-G
* *
1776320 AGTTAAAGCAAAATTCTTAGTAATTTATTAGAAAAAATAAATAAAATTATTAATTAATATTATAA
574 AGTTAAAGCAAAATTCTCAATAATTTATTAGAAAAAATAAATAAAATTATTAATTAATATTATAA
1776385 AGAAATT
639 AGAAATT
1776392 TATTGATTTC
Statistics
Matches: 576, Mismatches: 56, Indels: 27
0.87 0.08 0.04
Matches are distributed among these distances:
644 71 0.12
645 79 0.14
646 358 0.62
647 68 0.12
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (646 bp):
AAAAAATAAATAAATCAATTAATTAATATTACTAAAAAAAATTTGATTTCAAAAAAATAATTGAG
AAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACCATATTTTATCCATTAATTAATATT
ACGAAGTTTAGACTCAATGAATCTATATAAGTGAAAAAAAGAGTTAAAGCAAAATTCTTAATAAC
TTATTGAAAAAAATAAATAAAATTATTAAATAATATTATAAAAAAATTTATTGATATTAAAAAAA
TCTTTCAAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAATCATATTTTATCTATGAAT
TAATACTATAAAGTTTAGACTCATTGAACCTATATAAATTAAAAAAAGAGTTAAAAGCAAAATTC
CTAATAATTTATTAAAAAAATAAATAAAATTATTAATTAATATTATAAAAAGTTTAGTGATTTAA
AAAAAAATTAAGAAAAAACCCATAATAAACATTAGCATTTATGTTAAAAAACTATATTTTATCTA
TTAATTAATACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAA
ATTCTCAATAATTTATTAGAAAAAATAAATAAAATTATTAATTAATATTATAAAGAAATTG
Found at i:1776572 original size:403 final size:392
Alignment explanation
Indices: 1775742--1776570 Score: 1138
Period size: 403 Copynumber: 2.1 Consensus size: 392
1775732 ATTATAAAAA
* * *
1775742 ATTGAAAAAATAAATAAAATTATTAATTAATTTTATAAAAAAATTTATTGATTTCAAAAAAAAAT
1 ATTGAATAAATAAATAAAATTATTAATTAATATTATAAAAAAAGTTATTGATTTCAAAAAAAAAT
* *
1775807 TGAGAAAAGACCCATAATAAACATTTGGATTTATGTTATAAAACCGTATTTTATCCATTAATTAA
66 TGAGAAAAGACCCATAATAAACATTAGCATTTATGTTATAAAACCGTATTTTATCCATTAATTAA
* * *
1775872 TATTATGAAGTTTAGACTCAATGTATCTATATAAATTGAAAAAAGAGTTAAAGCAAAATTCTTAA
131 TACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAA
1775937 TAATTTATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTTATTGATTTCAAA
196 TAATTTATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTTATTGATTTCAAA
* * *
1776002 AAAATTCTTTCAGAAAAACCCATTATAAACATTAGCATTTATGTTAAAAATCATATTTTATCTAT
261 AAAATTATTTAAGAAAAACCCATAATAAACATTAGCATTTATG-----------ATTTTATCTAT
* * *
1776067 GAATTAATATTATGAAGTTTAGATTCAATTAACCTATATAAATTAAAAAAAGAGTTAAAGCAAAA
315 GAATTAATATTATGAAGTTTAAACTCAATGAACCTATATAAATTAAAAAAAGAGTTAAAGCAAAA
1776132 TTCCTAATAATTT
380 TTCCTAATAATTT
1776145 ATTGAATAAATAAATAAAATTATTAATTAATATTAT-AAAAAAGTTATTGATTT-AAAAAAAATC
1 ATTGAATAAATAAATAAAATTATTAATTAATATTATAAAAAAAGTTATTGATTTCAAAAAAAA--
* * *
1776208 TTTGAG-AAAGAACCCATAATAAACATTAGCATTTATGTTA-AAAACTGTATTTTATCTATTAAT
64 ATTGAGAAAAG-ACCCATAATAAACATTAGCATTTATGTTATAAAACCGTATTTTATCCATTAAT
* * *
1776271 TGATACTATGAAGTTTAGACTTAGTGAATCTATATAAATTAAAAAAATGAGTTAAAGCAAAATTC
128 TAATACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAA-GAGTTAAAGCAAAATTC
* *
1776336 TTAGTAATTTATT-AGAAAAAATAAATAAAATTATTAATTAATATT-ATAAAGAAATTTATTGAT
192 TTAATAATTTATTGA-AAAAAATAAATAAAATTATTAAATAATATTAATAAA-AAATTTATTGAT
* * * *
1776399 TTCAAAAAAA-TATTTAAGAAAAAACCTATAATAAATATTGGCATTTATG-TTTTATCTATTAAT
255 TTCAAAAAAATTATTTAAG-AAAAACCCATAATAAACATTAGCATTTATGATTTTATCTATGAAT
* * * *
1776462 TAATGTTATGAAGTTTAAACTCAATGAATCTATATATATTAAAAAATA-AGTTAAAGTAAAATTC
319 TAATATTATGAAGTTTAAACTCAATGAACCTATATAAATTAAAAAA-AGAGTTAAAGCAAAATTC
*
1776526 TTAATAATTT
383 CTAATAATTT
1776536 ATTGAA-AAATAAATAAAATTATTAATTAATATTAT
1 ATTGAATAAATAAATAAAATTATTAATTAATATTAT
1776571 TATTAGCTCA
Statistics
Matches: 387, Mismatches: 31, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
390 29 0.07
391 83 0.21
392 1 0.00
401 8 0.02
402 94 0.24
403 172 0.44
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.37
Consensus pattern (392 bp):
ATTGAATAAATAAATAAAATTATTAATTAATATTATAAAAAAAGTTATTGATTTCAAAAAAAAAT
TGAGAAAAGACCCATAATAAACATTAGCATTTATGTTATAAAACCGTATTTTATCCATTAATTAA
TACTATGAAGTTTAGACTCAATGAATCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCTTAA
TAATTTATTGAAAAAAATAAATAAAATTATTAAATAATATTAATAAAAAATTTATTGATTTCAAA
AAAATTATTTAAGAAAAACCCATAATAAACATTAGCATTTATGATTTTATCTATGAATTAATATT
ATGAAGTTTAAACTCAATGAACCTATATAAATTAAAAAAAGAGTTAAAGCAAAATTCCTAATAAT
TT
Found at i:1777423 original size:20 final size:19
Alignment explanation
Indices: 1777398--1777451 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1777388 ACTGCTAGTT
**
1777398 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1777418 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
1777437 CATGTATCGATACAA
1 CATGTATCGATACAA
1777452 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1779856 original size:23 final size:24
Alignment explanation
Indices: 1779811--1779857 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1779801 CAAAGGATTG
*
1779811 AACACAAATTCAATTAAGCATAAA
1 AACACAAATTCAATTAAGAATAAA
1779835 AACACAAA-TCAATTGAA-AATAAA
1 AACACAAATTCAATT-AAGAATAAA
