Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 165 of 173
Found at i:49405880 original size:10 final size:11
Alignment explanation
Indices: 49405830--49405998 Score: 72
Period size: 11 Copynumber: 16.9 Consensus size: 11
49405820 CGGCCTTTAA
49405830 TTTTAAAATAT
1 TTTTAAAATAT
* *
49405841 TTTTTACATAT
1 TTTTAAAATAT
*
49405852 TTTTTAAAT-T
1 TTTTAAAATAT
49405862 TTTT---A-A-
1 TTTTAAAATAT
49405868 TTTTAAAATAT
1 TTTTAAAATAT
*
49405879 TTTTAAAAAACT
1 TTTTAAAATA-T
*
49405891 TTTT-TAAT-T
1 TTTTAAAATAT
*
49405900 TTTT----TAA
1 TTTTAAAATAT
49405907 TTTTAAAATAT
1 TTTTAAAATAT
49405918 TTTTAAAATACT
1 TTTTAAAATA-T
*
49405930 TTTT-TAAT-T
1 TTTTAAAATAT
** *
49405939 TTTT--TTTAA
1 TTTTAAAATAT
49405948 TTTTAAAATAT
1 TTTTAAAATAT
49405959 TTTTAAAATACT
1 TTTTAAAATA-T
*
49405971 TTTT-TAAT-T
1 TTTTAAAATAT
49405980 TTTTAAAA-A-
1 TTTTAAAATAT
49405989 TTTTAAAATA
1 TTTTAAAATA
49405999 AAAATAGGCC
Statistics
Matches: 121, Mismatches: 17, Indels: 41
0.68 0.09 0.23
Matches are distributed among these distances:
6 5 0.04
7 5 0.04
8 1 0.01
9 28 0.23
10 9 0.07
11 58 0.48
12 15 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:49405952 original size:30 final size:30
Alignment explanation
Indices: 49405918--49405998 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
49405908 TTTAAAATAT
* **
49405918 TTTTAAAATACTTTTT-TAATTTTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
49405948 TTTTAAAATATTTTTAAAATACTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAA
49405978 TTTTTTAAAA-A-TTTTAAAATA
1 --TTTTAAAATATTTTTAAAATA
49405999 AAAATAGGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.11
30 31 0.69
31 1 0.02
32 8 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:49405955 original size:41 final size:39
Alignment explanation
Indices: 49405825--49405998 Score: 260
Period size: 39 Copynumber: 4.4 Consensus size: 39
49405815 GGGCCCGGCC
* * *
49405825 TTTAATTTTAAAATATTTTTTACATA-TTTTTTAAATTT
1 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTT
*
49405863 TTTAATTTTAAAATATTTTTAAAAAACTTTTTTAATTTT
1 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTT
49405902 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTT
1 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAA--TTTT
49405943 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTT
1 TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTT
*
49405982 TTAAAAATTTTAAAATA
1 TT--TAATTTTAAAATA
49405999 AAAATAGGCC
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
38 23 0.18
39 51 0.41
41 51 0.41
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTT
Found at i:49407066 original size:21 final size:22
Alignment explanation
Indices: 49407041--49407083 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49407031 AAAATATATT
* *
49407041 AAATAT-ATATTTTTATTTTTA
1 AAATATAATAGTTTTAGTTTTA
49407062 AAATATAATAGTTTTAGTTTTA
1 AAATATAATAGTTTTAGTTTTA
49407084 TTTTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
AAATATAATAGTTTTAGTTTTA
Found at i:49412884 original size:41 final size:43
Alignment explanation
Indices: 49412819--49412928 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 43
49412809 TTTATACGTA
* * * * *
49412819 TAAGACCATGTCTGGGATATTGGCATCG-TATTTGATT-TGTG
1 TAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTATATG
*
49412860 TAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTATATG
1 TAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTATATG
* *
49412903 TAAGACCACGTCTGGGAC-GTTGGCAT
1 TAAGACCATGTCTAGGACAG-TGGCAT
49412929 TGTACGAGCC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 24 0.42
42 9 0.16
43 24 0.42
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTATATG
Found at i:49412927 original size:43 final size:42
Alignment explanation
Indices: 49412774--49412928 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
49412764 TGTATTTTCG
* *
49412774 TGTAAGATCACGTCTGGGACGTTGGCATCGA-ATTGTTTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTATA
* * ** *
49412815 CGTATAAGACCATGTCTGGGATATTGGCATCG-TATTTGATT-TG
1 --TGTAAGACCACGTCTGGGACGTTGGCATCGATA-TTGATTATA
*
49412858 TGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGTGATTATA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATAT-TGATTATA
49412901 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
49412929 TGTACGAGCC
Statistics
Matches: 89, Mismatches: 14, Indels: 18
0.74 0.12 0.15
Matches are distributed among these distances:
41 24 0.27
42 8 0.09
43 51 0.57
44 6 0.07
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTATA
Found at i:49416578 original size:59 final size:58
Alignment explanation
Indices: 49416515--49416634 Score: 213
Period size: 59 Copynumber: 2.1 Consensus size: 58
49416505 ATCAGGTTTG
* *
49416515 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAA
1 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAA-TTAATAA
49416574 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
1 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
49416632 TTT
1 TTT
49416635 GATAATTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 9 0.15
59 50 0.85
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (58 bp):
TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAACAATTAATAA
Found at i:49416686 original size:23 final size:23
Alignment explanation
Indices: 49416628--49416697 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
49416618 TTAACAATTA
* *
49416628 ATAATTTGATAATTTTACTAACAAT
1 ATAATTT--TAATTTTATTAAAAAT
*
49416653 -TAGTTTTAATTTTATTAAAAAT
1 ATAATTTTAATTTTATTAAAAAT
49416675 ATAATTTTAATTTTAATTAAAAA
1 ATAATTTTAATTTT-ATTAAAAA
49416698 CGGGCTAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 14 0.36
23 12 0.31
24 13 0.33
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
ATAATTTTAATTTTATTAAAAAT
Found at i:49431230 original size:3 final size:3
Alignment explanation
Indices: 49431222--49431261 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
49431212 ATATGTAGGT
*
49431222 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
49431262 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49431245 original size:15 final size:12
Alignment explanation
Indices: 49431224--49431275 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
49431214 ATGTAGGTAT
49431224 AATAATAATATATA
1 AATAATAATA-A-A
49431238 ATATAATAATAAA
1 A-ATAATAATAAA
49431251 AATAATAATAACA
1 AATAATAATAA-A
*
49431264 AA-ATTAATAAA
1 AATAATAATAAA
49431275 A
1 A
49431276 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:49431745 original size:19 final size:19
Alignment explanation
Indices: 49431721--49431774 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
49431711 TCATACCTTT
49431721 TAAGATTACATATCATATC
1 TAAGATTACATATCATATC
*
49431740 TAAGATTGCATATATCATATC
1 TAAGATT--ACATATCATATC
*
49431761 TAAGATTGCATATC
1 TAAGATTACATATC
49431775 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.40
21 18 0.60
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TAAGATTACATATCATATC
Found at i:49431756 original size:21 final size:21
Alignment explanation
Indices: 49431730--49431773 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49431720 TTAAGATTAC
49431730 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
49431751 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
49431772 AT
1 AT
49431774 CCTTGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:49439574 original size:31 final size:30