1779858 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAATAAA
Found at i:1782423 original size:36 final size:34
Alignment explanation
Indices: 1782345--1782437 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 34
1782335 CTACACTATC
*
1782345 TTTC-AAGGCTAAGATAGAAAC-CT-CCCAATCT
1 TTTCAAAGGCTAAGATAGAACCTCTCCCCAATCT
** *
1782376 TTTCAGGGGCTAAGATAGAACCTCTCCCTCTATCTT
1 TTTCAAAGGCTAAGATAGAACCTCTCCC-CAATC-T
*
1782412 TTTCAAAGGCTAAGATAAAACCTCTC
1 TTTCAAAGGCTAAGATAGAACCTCTC
1782438 GATCACTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.08
32 14 0.28
33 2 0.04
34 2 0.04
35 4 0.08
36 24 0.48
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (34 bp):
TTTCAAAGGCTAAGATAGAACCTCTCCCCAATCT
Found at i:1782941 original size:19 final size:19
Alignment explanation
Indices: 1782897--1782952 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1782887 CTGTCAGTTT
**
1782897 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1782917 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
1782936 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1782953 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1782955 original size:13 final size:13
Alignment explanation
Indices: 1782937--1782968 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1782927 TACAATGAAC
1782937 ATGTATCGATACA
1 ATGTATCGATACA
1782950 ATGTATCGATACA
1 ATGTATCGATACA
*
1782963 AAGTAT
1 ATGTAT
1782969 AATGTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1783582 original size:18 final size:18
Alignment explanation
Indices: 1783545--1783588 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1783535 ATTTTAAAAT
* *
1783545 AATTTTTTGTTTATACGAA
1 AATTTTTTATTTAGACG-A
1783564 AATTTTTTATTTAGA-GA
1 AATTTTTTATTTAGACGA
1783581 AATTTTTT
1 AATTTTTT
1783589 GATGGCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
19 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (18 bp):
AATTTTTTATTTAGACGA
Found at i:1788464 original size:93 final size:93
Alignment explanation
Indices: 1788222--1788667 Score: 373
Period size: 93 Copynumber: 4.9 Consensus size: 93
1788212 ACATGTAAAA
** * ** *
1788222 TCAATCAACTTTTC-TGCTTTTCTAT-AAAAAGAAATCTAATTCTCAAATATAAGCTATACATTA
1 TCAATCAACTTTTCTTTTTTTTCTATAAAAAAG-AATCTAATTCTCTAATATAATTTATTCATTA
* ** *
1788285 GTCTAATCTTTATAGTCTGACATTTACAA
65 GTCTAATCCTTGCAGTCTGACATTTACAC
* *
1788314 TCAATCAA-----C-TTTTTTTCTATAAAAAAGAATAC-GATAT-TCTAATATAATTTATGCATT
1 TCAATCAACTTTTCTTTTTTTTCTATAAAAAAGAAT-CTAAT-TCTCTAATATAATTTATTCATT
* *
1788371 AGTCTAATCCTTGTAGTCTGACATTTATAC
64 AGTCTAATCCTTGCAGTCTGACATTTACAC
* * *
1788401 TCAATCAATTTTTCTTTTTTTTCTATAAAAAAGAATCTAATCCTCTGATATAATTTATTCATTAG
1 TCAATCAACTTTTCTTTTTTTTCTATAAAAAAGAATCTAATTCTCTAATATAATTTATTCATTAG
* * *
1788466 TCTAATCCTTGCAGTTTGATATTTATAC
66 TCTAATCCTTGCAGTCTGACATTTACAC
* * * * * * * *
1788494 TCAATCAACTTTTTTTTTCTTTTTTTCTATTAAAAAGAATTTGATTATTTGATATAATTTACTCA
1 TCAATCAAC---TTTTCT-TTTTTTTCTATAAAAAAGAATCTAATTCTCTAATATAATTTATTCA
* *
1788559 TTAGTCTAATTCTTGCAGTCTAACATTTACAC
62 TTAGTCTAATCCTTGCAGTCTGACATTTACAC
* * * * * * *
1788591 TCAATTAAC--TT-TTTTTTTTATA-AAAAAAGAATTTGATT-TCAAATACAATTTATGCATTAG
1 TCAATCAACTTTTCTTTTTTTTCTATAAAAAAGAATCTAATTCTCTAATATAATTTATTCATTAG
* *
1788651 CCTAATCCTTACAGTCT
66 TCTAATCCTTGCAGTCT
1788668 TTCTTTTTTC
Statistics
Matches: 295, Mismatches: 44, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
87 65 0.22
88 38 0.13
89 15 0.05
90 9 0.03
91 1 0.00
92 12 0.04
93 76 0.26
96 5 0.02
97 74 0.25
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (93 bp):
TCAATCAACTTTTCTTTTTTTTCTATAAAAAAGAATCTAATTCTCTAATATAATTTATTCATTAG
TCTAATCCTTGCAGTCTGACATTTACAC
Found at i:1788551 original size:97 final size:97
Alignment explanation
Indices: 1788322--1788608 Score: 359
Period size: 97 Copynumber: 3.0 Consensus size: 97
1788312 AATCAATCAA
* * * *
1788322 CTTTTTTTCTATAAAAAAGAATACGA-TATTCTAATATAATTTATGCATTAGTCTAATCCTTGTA
1 CTTTTTTTCTATAAAAAAGAATATGATTATT-TGATATAATTTATTCATTAGTCTAATCCTTGCA
*
1788386 GTCTGACATTTATACTCAATCAA---TTTTTCT
65 GTCTGACATTTATACTCAATCAACTTTTTTTTT
* * ** *
1788416 -TTTTTTTCTATAAAAAAGAATCTAATCCTCTGATATAATTTATTCATTAGTCTAATCCTTGCAG
1 CTTTTTTTCTATAAAAAAGAATATGATTATTTGATATAATTTATTCATTAGTCTAATCCTTGCAG
* *
1788480 TTTGATATTTATACTCAATCAACTTTTTTTTT
66 TCTGACATTTATACTCAATCAACTTTTTTTTT
* * * *
1788512 CTTTTTTTCTATTAAAAAGAATTTGATTATTTGATATAATTTACTCATTAGTCTAATTCTTGCAG
1 CTTTTTTTCTATAAAAAAGAATATGATTATTTGATATAATTTATTCATTAGTCTAATCCTTGCAG
* * *
1788577 TCTAACATTTACACTCAATTAACTTTTTTTTT
66 TCTGACATTTATACTCAATCAACTTTTTTTTT
1788609 TATAAAAAAA
Statistics
Matches: 163, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
93 73 0.45
94 1 0.01
96 6 0.04
97 83 0.51
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (97 bp):
CTTTTTTTCTATAAAAAAGAATATGATTATTTGATATAATTTATTCATTAGTCTAATCCTTGCAG