Alignment explanation
Indices: 49439497--49439580 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
49439487 TTTTGTGAGA
* * *
49439497 TTAATAAAAATTTTCAAAATTTAAGAGGAT
1 TTAATTAAAATTTTTAAAATTTAAGAGGAC
49439527 TTAATTAAAATTTTTTAAAATTTAAAGAGG-C
1 TTAATTAAAA-TTTTTAAAATTT-AAGAGGAC
*
49439558 TTAATTAAATATTTTTAATATTT
1 TTAATTAAA-ATTTTTAAAATTT
49439581 TGAAGGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.19
31 31 0.66
32 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (30 bp):
TTAATTAAAATTTTTAAAATTTAAGAGGAC
Found at i:49440107 original size:18 final size:16
Alignment explanation
Indices: 49440070--49440108 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
49440060 AGGATTGAGA
*
49440070 TAAAATAATAAAATAT
1 TAAAATAAAAAAATAT
49440086 TAAAATGAAAAAAATCAT
1 TAAAAT-AAAAAAAT-AT
49440104 TAAAA
1 TAAAA
49440109 GATTGGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAATAT
Found at i:49441992 original size:12 final size:12
Alignment explanation
Indices: 49441975--49441999 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49441965 CTCATAGGGT
49441975 CCTTTTTAAATC
1 CCTTTTTAAATC
49441987 CCTTTTTAAATC
1 CCTTTTTAAATC
49441999 C
1 C
49442000 AACTTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTTTTAAATC
Found at i:49447164 original size:30 final size:31
Alignment explanation
Indices: 49447130--49447202 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
49447120 AAAAGTTACA
* *
49447130 ATTT-AGTCATTGAACTATTTAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
*
49447160 ATTTAAGTTACTGAACTATTCAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
*
49447191 ATTCAAGTCACT
1 ATTTAAGTCACT
49447203 TTACTGTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (31 bp):
ATTTAAGTCACTGAACTATTCAAAAGTTTTT
Found at i:49462924 original size:18 final size:19
Alignment explanation
Indices: 49462893--49462934 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
49462883 TCATTGATTA
*
49462893 AATTTTTAATATTTTTTCT
1 AATTTTTAATATTTTTTAT
49462912 AATTTTTAA-ATTTTTTAT
1 AATTTTTAATATTTTTTAT
49462930 AATTT
1 AATTT
49462935 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTAATATTTTTTAT
Found at i:49463745 original size:21 final size:19
Alignment explanation
Indices: 49463720--49463758 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
49463710 CGGCCTATTT
49463720 TTTAAATAAACACAAAAAAAA
1 TTTAAA-AAACA-AAAAAAAA
*
49463741 TTTAAAAAATAAAAAAAA
1 TTTAAAAAACAAAAAAAA
49463759 GTATTCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
TTTAAAAAACAAAAAAAAA
Found at i:49463792 original size:39 final size:36
Alignment explanation
Indices: 49463734--49463828 Score: 118
Period size: 39 Copynumber: 2.5 Consensus size: 36
49463724 AATAAACACA
49463734 AAAAAAATTTAAAAAATAAAAAAAAGTATTCTAAAAAT
1 AAAAAAA--TAAAAAATAAAAAAAAGTATTCTAAAAAT
* * *
49463772 ATTTTAAAAATAAAAAATAAAAAAATGTATTTTAAAAAT
1 A---AAAAAATAAAAAATAAAAAAAAGTATTCTAAAAAT
49463811 AAAAAAATAAAAAATAAA
1 AAAAAAATAAAAAATAAA
49463829 TATATTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
36 16 0.32
38 1 0.02
39 28 0.56
41 5 0.10
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (36 bp):
AAAAAAATAAAAAATAAAAAAAAGTATTCTAAAAAT
Found at i:49468488 original size:17 final size:16
Alignment explanation
Indices: 49468464--49468535 Score: 54
Period size: 17 Copynumber: 4.0 Consensus size: 16
49468454 AAGGATTTTC
49468464 CTCAACAGAAAATATT
1 CTCAACAGAAAATATT
*
49468480 CTGCAACAGTTAGAAAATTTT
1 CT-CAAC----AGAAAATATT
*
49468501 CCTCAACTGAAAAATATT
1 -CTCAACAG-AAAATATT
49468519 CTACAACAGAAAATATT
1 CT-CAACAGAAAATATT
49468536 TTGAAAAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
16 2 0.05
17 15 0.34
18 12 0.27
21 13 0.30
22 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (16 bp):
CTCAACAGAAAATATT
Found at i:49472551 original size:20 final size:21
Alignment explanation
Indices: 49472514--49472557 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
49472504 ATTAGCTAAC
49472514 AAATATATAAATAAAT-AAAT
1 AAATATATAAATAAATAAAAT
* * *
49472534 AAATATTTATATATATAAAAT
1 AAATATATAAATAAATAAAAT
49472555 AAA
1 AAA
49472558 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATATAAATAAATAAAAT
Found at i:49475137 original size:14 final size:14
Alignment explanation
Indices: 49475118--49475146 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49475108 AAGTAATTTT
49475118 TAATTTCTTAGTAA
1 TAATTTCTTAGTAA
49475132 TAATTTCTTAGTAA
1 TAATTTCTTAGTAA
49475146 T
1 T
49475147 CAGGACTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TAATTTCTTAGTAA
Found at i:49487010 original size:5 final size:6
Alignment explanation
Indices: 49486995--49487020 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49486985 TTTGCCTTCA
49486995 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
49487021 TACTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:49488972 original size:21 final size:20
Alignment explanation
Indices: 49488930--49488972 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
49488920 CAACTGTTTT
* * *
49488930 ATTTTTTTATTTTTTTTTAA
1 ATTTTTTTATATTTTATGAA
49488950 ATTTTTATTATATTTTATGAA
1 ATTTTT-TTATATTTTATGAA
49488971 AT
1 AT
49488973 ATATATCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTTTATATTTTATGAA
Found at i:49489453 original size:166 final size:166
Alignment explanation
Indices: 49489179--49489502 Score: 533
Period size: 166 Copynumber: 2.0 Consensus size: 166
49489169 GATTGTTGTC
49489179 CAAGCGATGTTCTGAAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
1 CAAGCGATGTTCTGAAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
* *
49489244 AAAACACGACCAAATCATGTCACATTCCTGCAACCTCATGTGACAACAAAGGTTAAAAGAAAATT
66 AAAACACGACCAAATCATGTCACATCCCTGCAACCTCATGTGACAACAAAGGTTAAAAGAAAATC
49489309 AAGACCGAAAAGATTTAGAGAAAAACCATGTGACAA
131 AAGACCGAAAAGATTTAGAGAAAAACCATGTGACAA
* * * * *
49489345 CAAGCGATGTTTTGGAAAATGAATAAATTCTTGTTTTTCCAGGTGCACCAAGTGGTTATTTCAAA
1 CAAGCGATGTTCTGAAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
* * *
49489410 AAGACACGATCAAAT-AGTGTCACGTCCCTGCAACCTCATGTGACAACAAAGGTTAAAAGAAAAT
66 AAAACACGACCAAATCA-TGTCACATCCCTGCAACCTCATGTGACAACAAAGGTTAAAAGAAAAT
*
49489474 CAATACCGAAAAGATTTAGAGAAAAACCA
130 CAAGACCGAAAAGATTTAGAGAAAAACCA
49489503 ATATTATTGA
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
165 1 0.01
166 145 0.99
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (166 bp):
CAAGCGATGTTCTGAAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
AAAACACGACCAAATCATGTCACATCCCTGCAACCTCATGTGACAACAAAGGTTAAAAGAAAATC
AAGACCGAAAAGATTTAGAGAAAAACCATGTGACAA
Found at i:49490908 original size:13 final size:13
Alignment explanation
Indices: 49490892--49490935 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
49490882 TTTTTGGTAT
49490892 ATTTTTGTAAATA
1 ATTTTTGTAAATA
* *
49490905 ATTTTT-TATATT
1 ATTTTTGTAAATA
*
49490917 ATTTTGGTAAATA
1 ATTTTTGTAAATA
49490930 ATTTTT
1 ATTTTT
49490936 TTATATTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
ATTTTTGTAAATA
Found at i:49490909 original size:24 final size:25
Alignment explanation
Indices: 49490882--49490951 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
49490872 TTTTTTTCTT
* *
49490882 TTTTTGGTA-TATTTTTGTAAATAA
1 TTTTTGATATTATTTTGGTAAATAA
*
49490906 TTTTTTATATTATTTTGGTAAATAA
1 TTTTTGATATTATTTTGGTAAATAA
*
49490931 TTTTTTTATATTATTTTGGTA
1 -TTTTTGATATTATTTTGGTA
49490952 TTTTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.17
25 14 0.34