TCTGACATTTATACTCAATCAACTTTTTTTTT
Found at i:1789558 original size:13 final size:13
Alignment explanation
Indices: 1789540--1789565 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1789530 AATTTGGCCG
1789540 TGTATCGATACAA
1 TGTATCGATACAA
1789553 TGTATCGATACAA
1 TGTATCGATACAA
1789566 AGCAGCATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1790128 original size:17 final size:18
Alignment explanation
Indices: 1790106--1790172 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
1790096 TTCGTTGTTT
1790106 TTCT-CCCCTTAAAAAAA
1 TTCTCCCCCTTAAAAAAA
**
1790123 TTCTCCCCCTT-AAACGA
1 TTCTCCCCCTTAAAAAAA
* * *
1790140 TTATCTCCTCTAAAAAAAA
1 TTCTC-CCCCTTAAAAAAA
1790159 TTCTCCCCCTTAAA
1 TTCTCCCCCTTAAA
1790173 CGATTATCTT
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
17 12 0.32
18 17 0.46
19 8 0.22
ACGTcount: A:0.34, C:0.33, G:0.01, T:0.31
Consensus pattern (18 bp):
TTCTCCCCCTTAAAAAAA
Found at i:1790156 original size:36 final size:36
Alignment explanation
Indices: 1790107--1790181 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
1790097 TCGTTGTTTT
*
1790107 TCTCCCCTTAAAAAAATTCTCCCCCTTAAACGATTA
1 TCTCCCCTAAAAAAAATTCTCCCCCTTAAACGATTA
*
1790143 TCTCCTCTAAAAAAAATTCTCCCCCTTAAACGATTA
1 TCTCCCCTAAAAAAAATTCTCCCCCTTAAACGATTA
1790179 TCT
1 TCT
1790182 TCTCCCCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.32, G:0.03, T:0.32
Consensus pattern (36 bp):
TCTCCCCTAAAAAAAATTCTCCCCCTTAAACGATTA
Found at i:1793979 original size:33 final size:33
Alignment explanation
Indices: 1793923--1793989 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1793913 TTCAACGATT
*
1793923 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1793956 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1793989 T
1 T
1793990 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1794049 original size:13 final size:13
Alignment explanation
Indices: 1794031--1794055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1794021 ATTACTCAAA
1794031 TGTATCGATACAT
1 TGTATCGATACAT
1794044 TGTATCGATACA
1 TGTATCGATACA
1794056 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1794107 original size:32 final size:32
Alignment explanation
Indices: 1794066--1794139 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
1794056 CTAATCTTTG
*
1794066 TATCGATACATGCAGGCGAATTTGCCCAGATA
1 TATCGATACATGCAGGCAAATTTGCCCAGATA
*
1794098 TATCGATACATGCAGGCAAATTTGCCCAGATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATA
1794130 TATCGATACA
1 TATCGATACA
1794140 CTATTAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (32 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATA
Found at i:1801809 original size:19 final size:19
Alignment explanation
Indices: 1801762--1801818 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1801752 CTGCCAGTTT
**
1801762 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
*
1801783 CGTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1801802 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1801819 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.56
21 14 0.44
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1801821 original size:13 final size:13
Alignment explanation
Indices: 1801803--1801829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1801793 TACAATGAAC
1801803 ATGTATCGATACA
1 ATGTATCGATACA
1801816 ATGTATCGATACA
1 ATGTATCGATACA
1801829 A
1 A
1801830 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1801848 original size:33 final size:32
Alignment explanation
Indices: 1801785--1801848 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1801775 AATTTGGCCG
* *
1801785 TGTATCGATACAATGAACATGTATCGATACAA
1 TGTATCGATACAAAGAACATGTATCAATACAA
*
1801817 TGTATCGATACAAAGCAGCATGTATCAATACA
1 TGTATCGATACAAAG-AACATGTATCAATACA
1801849 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCAATACAA
Found at i:1802416 original size:88 final size:87
Alignment explanation
Indices: 1802137--1802536 Score: 388
Period size: 88 Copynumber: 4.6 Consensus size: 87
1802127 AGATCCTAAC
* * * *
1802137 AAAAAAGAATCTGATTCTAAGATATAATTCATGCACTAGTCAAAT-CTT-TA--C-AGT-TTGAC
1 AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCGA-TATTTAC
*
1802196 ATATCAATCAACTTTTTTTTCTAT
65 A-CTCAATCAACTTTTTTTTCTAT
* * * * * * * *
1802220 AAAAAAGAATTTGATTCTATAAATATAATTAATACATTAGTCTAATCTTTATAGTTTGACATTTA
1 AAAAAAGAATCTGATTCT-TAGATATAATTCATGCATTAGTCTAATCCTTGTAG-TCGATATTTA
* *
1802285 TACTCAATCAACTTTTCTTTTTTTTCTTT
64 CACTCAATCAA-----CTTTTTTTTCTAT
* * * *
1802314 AAAAAAGAATCTGATTCTTTGATATAATTCATGTATTAGTTTAATCCTTGTAGTCAATATTTACA
1 AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCGATATTTACA
1802379 CTCAATCAACTTTTTTTT-TAAT
66 CTCAATCAACTTTTTTTTCT-AT
* * *
1802401 AAATAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTGATATTTA
1 AAA-AAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTC-GATATTTA
*
1802466 CAATCAATCAACTTTTTTTTCTAT
64 CACTCAATCAACTTTTTTTTCTAT
* *
1802490 -AATAA-AATCTGATT-TTCAGATATAATTCATGCATTAGTCAAATCCTT
1 AAAAAAGAATCTGATTCTT-AGATATAATTCATGCATTAGTCTAATCCTT
1802537 ATAATCTGAC
Statistics
Matches: 259, Mismatches: 40, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
83 17 0.07
84 21 0.08
85 3 0.01
86 40 0.15
87 15 0.06
88 48 0.19
89 36 0.14
90 6 0.02
92 17 0.07
93 27 0.10
94 29 0.11
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (87 bp):
AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCGATATTTACA
CTCAATCAACTTTTTTTTCTAT
Found at i:1802545 original size:86 final size:88
Alignment explanation
Indices: 1802137--1802556 Score: 410
Period size: 86 Copynumber: 4.8 Consensus size: 88
1802127 AGATCCTAAC
* * * * * *
1802137 AAAAAAGAATCTGATTCTAAGATATAATTCATGCACTAGTCAAATCTTTACAGTTTGACA--T--
1 AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTAC
1802198 -ATCAATCAACTTTTTTTTCTAT
66 AATCAATCAACTTTTTTTTCTAT
* * * * * *
1802220 AAAAAAGAATTTGATTCTATAAATATAATTAATACATTAGTCTAATCTTTATAGTTTGACATTTA
1 AAAAAAGAATCTGATTCT-TAGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTA
* * *
1802285 TACTCAATCAACTTTTCTTTTTTTTCTTT
65 CAATCAATCAA-----CTTTTTTTTCTAT
* * * * * *
1802314 AAAAAAGAATCTGATTCTTTGATATAATTCATGTATTAGTTTAATCCTTGTAGTC-AATATTTAC
1 AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTAC
*
1802378 ACTCAATCAACTTTTTTTT-TAAT
66 AATCAATCAACTTTTTTTTCT-AT
* * ** *
1802401 AAATAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTGCAGTCTGATATTTA
1 AAA-AAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTA
1802466 CAATCAATCAACTTTTTTTTCTAT
65 CAATCAATCAACTTTTTTTTCTAT
* * *
1802490 -AATAA-AATCTGATT-TTCAGATATAATTCATGCATTAGTCAAATCCTTATAATCTGACATTTA
1 AAAAAAGAATCTGATTCTT-AGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTA
*
1802552 TAATC
65 CAATC
1802557 CATACATTAT
Statistics
Matches: 280, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
83 17 0.06
84 35 0.12
85 1 0.00
86 54 0.19
87 15 0.05
88 48 0.17
89 36 0.13
90 1 0.00
92 16 0.06
93 28 0.10
94 29 0.10
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (88 bp):
AAAAAAGAATCTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTATAGTCTGACATTTAC
AATCAATCAACTTTTTTTTCTAT
Found at i:1803018 original size:122 final size:120
Alignment explanation
Indices: 1802890--1803238 Score: 471
Period size: 117 Copynumber: 2.9 Consensus size: 120
1802880 AAAAAATATT
1802890 ATTATAATAAAAAACCTTTTTAATTTAAATTTTTTATTTTAAAAAACATAATAATTAATATTTTA
1 ATTATAATAAAAAACCTTTTTAATTTAAATTTTTTATTTT-AAAAACATAATAATTAATATTTTA
* *
1802955 ATTTGTCAATATAATTTTTTAAACTTAATTAAATATTTATTTTTTATTTTATTAAAA
65 ATTTGTTAATATAATTTTTTAAACTTAATTAAATA-TTATTTTTAATTTTATTAAAA
* * * *
1803012 ATTATAATAAAAAACCTTTTTTATTT---TTATTT-TTATAAAAACATAATAGTTAATATTTTAA
1 ATTATAATAAAAAACCTTTTTAATTTAAATTTTTTATTTTAAAAACATAATAATTAATATTTTAA
1803073 TTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAA
66 TTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAA
* * *
1803128 ATAATAATAATAAACCTTTTTATTTTTTATTTAAATTTTTTATTTT--AAA-A-AGTAATTAATA
1 ATTATAATAAAAAACCTTTTTA------ATTTAAATTTTTTATTTTAAAAACATAATAATTAATA
*
1803189 TTTTAATTTGTTAATATAATTTTTTTAAACTTAATAAAATATTATTTTTA
60 TTTTAATTTGTTAATATAA-TTTTTTAAACTTAATTAAATATTATTTTTA
1803239 TTAAAAATAA
Statistics
Matches: 202, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
116 39 0.19
117 57 0.28
118 3 0.01
119 5 0.02
122 57 0.28
123 30 0.15
124 3 0.01
125 5 0.02
126 3 0.01
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (120 bp):
ATTATAATAAAAAACCTTTTTAATTTAAATTTTTTATTTTAAAAACATAATAATTAATATTTTAA
TTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAA
Found at i:1803301 original size:123 final size:119
Alignment explanation
Indices: 1802941--1803287 Score: 357
Period size: 117 Copynumber: 3.0 Consensus size: 119
1802931 AAAAACATAA
* *
1802941 TAATTAATATTTTAATTTGTCAATATAATTTTTTAAACTTAATTAAATATTTATTTTTTATTTTA
1 TAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATA-TTA--TTTAATTTTA
* * * * ** *
1803006 TTAAAAATTATAATAAAAAACCT-TT-TTTATT-TTT--ATTTTT-A-TAAAAACATAA
63 TTAAAAATAATAATAATAAACTTATTATTTTTTATTTAAATTTTTAATTTTAAA-A-AG
*
1803058 TAGTTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTAT
1 TAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTA--TTTAATTTTAT
* *
1803123 TAAAAATAATAATAATAAACCTTTTTATTTTTTATTTAAATTTTTTATTTTAAAAAG
64 TAAAAATAATAATAATAAA-CTTATTATTTTTTATTTAAATTTTTAATTTTAAAAAG
*
1803180 TAATTAATATTTTAATTTGTTAATATAATTTTTTTAAACTTAA-TAAA-A-TA-TTATTTTTATT
1 TAATTAATATTTTAATTTGTTAATATAA-TTTTTTAAACTTAATTAAATATTATTTAATTTTATT
* *
1803241 AAAAATAATAAT--T-AA-TATATTATTATTTA-TTAAATTTTTAAATTTAA
65 AAAAATAATAATAATAAACT-TATTATTTTTTATTTAAATTTTTAATTTTAA