26 20 0.49
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (25 bp):
TTTTTGATATTATTTTGGTAAATAA
Found at i:49490960 original size:26 final size:26
Alignment explanation
Indices: 49490891--49490951 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
49490881 TTTTTTGGTA
*
49490891 TATTTTTGTAAATAA-TTTTTTATAT
1 TATTTTGGTAAATAATTTTTTTATAT
49490916 TATTTTGGTAAATAATTTTTTTATAT
1 TATTTTGGTAAATAATTTTTTTATAT
49490942 TATTTTGGTA
1 TATTTTGGTA
49490952 TTTTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (26 bp):
TATTTTGGTAAATAATTTTTTTATAT
Found at i:49490979 original size:21 final size:23
Alignment explanation
Indices: 49490905--49490979 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 23
49490895 TTTGTAAATA
*
49490905 ATTTTTTATATTATTTTGGTAAATA
1 ATTTTTTATATTATTTTGGT--ATT
49490930 ATTTTTTTATATTATTTTGGTATT
1 A-TTTTTTATATTATTTTGGTATT
* * *
49490954 TTTTTTTAT-TTCTTTT-GTGTT
1 ATTTTTTATATTATTTTGGTATT
49490975 ATTTT
1 ATTTT
49490980 AGTAAAACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.18
22 6 0.14
23 8 0.18
24 2 0.05
25 1 0.02
26 19 0.43
ACGTcount: A:0.20, C:0.01, G:0.08, T:0.71
Consensus pattern (23 bp):
ATTTTTTATATTATTTTGGTATT
Found at i:49497371 original size:13 final size:13
Alignment explanation
Indices: 49497353--49497394 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
49497343 TTATAAAATA
*
49497353 AATATTAATAATT
1 AATATTAATTATT
*
49497366 AATATTATTTATT
1 AATATTAATTATT
*
49497379 ATTATT-ATTATT
1 AATATTAATTATT
49497391 AATA
1 AATA
49497395 AAATCATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTAATTATT
Found at i:49498173 original size:16 final size:16
Alignment explanation
Indices: 49498152--49498183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49498142 CTATTTTTTA
49498152 ATTTAATGTATTATTT
1 ATTTAATGTATTATTT
*
49498168 ATTTAATTTATTATTT
1 ATTTAATGTATTATTT
49498184 TTCACATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTAATGTATTATTT
Found at i:49506206 original size:5 final size:5
Alignment explanation
Indices: 49506196--49506223 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49506186 TTCTCTCAGG
49506196 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
49506224 GAATCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:49512625 original size:101 final size:102
Alignment explanation
Indices: 49512506--49512690 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 102
49512496 AAAGTCATGG
* * * *
49512506 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G--ATAGGTCGCATGTATAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACC-AAATAGTAAT-GGTCACATATATAG
49512568 TACTATGTGCAGGCTACTATGCGTACCACATAGTTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCACATAGTTTCGA
* * *
49512607 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTATCAAATAGTAATGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAAATAGTAATGGTCACATATATAGTA
49512672 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
49512691 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 3 0.04
101 37 0.50
102 32 0.43
103 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAAATAGTAATGGTCACATATATAGTA
CTATGTGCAGGCTACTATGCGTACCACATAGTTTCGA
Found at i:49512636 original size:51 final size:51
Alignment explanation
Indices: 49512513--49512690 Score: 148
Period size: 51 Copynumber: 3.5 Consensus size: 51
49512503 TGGTCACGTG
* * * * * *
49512513 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G--ATAGGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACC-AAATAGTAAT-GATCACATA
* * * * *
49512563 TATAGTACTATGTGCAGGCTACTATGCGTACCACATAGT-TTCGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAAT-GATCACATA
* *** * *
49512614 TGTAGTACTATGTGTAGGCTACTACATGTATCAAATAGTAATGGTCACATA
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAATGATCACATA
49512665 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
49512691 TGAACCGAAC
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 30 0.30
51 68 0.67
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGTAATGATCACATA
Found at i:49512750 original size:45 final size:45
Alignment explanation
Indices: 49512694--49512788 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
49512684 TACTATGTGA
* *
49512694 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
* *
49512739 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
49512784 ACCGA
1 ACCGA
49512789 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:49512934 original size:37 final size:38
Alignment explanation
Indices: 49512863--49512935 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
49512853 AGGTGTGGAA
49512863 TTGAATTGAATATCGACTTAGAAATGAAAAAGTGAATT
1 TTGAATTGAATATCGACTTAGAAATGAAAAAGTGAATT
* *
49512901 TTGAATTGAATTTTGA-TT-GAAAGTGAAAAAGTGAA
1 TTGAATTGAATATCGACTTAGAAA-TGAAAAAGTGAA
49512936 ATTATGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATATCGACTTAGAAATGAAAAAGTGAATT
Found at i:49518493 original size:34 final size:35
Alignment explanation
Indices: 49518438--49518504 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49518428 CAAACACCAG
*
49518438 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
49518473 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
49518505 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:49520396 original size:31 final size:32
Alignment explanation
Indices: 49520351--49520410 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
49520341 TCATTTCGAC
49520351 TCTTTTTCAAAAGGTTGATGGTC-AAATTTGAT
1 TCTTTTTCAAAAGGTTG-TGGTCTAAATTTGAT
49520383 TCTTTTT-AAAAGGTTGTGGTCTAAATTT
1 TCTTTTTCAAAAGGTTGTGGTCTAAATTT
49520411 AGCTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 15 0.56
32 7 0.26
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (32 bp):
TCTTTTTCAAAAGGTTGTGGTCTAAATTTGAT
Found at i:49522331 original size:10 final size:10
Alignment explanation
Indices: 49522318--49522355 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
49522308 ATGTAACGAC
49522318 AAATAATAAA
1 AAATAATAAA
49522328 AAAT--TAAA
1 AAATAATAAA
49522336 AAATAATAAA
1 AAATAATAAA
49522346 AAATAATAAA
1 AAATAATAAA
49522356 TGTTATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAATAAA
Found at i:49522548 original size:30 final size:30
Alignment explanation
Indices: 49522512--49522580 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
49522502 CTTTTTTTTC
49522512 TAATTTTTAATAAAAATTAAATATTTCTTA
1 TAATTTTTAATAAAAATTAAATATTTCTTA
* * * *
49522542 TAATTTTTTATTAAAATTTAATATTTTTTA
1 TAATTTTTAATAAAAATTAAATATTTCTTA
*
49522572 TAAATTTTA
1 TAATTTTTA
49522581 TTGATTTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
TAATTTTTAATAAAAATTAAATATTTCTTA
Found at i:49524773 original size:22 final size:22
Alignment explanation
Indices: 49524747--49524791 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49524737 AAAATTATAA
* *
49524747 AAATAGAAAAATATATAAGCAT
1 AAATACAAAAATATAAAAGCAT
*
49524769 AAATACAAAAATCTAAAAGCAT
1 AAATACAAAAATATAAAAGCAT
49524791 A
1 A
49524792 TATGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (22 bp):
AAATACAAAAATATAAAAGCAT
Found at i:49537565 original size:21 final size:21
Alignment explanation
Indices: 49537497--49537583 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
49537487 TTATGAATTT
*
49537497 TTTTTATCACATAATTT-ATGA
1 TTTTTATCA-ATTATTTAATGA
* * *
49537518 TGGTTT-TCAGTTATTGAATGAA
1 T-TTTTATCAATTATTTAATG-A
49537540 TTTTTATCATATTATTT-ATGA
1 TTTTTATCA-ATTATTTAATGA
*