1803288 TTAATTTGTA
Statistics
Matches: 204, Mismatches: 16, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
112 17 0.08
113 10 0.05
114 2 0.01
115 1 0.00
116 32 0.16
117 71 0.35
118 2 0.01
119 5 0.02
120 5 0.02
121 1 0.00
122 38 0.19
123 16 0.08
124 4 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (119 bp):
TAATTAATATTTTAATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTAATTTTATTA
AAAATAATAATAATAAACTTATTATTTTTTATTTAAATTTTTAATTTTAAAAAG
Found at i:1803655 original size:9 final size:9
Alignment explanation
Indices: 1803638--1803675 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1803628 TATTTAATTA
1803638 TAAATATAT
1 TAAATATAT
*
1803647 TAAAAATAT
1 TAAATATAT
*
1803656 TATATATAT
1 TAAATATAT
1803665 T-AATATAT
1 TAAATATAT
1803673 TAA
1 TAA
1803676 TAATTCATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAAATATAT
Found at i:1803685 original size:15 final size:17
Alignment explanation
Indices: 1803641--1803674 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1803631 TTAATTATAA
*
1803641 ATATATTAAAAATATTAT
1 ATATATT-AATATATTAT
1803659 ATATATTAATATATTA
1 ATATATTAATATATTA
1803675 ATAATTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTAATATATTAT
Found at i:1803689 original size:26 final size:26
Alignment explanation
Indices: 1803640--1803690 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1803630 TTTAATTATA
*
1803640 AATATATTAAAAATATTATATATATT
1 AATATATTAAAAATATCATATATATT
*
1803666 AATATATTAATAAT-TCATATTATAT
1 AATATATTAAAAATATCATA-TATAT
1803691 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AATATATTAAAAATATCATATATATT
Found at i:1803766 original size:27 final size:26
Alignment explanation
Indices: 1803716--1803765 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1803706 TTTATATATT
1803716 TATATTTGATTTAAATTATTTTTTAA
1 TATATTTGATTTAAATTATTTTTTAA
* *
1803742 TATATTTTATTTTAATTATTTTTT
1 TATATTTGATTTAAATTATTTTTT
1803766 TCTTGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TATATTTGATTTAAATTATTTTTTAA
Found at i:1804068 original size:8 final size:8
Alignment explanation
Indices: 1804040--1804162 Score: 51
Period size: 8 Copynumber: 15.5 Consensus size: 8
1804030 TTATGTTGTA
*
1804040 ATTATCTT
1 ATTATATT
* *
1804048 ATCATACT
1 ATTATATT
1804056 ATTATATT
1 ATTATATT
1804064 ATTATATT
1 ATTATATT
* * *
1804072 -GTA-GTC
1 ATTATATT
*
1804078 ATTATGTT
1 ATTATATT
1804086 ATTATATT
1 ATTATATT
*
1804094 ATTATGTT
1 ATTATATT
1804102 ACTT-TCATT
1 A-TTAT-ATT
* *
1804111 GTTAT-TA
1 ATTATATT
1804118 ATTATA-T
1 ATTATATT
1804125 A-TATATAT
1 ATTATAT-T
*
1804133 ATGACTATT
1 ATTA-TATT
*
1804142 ATTATTATC
1 ATTA-TATT
1804151 ATTATATT
1 ATTATATT
1804159 ATTA
1 ATTA
1804163 CTTTATTACG
Statistics
Matches: 83, Mismatches: 22, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
6 5 0.06
7 10 0.12
8 48 0.58
9 17 0.20
10 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (8 bp):
ATTATATT
Found at i:1804227 original size:9 final size:8
Alignment explanation
Indices: 1804206--1804281 Score: 55
Period size: 8 Copynumber: 8.8 Consensus size: 8
1804196 TTAATCATTG
1804206 TTATTATT
1 TTATTATT
*
1804214 GTATTATT
1 TTATTATT
*
1804222 TATATT-TA
1 T-TATTATT
1804230 TTATTATT
1 TTATTATT
1804238 ATTATTTATCT
1 -TTA-TTAT-T
*
1804249 TTAATGATTT
1 TT-ATTA-TT
1804259 TTATTATT
1 TTATTATT
1804267 TTATTTATT
1 TTA-TTATT
1804276 TTATTA
1 TTATTA
1804282 AATATGATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
7 4 0.07
8 18 0.33
9 18 0.33
10 11 0.20
11 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (8 bp):
TTATTATT
Found at i:1805151 original size:36 final size:35
Alignment explanation
Indices: 1805104--1805172 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
1805094 AGCTTAACTG
*
1805104 AATTAAAGAGATAATTAACGGTGCTTGATGATTTGA
1 AATTAAAGAGATAA-TAACGGTGCTTGATAATTTGA
**
1805140 AATTAAAGAGATAATAGTGGTGCTTGATAATTT
1 AATTAAAGAGATAATAACGGTGCTTGATAATTT
1805173 ATTTTCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (35 bp):
AATTAAAGAGATAATAACGGTGCTTGATAATTTGA
Found at i:1809430 original size:20 final size:20
Alignment explanation
Indices: 1809404--1809458 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1809394 AAAAAGACAG
*
1809404 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
1809424 TATGTATCGAAACATTGAAA
1 AATGTATCGATACATTCAAA
*
1809444 AATGTATTGATACAT
1 AATGTATCGATACAT
1809459 CTGGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1815013 original size:68 final size:68
Alignment explanation
Indices: 1814904--1815087 Score: 199
Period size: 68 Copynumber: 2.7 Consensus size: 68
1814894 ATAACTACTG
* * * * * ** * *
1814904 TCAAAGGTCTAATTAACATATCAACATTTAAGCAAATGACACCAAGTCATTTATACTAGTAAACA
1 TCAAAGGTATAATCAACATCTTAACATATAAGCAAATGACACCAAGTCACCTACACTAATAAACA
*
1814969 ATT