49537561 TTTTTTTTCAATTATTTAATGA
1 -TTTTTATCAATTATTTAATGA
49537583 T
1 T
49537584 ATTTCAATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
20 4 0.08
21 19 0.37
22 23 0.45
23 5 0.10
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTTTATCAATTATTTAATGA
Found at i:49537576 original size:44 final size:44
Alignment explanation
Indices: 49537497--49537587 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
49537487 TTATGAATTT
*
49537497 TTTTTATCACATAATTTATGATGGTTTTCAGTTATTGAATGA-A
1 TTTTTATCACATAATTTATGATGGTTTTCAATTATTGAATGATA
* * ** *
49537540 TTTTTATCATATTATTTATGATTTTTTTTCAATTATTTAATGATA
1 TTTTTATCACATAATTTATGA-TGGTTTTCAATTATTGAATGATA
49537585 TTT
1 TTT
49537588 CAATCATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 19 0.47
44 17 0.43
45 4 0.10
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (44 bp):
TTTTTATCACATAATTTATGATGGTTTTCAATTATTGAATGATA
Found at i:49537688 original size:14 final size:14
Alignment explanation
Indices: 49537659--49537700 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
49537649 TTGAACTCGA
49537659 ATTTAGAGAATTCAAG
1 ATTTAGAG--TTCAAG
*
49537675 ATTTAGGGTTCAAG
1 ATTTAGAGTTCAAG
49537689 ATTTAGAGTTCA
1 ATTTAGAGTTCA
49537701 TGTTTAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.71
16 7 0.29
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ATTTAGAGTTCAAG
Found at i:49544986 original size:30 final size:30
Alignment explanation
Indices: 49544952--49545012 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
49544942 CAACTTAACA
*
49544952 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
*
49544982 AACAAATGCATTTAAAATAATAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
49545012 A
1 A
49545013 TCAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
AACAAATGCATCTAAAATAATAACAAAATT
Found at i:49545073 original size:14 final size:14
Alignment explanation
Indices: 49545039--49545077 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
49545029 TATACAATAT
*
49545039 CAAAATAATAACAA
1 CAAAATAGTAACAA
*
49545053 TAAAATAGTAACAA
1 CAAAATAGTAACAA
*
49545067 CATAATAGTAA
1 CAAAATAGTAA
49545078 AATGGTAGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (14 bp):
CAAAATAGTAACAA
Found at i:49548882 original size:16 final size:17
Alignment explanation
Indices: 49548850--49548884 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
49548840 CAATTCATAA
49548850 TATAACTAAAATATTTT
1 TATAACTAAAATATTTT
*
49548867 TATAACT-AATTATTTT
1 TATAACTAAAATATTTT
49548883 TA
1 TA
49548885 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAACTAAAATATTTT
Found at i:49551504 original size:12 final size:11
Alignment explanation
Indices: 49551473--49551500 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
49551463 TATATATATT
49551473 TAAAAATTATA
1 TAAAAATTATA
49551484 TAAAAATTATA
1 TAAAAATTATA
49551495 TAAAAA
1 TAAAAA
49551501 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:49561418 original size:29 final size:31
Alignment explanation
Indices: 49561353--49561426 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 31
49561343 ACTACTAAAA
**
49561353 TAGTCACTTTTGTTTGGTTCATATTACATTT
1 TAGTCACTTTTGTTTGGTAAATATTACATTT
* *
49561384 TAGTCACTTTTGTTT-G-AAATGTTACGTTT
1 TAGTCACTTTTGTTTGGTAAATATTACATTT
*
49561413 TAGTCACTTATGTT
1 TAGTCACTTTTGTT
49561427 ATCATGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (31 bp):
TAGTCACTTTTGTTTGGTAAATATTACATTT
Found at i:49562919 original size:13 final size:13
Alignment explanation
Indices: 49562901--49562930 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49562891 TTGAAACCAA
49562901 AATAAACAATAAT
1 AATAAACAATAAT
*
49562914 AATAAATAATAAT
1 AATAAACAATAAT
49562927 AATA
1 AATA
49562931 TTATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAACAATAAT
Found at i:49564867 original size:44 final size:44
Alignment explanation
Indices: 49564815--49564900 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
49564805 ATTACTTGAT
*
49564815 CTACTCCACTACTGCTTAGGGAGACATGATTTGAAATCTTCAAC
1 CTACTCCACTACTGCTTAGGGAGACAGGATTTGAAATCTTCAAC
* * *
49564859 CTACTCCACTACTGTTTAGGGAGATAGGATTTGCAATCTTCA
1 CTACTCCACTACTGCTTAGGGAGACAGGATTTGAAATCTTCA
49564901 GTCTGCTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
CTACTCCACTACTGCTTAGGGAGACAGGATTTGAAATCTTCAAC
Found at i:49564884 original size:133 final size:132
Alignment explanation
Indices: 49564612--49564870 Score: 335
Period size: 133 Copynumber: 2.0 Consensus size: 132
49564602 CGCAACGTCG
* * * * **
49564612 GGGAGATAGAATTACTGGCTTCAAAGTACTCCATTGTAACCTTAGGGAGGTAAAATTCGCCATAT
1 GGGAGATAAAATCACTGGATTCAAAGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATAT
* * * *
49564677 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCCCAC
66 TCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAACCTACTCCACTACCCAC
49564742 TA
131 TA
* *
49564744 GGGAGATAAAATCACTGGATTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA-TCTGCCATT
1 GGGAGATAAAATCACTGGATTCAAAGTACTCCACTGTAACCACAGGGAGGTAAAATTC-GCCA-T
* *
49564808 ACTT-GATCTACTCCACTACTGCTTAGGGAGACATGATTTGA-AATCTTCAACCTACTCCACTAC
64 A-TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCT-ATAATCTTCAACCTACTCCACTAC
49564871 TGTTTAGGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
131 2 0.02
132 51 0.47
133 53 0.49
134 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (132 bp):
GGGAGATAAAATCACTGGATTCAAAGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATAT
TCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAACCTACTCCACTACCCAC
TA
Found at i:49565013 original size:88 final size:88
Alignment explanation
Indices: 49564903--49565814 Score: 1280
Period size: 88 Copynumber: 10.4 Consensus size: 88
49564893 AATCTTCAGT
* * ** * * *
49564903 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTTGACCTGTTCGA-CTACAACCGAT
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-ACAACCGA-
*
49564967 G-GAGGCAAGGTTTGTGTCTTCGAT
64 GAGAGGCAAGGTTTGTGTCTTCGAC
* * ** * * ** *
49564991 CTGCTTCG-TCGTCAATGTAGGAATGCAAGATCTGCTATTTTTTACCTA-CTTCCCT-ACAACCG
1 CTGCTTCGCT-GTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACC-AGC-TCCATCACAACCG
* * * *
49565053 AGGGAGGTAAGGTTTGTATTTTCGAC
63 AGAGAGGCAAGGTTTGTGTCTTCGAC
* *
49565079 CTGCTTCGCTTTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
49565144 GAGGCAAGGTTTGTGTCTTCAAC
66 GAGGCAAGGTTTGTGTCTTCGAC
49565167 CTGCTTCGCTGTCAATGCAGGAAGG-AAGGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAG
1 CTGCTTCGCTGTCAATGCAGGAAGGCAA-GATCTTTTGTCTTCAACCAGCTCCATCACAACCGAG
* *
49565231 AGAGACAAGGTTTGAGTCTTCGAC
65 AGAGGCAAGGTTTGTGTCTTCGAC
* * *
49565255 CTGCTTCGCTTTCAATGCATGAAGGCAAGATCTTTTGTCTTCAACTAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
49565320 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
*
49565343 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
49565408 GAGGCAAGGTTTGAGACTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
*
49565431 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACAAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
49565496 GAGGCAAGGTTTGAGTCTTCGAT
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
49565519 CTGCTTCGCTGTTAATGAAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
49565584 GAGGCAAGGTTTGAGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
49565607 CTGCTTCGCTGTCAATGCATGAAGGCAAGATCTTTTGTCTTCAACTAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
49565672 GAGGCAAGGTTTATGTCTTCGAT
66 GAGGCAAGGTTTGTGTCTTCGAC
* * *
49565695 CTGCTTCACCGCCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
** *
49565760 GAGGCAAGGTTTACGTTTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
*
49565783 CTGCTTCACTGTCAATGCAGGAA-GCAAGATCT
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
49565815 GTAACTTCAT
Statistics
Matches: 744, Mismatches: 70, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
87 18 0.02
88 721 0.97
89 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (88 bp):
CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
GAGGCAAGGTTTGTGTCTTCGAC
Found at i:49566365 original size:13 final size:13
Alignment explanation
Indices: 49566347--49566371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49566337 ATTATCCAAA
49566347 AATAATAAAGAAG
1 AATAATAAAGAAG
49566360 AATAATAAAGAA
1 AATAATAAAGAA
49566372 ATTGATTGGG
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AATAATAAAGAAG
Found at i:49568006 original size:7 final size:7
Alignment explanation
Indices: 49567974--49568029 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
49567964 TTTACTTCGA
49567974 TTTTTTG
1 TTTTTTG
*
49567981 ATTTTTG
1 TTTTTTG
*
49567988 ATTTTTG
1 TTTTTTG
49567995 ATTTTGTT-
1 -TTTT-TTG
49568003 TTTTTTG
1 TTTTTTG
*
49568010 TTTTGTTT
1 TTTT-TTG
49568018 TTTTTTG
1 TTTTTTG
49568025 TTTTT
1 TTTTT
49568030 CCTTCTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 2 0.05
7 28 0.68
8 9 0.22
9 2 0.05
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:49568013 original size:5 final size:5
Alignment explanation
Indices: 49567990--49568028 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
49567980 GATTTTTGAT
*
49567990 TTTTG ATTTTG TTTT- TTTTG TTTTG TTTTT TTTTG TTTT
1 TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
49568029 TCCTTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:49568022 original size:14 final size:15
Alignment explanation
Indices: 49567989--49568028 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
49567979 TGATTTTTGA
49567989 TTTTTGATTTTG-TTT
1 TTTTTG-TTTTGTTTT
49568004 TTTTTGTTTTGTTTT
1 TTTTTGTTTTGTTTT
49568019 TTTTTGTTTT
1 TTTTTGTTTT
49568029 TCCTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTTGTTTT
Found at i:49573179 original size:13 final size:13
Alignment explanation
Indices: 49573161--49573190 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49573151 TTGAAACCAA
49573161 AATAAACAATAAT
1 AATAAACAATAAT
*
49573174 AATAAATAATAAT
1 AATAAACAATAAT
49573187 AATA
1 AATA
49573191 TTATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAACAATAAT
Found at i:49577355 original size:18 final size:17
Alignment explanation
Indices: 49577327--49577370 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 17
49577317 GAACAAGTAA
49577327 AAAATTAAAAATTAAAAAT
1 AAAA-TAAAAA-TAAAAAT
49577346 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
49577363 AAAGATAA
1 AAA-ATAA
49577371 TTCTTTGCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 10 0.42
19 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:49577363 original size:6 final size:6
Alignment explanation
Indices: 49577326--49577370 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
49577316 CGAACAAGTA
*
49577326 AAAAATT AAAAATT AAAAAT -AAAAT AAAAAT AAAAAT AAAGAT AA
1 AAAAA-T AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
49577371 TTCTTTGCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
5 5 0.14
6 19 0.53
7 12 0.33
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:49583686 original size:30 final size:30
Alignment explanation
Indices: 49583646--49583722 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
49583636 GACATAAATG
* *
49583646 GGGTTACCGTGTTCGTCAGTGAGTTGAACC
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
* *
49583676 GGGTTGCCGTGTTCGTCGGTGAGTTGAATA
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
49583706 GGGTTGCCGTGTTCGTC
1 GGGTTGCCGTGTTCGTC
49583723 TCTCAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.18, G:0.38, T:0.32
Consensus pattern (30 bp):
GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
Found at i:49584777 original size:31 final size:31
Alignment explanation
Indices: 49584742--49584802 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
49584732 ATAACACATG
49584742 AGTGACTTAAATA-AGAACTTTCAAATAATTC
1 AGTGACTTAAATAGA-AACTTTCAAATAATTC
*
49584773 AGTGACTTAAATAGAAACTTTCTAATAATT
1 AGTGACTTAAATAGAAACTTTCAAATAATT
49584803 TAGTAATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAGAAACTTTCAAATAATTC
Found at i:49587419 original size:98 final size:98
Alignment explanation
Indices: 49587250--49587447 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
49587240 TGACATGTCA
49587250 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
1 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
49587315 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
66 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
49587348 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
1 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
*
49587413 TATCACTGTGGTCTTCCCTCTCTTGTCATATGC
66 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
49587446 TT
1 TT
49587448 CACGCTTTTC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
Found at i:49594694 original size:27 final size:27
Alignment explanation
Indices: 49594660--49594714 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
49594650 ATTCAACCTA
49594660 TTATTTATTATGATAAGTA-ATTTTTAT
1 TTATTTATTATGATAA-TATATTTTTAT
**
49594687 TTATTTATTATTTTAATATATTTTTAT
1 TTATTTATTATGATAATATATTTTTAT
49594714 T
1 T
49594715 GAAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TTATTTATTATGATAATATATTTTTAT
Found at i:49594744 original size:12 final size:13
Alignment explanation
Indices: 49594677--49594741 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
49594667 TTATGATAAG
*
49594677 TAATTTTTATTTAT
1 TAATTTTTA-TTAA
* *
49594691 TTATTATT-TTAA
1 TAATTTTTATTAA
*
49594703 TATATTTTTATTGA
1 TA-ATTTTTATTAA
49594717 -AATTTTTATTAAA
1 TAATTTTTATT-AA
49594730 TAATTTTTATTA
1 TAATTTTTATTA
49594742 TAAAATATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
12 13 0.32
13 8 0.20
14 19 0.47
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TAATTTTTATTAA
Found at i:49596529 original size:30 final size:30
Alignment explanation
Indices: 49596495--49596551 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
49596485 TATATAAAAT
49596495 TTTATTATTATATTAAATTATT-TAAATAAA
1 TTTATTATTATATTAAATT-TTGTAAATAAA
49596525 TTTATTATTATATTAAATTTTGTAAAT
1 TTTATTATTATATTAAATTTTGTAAAT
49596552 CTTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTATTATTATATTAAATTTTGTAAATAAA
Found at i:49596556 original size:27 final size:27
Alignment explanation
Indices: 49596491--49596564 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 27
49596481 TAGTTATATA
49596491 AAATTTTATTATTATATTAAATTATTT
1 AAATTTTATTATTATATTAAATTATTT
49596518 AAATAAATTTATTATTATATTAAATT-TTGT
1 AAAT---TTTATTATTATATTAAATTATT-T
*
49596548 AAATCTTATTTATTATA
1 AAATTTTA-TTATTATA
49596565 AAATTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
27 7 0.17
28 8 0.20
29 2 0.05
30 24 0.59
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
AAATTTTATTATTATATTAAATTATTT
Found at i:49596568 original size:26 final size:25
Alignment explanation
Indices: 49596521--49596570 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