66 ATC
* * * **
1814972 TCAAAGGTTTAATCAACATCTTAACATATAAGCAAATGACACTAAGTCGCCTACACTAATAAATG
1 TCAAAGGTATAATCAACATCTTAACATATAAGCAAATGACACCAAGTCACCTACACTAATAAACA
1815037 ATC
66 ATC
* *
1815040 TCAAAGGTATAATCGACATCTTAGA-ATATAAGCAAGTGACACCAAGTC
1 TCAAAGGTATAATCAACATCTTA-ACATATAAGCAAATGACACCAAGTC
1815088 TTCTATAATA
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 96 0.99
69 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (68 bp):
TCAAAGGTATAATCAACATCTTAACATATAAGCAAATGACACCAAGTCACCTACACTAATAAACA
ATC
Found at i:1818740 original size:34 final size:32
Alignment explanation
Indices: 1818696--1818765 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
1818686 TAAAAATATG
* *
1818696 AATTTGTATTTTATTGAATATAATATAATTAATA
1 AATTTGTATTTAATT-AA-ATAATATAATAAATA
* *
1818730 AATTTTTATTTAATTTAATAATATAATAAATA
1 AATTTGTATTTAATTAAATAATATAATAAATA
1818762 AATT
1 AATT
1818766 CCTATAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 18 0.56
33 1 0.03
34 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
AATTTGTATTTAATTAAATAATATAATAAATA
Found at i:1819228 original size:2 final size:2
Alignment explanation
Indices: 1819221--1819247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1819211 GAAAATCTGA
1819221 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 A
1819248 ATTAGCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1828336 original size:22 final size:22
Alignment explanation
Indices: 1828294--1828337 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1828284 TTGAACTTAG
*
1828294 GTCCAATTGAATGACATTTTTT
1 GTCCAATTGAATGACAATTTTT
*
1828316 GTCCAATTAGACTG-CAATTTTT
1 GTCCAATT-GAATGACAATTTTT
1828338 TTATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (22 bp):
GTCCAATTGAATGACAATTTTT
Found at i:1829087 original size:19 final size:21
Alignment explanation
Indices: 1829053--1829091 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1829043 TAAATTTGTA
1829053 TCTTTTTTTCTCTTCCTTTCT
1 TCTTTTTTTCTCTTCCTTTCT
1829074 TCTTTTTTT-T-TTCCTTTC
1 TCTTTTTTTCTCTTCCTTTC
1829092 CTCTCTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTTTTTCTCTTCCTTTCT
Found at i:1829462 original size:19 final size:17
Alignment explanation
Indices: 1829435--1829470 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
1829425 TATAATAAAA
1829435 TTTTCTTTTTATTCTTTT
1 TTTTCTTTTTATT-TTTT
1829453 TTTTCATTTTTATTTTTT
1 TTTTC-TTTTTATTTTTT
1829471 CATTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTATTTTTT
Found at i:1829468 original size:14 final size:14
Alignment explanation
Indices: 1829451--1829477 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1829441 TTTTATTCTT
1829451 TTTTTTCATTTTTA
1 TTTTTTCATTTTTA
1829465 TTTTTTCATTTTT
1 TTTTTTCATTTTT
1829478 TCATTTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCATTTTTA
Found at i:1829477 original size:9 final size:8
Alignment explanation
Indices: 1829451--1829484 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
1829441 TTTTATTCTT
1829451 TTTTTTCA
1 TTTTTTCA
1829459 -TTTTT-A
1 TTTTTTCA
1829465 TTTTTTCA
1 TTTTTTCA
1829473 TTTTTTCA
1 TTTTTTCA
1829481 TTTT
1 TTTT
1829485 CTCTTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 10 0.42
8 13 0.54
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1829663 original size:13 final size:13
Alignment explanation
Indices: 1829645--1829692 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1829635 GATAGACACT
1829645 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
*
1829658 AAAAAGAAAGAAA
1 AAAAAGAAAAAAA
**
1829671 AAGGAGAGAAAAAA
1 AAAAAGA-AAAAAA
*
1829685 AATAAGAA
1 AAAAAGAA
1829693 TGTTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:1833061 original size:23 final size:22
Alignment explanation
Indices: 1833033--1833079 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1833023 GTATTTAAAA
*
1833033 TTTTAATTAAT-TAATATATTTAT
1 TTTTAA-TAATATAAAAT-TTTAT
1833056 TTTTAATAATATAAAATTTTAT
1 TTTTAATAATATAAAATTTTAT
1833078 TT
1 TT
1833080 GTTGAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAATAATATAAAATTTTAT
Found at i:1833065 original size:22 final size:23
Alignment explanation
Indices: 1833033--1833093 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
1833023 GTATTTAAAA
*
1833033 TTTTAATTAAT-TAATATATTTAT
1 TTTTAATTAATATAAAAT-TTTAT
1833056 TTTTAA-TAATATAAAATTTTAT
1 TTTTAATTAATATAAAATTTTAT
1833078 TTGTTGAATCTAATAT
1 TT-TT-AAT-TAATAT
1833094 GTTATAGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 11 0.34
23 13 0.41
24 2 0.06
26 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (23 bp):
TTTTAATTAATATAAAATTTTAT
Found at i:1833989 original size:25 final size:25
Alignment explanation
Indices: 1833947--1834011 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
1833937 GAGCTCAACT
* *