49596511 ATTATTTAAA
49596521 TAAATTTATTATTATATTAAATTTTG
1 TAAATTTATTATTATA-TAAATTTTG
49596547 TAAATCTTATTTATTATA-AAATTT
1 TAAAT-TTA-TTATTATATAAATTT
49596571 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 11 0.50
27 3 0.14
28 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TAAATTTATTATTATATAAATTTTG
Found at i:49599649 original size:17 final size:17
Alignment explanation
Indices: 49599629--49599661 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49599619 TACTTAAATA
49599629 TGTATTTGTAATTATAT
1 TGTATTTGTAATTATAT
*
49599646 TGTATTTGTATTTATA
1 TGTATTTGTAATTATA
49599662 AACTCGGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (17 bp):
TGTATTTGTAATTATAT
Found at i:49600930 original size:23 final size:22
Alignment explanation
Indices: 49600873--49600931 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
49600863 AAAAGCTATC
*
49600873 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
49600894 TACAGAATCGTATCTTCTAAAGAT
1 TACA-AATCATATCTTCT-AAGAT
*
49600918 TACATATCATATCT
1 TACAAATCATATCT
49600932 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 11 0.35
24 9 0.29
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49604354 original size:2 final size:2
Alignment explanation
Indices: 49604347--49604387 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
49604337 GTCAATACAT
*
49604347 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
49604388 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:49607272 original size:15 final size:15
Alignment explanation
Indices: 49607234--49607287 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
49607224 TTTTACAAAT
*
49607234 TAAAATATAATTATA
1 TAAAAAATAATTATA
49607249 -AAAAGAATAATTATA
1 TAAAA-AATAATTATA
* *
49607264 TTAAAAATAAATAATA
1 TAAAAAAT-AATTATA
49607280 TAAAAAAT
1 TAAAAAAT
49607288 TTCAATAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 4 0.12
15 12 0.38
16 16 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAAAAATAATTATA
Found at i:49611128 original size:20 final size:19
Alignment explanation
Indices: 49611103--49611166 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
49611093 TTAAAATTTT
*
49611103 AAAAATATTAAAAAATTATA
1 AAAAATATTTAAAAA-TATA
49611123 AAAAATATTTTTAAAAAT-TA
1 AAAAATA--TTTAAAAATATA
*
49611143 AAAATTATTTAAAAAGTATA
1 AAAAATATTTAAAAA-TATA
49611163 AAAA
1 AAAA
49611167 GAATATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 8 0.21
19 1 0.03
20 21 0.55
21 1 0.03
22 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATATTTAAAAATATA
Found at i:49611157 original size:40 final size:40
Alignment explanation
Indices: 49611090--49611166 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
49611080 CTTAACTAAT
* *
49611090 TTTTTAAAATTTTAAAAATATTAAAAAATTATAAAAAATA
1 TTTTTAAAATATTAAAAATATTAAAAAAGTATAAAAAATA
*
49611130 TTTTTAAAA-ATTAAAAATTATTTAAAAAGTATAAAAA
1 TTTTTAAAATATTAAAAA-TATTAAAAAAGTATAAAAA
49611167 GAATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (40 bp):
TTTTTAAAATATTAAAAATATTAAAAAAGTATAAAAAATA
Found at i:49625191 original size:2 final size:2
Alignment explanation
Indices: 49625184--49625209 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49625174 TAGTTTACTT
49625184 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
49625210 GAATATTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49628091 original size:28 final size:27
Alignment explanation
Indices: 49628060--49628123 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
49628050 TCCCCATTTA
49628060 AAAAGTCTTTAT-CTTTTTTATATTTTT
1 AAAAGTCTTTATGC-TTTTTATATTTTT
** *
49628087 GAAAAGAATTAATGCTTTTTATATTTTT
1 -AAAAGTCTTTATGCTTTTTATATTTTT
49628115 AAAA-TCTTT
1 AAAAGTCTTT
49628124 TTTTATAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 2 0.07
27 4 0.14
28 22 0.76
29 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (27 bp):
AAAAGTCTTTATGCTTTTTATATTTTT
Found at i:49628148 original size:22 final size:21
Alignment explanation
Indices: 49628102--49628150 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
49628092 GAATTAATGC
* *
49628102 TTTTTATATTTTTAAAATCTT
1 TTTTTATAGTTTTAAAATCTA
49628123 TTTTTATAAGTTTTAAGAAT-TA
1 TTTTTAT-AGTTTTAA-AATCTA
49628145 TTTTTA
1 TTTTTA
49628151 ATCATTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTATAGTTTTAAAATCTA
Found at i:49634701 original size:20 final size:19
Alignment explanation
Indices: 49634678--49634735 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
49634668 ATAGAACTTA
49634678 ATTAGGATTACGAAAATTAT
1 ATTAGGATTA-GAAAATTAT
49634698 ATTA-G-TTAG--AATTGA-
1 ATTAGGATTAGAAAATT-AT
49634713 ATTAGGATTATGAAAATTAT
1 ATTAGGATTA-GAAAATTAT
49634733 ATT
1 ATT
49634736 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
15 8 0.26
16 2 0.06
17 4 0.13
18 4 0.13
19 2 0.06
20 11 0.35
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.40
Consensus pattern (19 bp):
ATTAGGATTAGAAAATTAT
Found at i:49634716 original size:35 final size:34
Alignment explanation
Indices: 49634660--49634735 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
49634650 AGTACCCTCC
49634660 TTATATTAATAGAACTTAATTAGGATTACGAAAA
1 TTATATTAATAGAACTTAATTAGGATTACGAAAA
* *
49634694 TTATATTAGTTAGAA-TTGAATTAGGATTATGAAAA
1 TTATATTA-ATAGAACTT-AATTAGGATTACGAAAA
49634729 TTATATT
1 TTATATT
49634736 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 10 0.26
35 28 0.74
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (34 bp):
TTATATTAATAGAACTTAATTAGGATTACGAAAA
Found at i:49639402 original size:35 final size:35
Alignment explanation
Indices: 49639354--49639421 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
49639344 ATACACTATC
49639354 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
1 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
*
49639389 TTAGAA-TTGAATTAGGATTATGAAAATTATATT
1 TTAGAACTT-AATTAGGATTACGAAAATTATATT
49639422 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAACTTAATTAGGATTACGAAAATTATATTAG
Found at i:49640737 original size:15 final size:15
Alignment explanation
Indices: 49640692--49640738 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
49640682 TTGCATAATC
*
49640692 ATTAATTTATTCTTT
1 ATTAATTTATTTTTT
*
49640707 AAT-ATTTATATCTTTT
1 ATTAATTTAT-T-TTTT
49640723 ATTAATTTATTTTTT
1 ATTAATTTATTTTTT
49640738 A
1 A
49640739 GAGTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.23
15 8 0.31
16 6 0.23
17 6 0.23
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTAATTTATTTTTT
Found at i:49642952 original size:45 final size:42
Alignment explanation
Indices: 49642900--49643003 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 42
49642890 TTTTTTTTTG
*
49642900 CTTATTATTGTCTTTTATTATTTTATTTTTATGTTCTTGTTATTT
1 CTTATTATT-TCTTTTATTA--TCATTTTTATGTTCTTGTTATTT
* *
49642945 CTTATTATTT-TATT-TCATCATTTTTATGTTCTTGTTATTT
1 CTTATTATTTCTTTTATTATCATTTTTATGTTCTTGTTATTT
49642985 CATTATT-TTTCTTATTATT
1 C-TTATTATTTCTT-TTATT
49643004 TTTAGCATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
40 26 0.52
41 6 0.12
42 4 0.08
43 4 0.08
44 1 0.02
45 9 0.18
ACGTcount: A:0.17, C:0.09, G:0.05, T:0.69
Consensus pattern (42 bp):
CTTATTATTTCTTTTATTATCATTTTTATGTTCTTGTTATTT
Found at i:49642957 original size:40 final size:41
Alignment explanation
Indices: 49642912--49643005 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
49642902 TATTATTGTC
49642912 TTTTATTATTTTATTTTTATGTTCTTGTTATTTC-TTATTA
1 TTTTATTATTTTATTTTTATGTTCTTGTTATTTCATTATTA