1833947 TAATGTAATTTATT-TTATAATTATA
1 TAATATAATTTTTTATTATAA-TATA
*
1833972 TAATAT-ATTTTTTATTATTATATA
1 TAATATAATTTTTTATTATAATATA
*
1833996 TTATATAATTTTTTAT
1 TAATATAATTTTTTAT
1834012 CATATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TAATATAATTTTTTATTATAATATA
Found at i:1833991 original size:22 final size:24
Alignment explanation
Indices: 1833959--1834011 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
1833949 ATGTAATTTA
1833959 TTTTATAATTATATA-ATAT-ATT
1 TTTTATAATTATATATATATAATT
*
1833981 TTTTATTATTATATATTATATAATT
1 TTTTATAATTATATA-TATATAATT
1834006 TTTTAT
1 TTTTAT
1834012 CATATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 14 0.52
24 4 0.15
25 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTATAATTATATATATATAATT
Found at i:1834102 original size:17 final size:19
Alignment explanation
Indices: 1834080--1834125 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1834070 TTTATATTTT
1834080 AAAATTTTAA-TA-TAAAA
1 AAAATTTTAATTATTAAAA
*
1834097 AAAATTTAAATTATTAAAA
1 AAAATTTTAATTATTAAAA
*
1834116 AATATTTTAA
1 AAAATTTTAA
1834126 AAAATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAATTATTAAAA
Found at i:1834127 original size:12 final size:12
Alignment explanation
Indices: 1834110--1834150 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
1834100 ATTTAAATTA
*
1834110 TTAAAAAATATT
1 TTAAAAAATAAT
1834122 TTAAAAAATAAT
1 TTAAAAAATAAT
*
1834134 TT-AAAAATAAA
1 TTAAAAAATAAT
1834145 TTAAAA
1 TTAAAA
1834151 TATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TTAAAAAATAAT
Found at i:1834148 original size:23 final size:23
Alignment explanation
Indices: 1834104--1834150 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1834094 AAAAAAATTT
* **
1834104 AAATTATTAAAAAATATTTTAAA
1 AAATAATTAAAAAATAAATTAAA
*
1834127 AAATAATTTAAAAATAAATTAAA
1 AAATAATTAAAAAATAAATTAAA
1834150 A
1 A
1834151 TATTAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAATTAAAAAATAAATTAAA
Found at i:1834155 original size:43 final size:44
Alignment explanation
Indices: 1834073--1834158 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
1834063 TAATTTATTT
** *
1834073 ATATTTTAAAATTTTAATATAAAAAAAATTTAAATTATTAAAAA
1 ATATTTTAAAATAATAATATAAAAAAAATTTAAAATATTAAAAA
*
1834117 ATATTTTAAAA-AATAATTTAAAAATAAA-TTAAAATATTAAAA
1 ATATTTTAAAATAATAATATAAAAA-AAATTTAAAATATTAAAA
1834159 TATTAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 23 0.62
44 14 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (44 bp):
ATATTTTAAAATAATAATATAAAAAAAATTTAAAATATTAAAAA
Found at i:1836578 original size:2 final size:2
Alignment explanation
Indices: 1836573--1836615 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1836563 GACATGAGGT
*
1836573 TA TA TA TA TA TA AA 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
1836615 T
1 T
1836616 TATTGTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1839303 original size:2 final size:2
Alignment explanation
Indices: 1839296--1839320 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1839286 TCAATACAAA
1839296 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
1839321 AGGTAAAGTA
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:1839853 original size:22 final size:23
Alignment explanation
Indices: 1839813--1839858 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1839803 ATAATAGTAT
* *
1839813 TAATAATTTTTTGTTATTTGTTA
1 TAATAATTTTTTATAATTTGTTA
*
1839836 TAAT-ATTTTTTATAATTTTTTA
1 TAATAATTTTTTATAATTTGTTA
1839858 T
1 T
1839859 TTGTGTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TAATAATTTTTTATAATTTGTTA
Found at i:1840536 original size:11 final size:11
Alignment explanation
Indices: 1840506--1840567 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
1840496 TACCTTAACT
1840506 TAAAATATAATA
1 TAAAA-ATAATA
1840518 -AAAAATAATA
1 TAAAAATAATA
*
1840528 TAAACATAATA
1 TAAAAATAATA
* *
1840539 TAAATATACGAAA
1 TAAAAATA--ATA
1840552 TAAAAAT-ATA
1 TAAAAATAATA
1840562 TAAAAA
1 TAAAAA
1840568 ATTTATCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 14 0.33
11 20 0.48
13 8 0.19
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:1842623 original size:14 final size:14
Alignment explanation
Indices: 1842606--1842648 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1842596 TCACTTATTT
1842606 TTTTAAAAATTTTA
1 TTTTAAAAATTTTA
* * *
1842620 TTTTGATAATTTAA
1 TTTTAAAAATTTTA
*
1842634 TTTAAAAAATTTTA
1 TTTTAAAAATTTTA
1842648 T
1 T
1842649 AATTTGATCA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTTTAAAAATTTTA
Found at i:1843198 original size:15 final size:15
Alignment explanation
Indices: 1843178--1843212 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1843168 AACCTTGGAG
1843178 TATAATTTACAAAAA
1 TATAATTTACAAAAA
**
1843193 TATAATTTATTAAAA
1 TATAATTTACAAAAA
1843208 TATAA