* * *
49642952 TTTTATT-TCATCATTTTTATGTTCTTGTTATTTCATTATTT
1 TTTTATTAT-TTTATTTTTATGTTCTTGTTATTTCATTATTA
49642993 TTCTTATTATTTT
1 TT-TTATTATTTT
49643006 TAGCATTCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.02
40 30 0.67
41 7 0.16
42 6 0.13
43 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.71
Consensus pattern (41 bp):
TTTTATTATTTTATTTTTATGTTCTTGTTATTTCATTATTA
Found at i:49645231 original size:3 final size:3
Alignment explanation
Indices: 49645218--49645321 Score: 88
Period size: 3 Copynumber: 35.3 Consensus size: 3
49645208 TATATTTTGT
*
49645218 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TGA -TA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * * *
49645262 CTA TTA TTA -TC TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
49645309 TTA CTA TCA TTA T
1 TTA TTA TTA TTA T
49645322 ATTTACATAT
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
2 4 0.05
3 72 0.91
4 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:49645632 original size:13 final size:13
Alignment explanation
Indices: 49645614--49645640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49645604 AATATCACTA
49645614 TTTATTTTTTATT
1 TTTATTTTTTATT
49645627 TTTATTTTTTATT
1 TTTATTTTTTATT
49645640 T
1 T
49645641 ATTTTCAAAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:49645634 original size:11 final size:11
Alignment explanation
Indices: 49645612--49645645 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
49645602 TAAATATCAC
49645612 TATTTATTTTT
1 TATTTATTTTT
49645623 TATTTTTATTTTT
1 TA--TTTATTTTT
49645636 TATTTATTTT
1 TATTTATTTT
49645646 CAAATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:49652449 original size:7 final size:7
Alignment explanation
Indices: 49652438--49652479 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
49652428 ATGAAGCAGA
*
49652438 AGAAGAA
1 AGAAGAG
49652445 AGAAGTAG
1 AGAAG-AG
49652453 AGAAGAG
1 AGAAGAG
*
49652460 ACAAGAG
1 AGAAGAG
49652467 AGAAGAG
1 AGAAGAG
49652474 AGAAGA
1 AGAAGA
49652480 AGGGCACGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (7 bp):
AGAAGAG
Found at i:49657471 original size:46 final size:44
Alignment explanation
Indices: 49657404--49657701 Score: 224
Period size: 46 Copynumber: 6.9 Consensus size: 44
49657394 ATTATACAGG
*
49657404 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
49657450 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
49657494 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
49657533 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
49657574 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
49657620 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * *
49657664 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA
49657702 CACTATCCTA
Statistics
Matches: 202, Mismatches: 35, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.11
40 1 0.00
41 29 0.14
42 3 0.01
43 2 0.01
44 70 0.35
45 1 0.00
46 71 0.35
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:49657728 original size:43 final size:44
Alignment explanation
Indices: 49657617--49657728 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
49657607 AAAGAATTTC
* * * * *
49657617 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
*
49657661 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG
**
49657704 CTATCCTATCTCCCTGAAGTTACAG
1 AGATCCTATCTCCCTGAAGTTACAG
49657729 TAGAGTGGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 20 0.34
44 39 0.66
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
Found at i:49658215 original size:31 final size:32
Alignment explanation
Indices: 49658173--49658233 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
49658163 GCCCAGGCCC
*
49658173 AATT-AACCCAAACAAAATAAAAACCCAAAAT
1 AATTAAACCAAAACAAAATAAAAACCCAAAAT
** *
49658204 AATTAAACCAAAACAATCTAAAAGCCCAAA
1 AATTAAACCAAAACAAAATAAAAACCCAAA
49658234 CCCAATACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.62, C:0.23, G:0.02, T:0.13
Consensus pattern (32 bp):
AATTAAACCAAAACAAAATAAAAACCCAAAAT
Found at i:49659257 original size:3 final size:3
Alignment explanation
Indices: 49659251--49659350 Score: 71
Period size: 3 Copynumber: 33.3 Consensus size: 3
49659241 TTTAGTCGCT
* *
49659251 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * *
49659296 TTA TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
49659341 CTA TCA TTA T
1 TTA TTA TTA T
49659351 ATTTATACCT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
2 5 0.07
3 65 0.86
4 6 0.08
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:49659283 original size:12 final size:12
Alignment explanation
Indices: 49659268--49659350 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
49659258 TTTGTTTATT
*
49659268 TTATTATTATTA
1 TTATTATTACTA
49659280 TTATTATTTACTA
1 TTATTA-TTACTA
49659293 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
49659308 TTATTGTTAGTA
1 TTATTATTACTA
*
49659320 TTATTACTACTA
1 TTATTATTACTA
49659332 TTATTATTACTA
1 TTATTATTACTA
*
49659344 TCATTAT
1 TTATTAT
49659351 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:49659526 original size:36 final size:34
Alignment explanation
Indices: 49659486--49659554 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
49659476 CATATTTTTG
*
49659486 TATATTTTATAATTTGTATATACATATACTTATATC
1 TATATTTTATAATTT-T-TATAAATATACTTATATC
* *
49659522 TATATTTTCTAATTTTTATAAATATATTTATAT
1 TATATTTTATAATTTTTATAAATATACTTATAT
49659555 GTACATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 15 0.50
35 1 0.03
36 14 0.47
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTTTATAATTTTTATAAATATACTTATATC
Found at i:49662182 original size:32 final size:31
Alignment explanation
Indices: 49662144--49662205 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
49662134 CATTTTCTTT
49662144 ATTATTTTA-ATATATTATCATTTATTATTATC
1 ATTATTTTATA-ATATTATCATTTA-TATTATC
* *
49662176 ATTATTTTATAATATTGTTATTTATATTAT
1 ATTATTTTATAATATTATCATTTATATTAT
49662206 TCATCATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 6 0.22
32 20 0.74
33 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (31 bp):
ATTATTTTATAATATTATCATTTATATTATC
Found at i:49676274 original size:15 final size:16
Alignment explanation
Indices: 49676254--49676286 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
49676244 TCTAAAGATT
49676254 TTAATTACTTT-TATA
1 TTAATTACTTTATATA
49676269 TTAATTACTTTATATA
1 TTAATTACTTTATATA
49676285 TT
1 TT
49676287 TAGTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTACTTTATATA
Found at i:49676807 original size:21 final size:22
Alignment explanation
Indices: 49676781--49676825 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
49676771 TTATATTGGA
*
49676781 TTTTTGGGTATTT-CTAATTTT
1 TTTTTGGGTATTTGATAATTTT
**
49676802 TTTTTGTTTATTTGATAATTTT
1 TTTTTGGGTATTTGATAATTTT
49676824 TT
1 TT
49676826 GAACTTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.71
Consensus pattern (22 bp):
TTTTTGGGTATTTGATAATTTT
Found at i:49677423 original size:26 final size:25
Alignment explanation
Indices: 49677385--49677435 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
49677375 AAATTTAAGG
*
49677385 CCCAATATGGAAACACTTGTTCAAGT
1 CCCAATATAGAAACACTTG-TCAAGT
* *
49677411 CCCAATGTAGAAACATTTGTCAAGT
1 CCCAATATAGAAACACTTGTCAAGT
49677436 TTAAAGCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (25 bp):
CCCAATATAGAAACACTTGTCAAGT
Found at i:49682901 original size:24 final size:24
Alignment explanation