1 TATAA
1843213 AATTCAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAATTTACAAAAA
Found at i:1843482 original size:2 final size:2
Alignment explanation
Indices: 1843477--1843506 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1843467 GTTGCAAATA
1843477 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
1843507 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1853169 original size:25 final size:24
Alignment explanation
Indices: 1853135--1853181 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1853125 ACAAATTATA
* *
1853135 AGTCACAATTTTTATATAAAAAACC
1 AGTCAAAATTTTCAT-TAAAAAACC
1853160 AGTCAAAATTTTCATTAAAAAA
1 AGTCAAAATTTTCATTAAAAAA
1853182 TATATAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (24 bp):
AGTCAAAATTTTCATTAAAAAACC
Found at i:1855244 original size:20 final size:20
Alignment explanation
Indices: 1855208--1855267 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
1855198 AATAAGGAAA
*
1855208 AATATTAAATATTTTAATTT
1 AATATTAAATATATTAATTT
*
1855228 AATATTATAAT-TATTAATTA
1 AATATTA-AATATATTAATTT
*
1855248 AAGA-TAAGATA-ATTAATTT
1 AATATTAA-ATATATTAATTT
1855267 A
1 A
1855268 GTAAATGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 17 0.52
21 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATTAAATATATTAATTT
Found at i:1857392 original size:26 final size:26
Alignment explanation
Indices: 1857363--1857413 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
1857353 TCTATCAAGC
1857363 AAACAATGACACTTGTCACTATTGGA
1 AAACAATGACACTTGTCACTATTGGA
1857389 AAACAATGACACTTGTCACTATTGG
1 AAACAATGACACTTGTCACTATTGG
1857414 CTATATGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (26 bp):
AAACAATGACACTTGTCACTATTGGA
Found at i:1869297 original size:20 final size:20
Alignment explanation
Indices: 1869272--1869349 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
1869262 GGAAAAAAGA
*
1869272 AAGAATGTATCGATATATTG
1 AAGAATGTATCGATACATTG
*
1869292 AAGAATGTATCGATACATTC
1 AAGAATGTATCGATACATTG
*
1869312 ATA-CATGTATCGATACATTG
1 A-AGAATGTATCGATACATTG
*
1869332 AAAAATGTATCGATACAT
1 AAGAATGTATCGATACAT
1869350 CTAGGTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AAGAATGTATCGATACATTG
Found at i:1869389 original size:20 final size:20
Alignment explanation
Indices: 1869364--1869440 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
1869354 GTAAAAAGAT
* *
1869364 AAAATGTATCAATACATTGA
1 AAAATGTATCGATACATTAA
*
1869384 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTAA
* ** *
1869404 TACCTGTATCGATGCATTAA
1 AAAATGTATCGATACATTAA
1869424 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
1869441 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:1869403 original size:91 final size:90
Alignment explanation
Indices: 1869248--1869511 Score: 350
Period size: 91 Copynumber: 2.9 Consensus size: 90
1869238 TTTTTCAATA
* * *
1869248 TATCGATACATCTGGGAAAAAAGAAAGAATGTATCGATATATTGAAGAATGTATCGATACATTCA
1 TATCGATACATCTGGGTAAAAAGAAA-AATGTATCGATACATTGAAAAATGTATCGATACATTCA
*
1869313 TACATGTATCGATACATTGAAAAATG
65 TACATGTATCGATACATTAAAAAATG
* *
1869339 TATCGATACATCTAGGTAAAAAGATAAAATGTATCAATACATTGAAAAATGTATCGATACATTCA
1 TATCGATACATCTGGGTAAAAAGA-AAAATGTATCGATACATTGAAAAATGTATCGATACATTCA
* *
1869404 TACCTGTATCGATGCATTAAAAAATG
65 TACATGTATCGATACATTAAAAAATG
* * * *
1869430 TATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTCG-TACATGTATCGATACATTA
1 TATCGATACATCTGGGTAAAAAGA-AAAATGTATCGATACATT-GAAAAATGTATCGATACATTC
* * *
1869494 AAAAATGCATCGATACAT
64 ATACATGTATCGATACAT
1869512 CTGGGTAAAA
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
91 148 0.98
92 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (90 bp):
TATCGATACATCTGGGTAAAAAGAAAAATGTATCGATACATTGAAAAATGTATCGATACATTCAT
ACATGTATCGATACATTAAAAAATG
Found at i:1869461 original size:71 final size:71
Alignment explanation
Indices: 1869386--1869522 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
1869376 TACATTGAAA
* * *
1869386 AATGTATCGATACATTCATACCTGTATCGATGCATTAAAAAATGTATCGATACATCTGGGTAAAA
1 AATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGCATCGATACATCTGGGTAAAA
1869451 AGACAG
66 AGACAG
*
1869457 AATGTATCGATACATTCGTACATGTATCGATACATTAAAAAATGCATCGATACATCTGGGTAAAA
1 AATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGCATCGATACATCTGGGTAAAA
1869522 A
66 A
1869523 TGTGACTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (71 bp):
AATGTATCGATACATTCATACATGTATCGATACATTAAAAAATGCATCGATACATCTGGGTAAAA
AGACAG
Found at i:1871534 original size:13 final size:13
Alignment explanation
Indices: 1871516--1871540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1871506 CATTATGCTT
1871516 TGTATCGATACAA
1 TGTATCGATACAA
1871529 TGTATCGATACA
1 TGTATCGATACA
1871541 TGTTCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.