Indices: 49682868--49682915 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49682858 TCAAGTGAGA
* *
49682868 CTTTATTTTCAACATTTCCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
*
49682892 CTTTAGTTTCAACAATTGCATTGT
1 CTTTAGTTTCAACAATTCCATTGT
49682916 TTTCATCAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (24 bp):
CTTTAGTTTCAACAATTCCATTGT
Found at i:49685068 original size:14 final size:14
Alignment explanation
Indices: 49685045--49685076 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49685035 TTTTGTATTG
*
49685045 AAAAGGAAAAAAGA
1 AAAAGAAAAAAAGA
49685059 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
49685073 AAAA
1 AAAA
49685077 TTGGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:49685420 original size:31 final size:31
Alignment explanation
Indices: 49685353--49685421 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
49685343 TTACAAAATG
* * *
49685353 GTCACTAAACTATTCAAAATTTTTTATTTAA
1 GTCACTGAACTAGTCAAAAGTTTTTATTTAA
*
49685384 G-CACTGAACTAGTCAAAAGTTTTTGTTTAA
1 GTCACTGAACTAGTCAAAAGTTTTTATTTAA
49685414 GTCACTGA
1 GTCACTGA
49685422 GCAATTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
GTCACTGAACTAGTCAAAAGTTTTTATTTAA
Found at i:49688817 original size:51 final size:51
Alignment explanation
Indices: 49688761--49688863 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
49688751 TGTAAATAAG
49688761 ATTGATAAAATAATCATCAAATTATGATGTTGGCCCCTTTATTATATGCTT
1 ATTGATAAAATAATCATCAAATTATGATGTTGGCCCCTTTATTATATGCTT
49688812 ATTGATAAAATAATCATCAAATTATGATGTTGGCCCCTTTATTATATGCTT
1 ATTGATAAAATAATCATCAAATTATGATGTTGGCCCCTTTATTATATGCTT
49688863 A
1 A
49688864 AATGTGAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (51 bp):
ATTGATAAAATAATCATCAAATTATGATGTTGGCCCCTTTATTATATGCTT
Found at i:49698205 original size:24 final size:24
Alignment explanation
Indices: 49698178--49698229 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49698168 TTAGTAAGTC
*
49698178 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
49698202 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49698226 AAAT
1 AAAT
49698230 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49699673 original size:41 final size:41
Alignment explanation
Indices: 49699623--49699993 Score: 499
Period size: 41 Copynumber: 9.2 Consensus size: 41
49699613 AATTCATCAT
* * *
49699623 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
*
49699664 ATTCAGATCA---GCGCTTAGCCTGCTA-GTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
* * * *
49699701 ATTCATATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
*
49699742 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
* *
49699783 ATTCATATCACCGGCGCTTAG-C--CTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
* * *
49699821 A-TCATATCACCGGCACTTAG-CTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
*
49699860 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
* * *
49699901 ATTCATATCACCGGCACTTAGCCTGCGTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGC-TAGGTTTATAACCTG
49699943 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
*
49699984 ATTCATATCA
1 ATTCAGATCA
49699994 ACCAATTCCA
Statistics
Matches: 292, Mismatches: 29, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
37 38 0.13
38 31 0.11
39 15 0.05
40 32 0.11
41 138 0.47
42 38 0.13
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
Found at i:49699887 original size:118 final size:120
Alignment explanation
Indices: 49699623--49699993 Score: 520
Period size: 118 Copynumber: 3.1 Consensus size: 120
49699613 AATTCATCAT
* * * * *
49699623 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCA---GCGCTTAGCCT
1 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCGCTTAGCCT
*
49699685 -GCTAGTTTATAACCTGATTCATATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTG
66 AG---GTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
49699742 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCGCTTAGCCT
49699807 AGGTTTATAACCTGA-TCATATCACCGGCACTTAG-CTGCTAGGCTTATAGCCTG
66 AGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
49699860 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCGCTTAG-C-
* * * * *
49699925 GCGTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
64 -C-TAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
49699984 ATTCATATCA
1 ATTCAGATCA
49699994 ACCAATTCCA
Statistics
Matches: 229, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
118 80 0.35
119 65 0.28
120 13 0.06
121 1 0.00
122 25 0.11
123 19 0.08
124 26 0.11
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (120 bp):
ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCGCTTAGCCT
AGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:49699947 original size:83 final size:82
Alignment explanation
Indices: 49699623--49699993 Score: 508
Period size: 78 Copynumber: 4.6 Consensus size: 82
49699613 AATTCATCAT
* * * * *
49699623 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCA---GCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
*
49699685 GCTA-GTTTATAACCTG
66 GCTAGGCTTATAACCTG
* * * * * *
49699701 ATTCATATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
*
49699766 GCTAGGTTTATAACCTG
66 GCTAGGCTTATAACCTG
* *
49699783 ATTCATATCACCGGCGCTTAG-C--CTAGGTTTATAACCTGA-TCATATCACCGGCACTTAG-CT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
*
49699843 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAACCTG
*
49699860 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
*
49699925 GCGTAGGCTTATAGCCTG
66 GC-TAGGCTTATAACCTG
49699943 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCA
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCA
49699994 ACCAATTCCA
Statistics
Matches: 270, Mismatches: 13, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
77 37 0.14
78 66 0.24
79 15 0.06
80 17 0.06
81 35 0.13
82 35 0.13
83 65 0.24
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
GCTAGGCTTATAACCTG
Found at i:49700237 original size:19 final size:19
Alignment explanation
Indices: 49700209--49700246 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49700199 TGTTCGATCC
* *
49700209 ACACATATATATATATATT
1 ACACACATATACATATATT
49700228 ACACACATATACATATATT
1 ACACACATATACATATATT
49700247 CGCACATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ACACACATATACATATATT
Found at i:49707511 original size:41 final size:41
Alignment explanation
Indices: 49707461--49707799 Score: 509
Period size: 41 Copynumber: 8.3 Consensus size: 41
49707451 AATTCATCAT
* *
49707461 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49707502 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49707543 ATTCATATCACC-GCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49707583 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * * *
49707624 ATTTATATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49707665 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49707706 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
49707747 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
49707788 ATTCATATCACC
1 ATTCAGATCACC
49707800 AATTCCAAAC
Statistics
Matches: 265, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
40 36 0.14
41 229 0.86
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:49707692 original size:82 final size:82
Alignment explanation
Indices: 49707467--49707799 Score: 632
Period size: 82 Copynumber: 4.1 Consensus size: 82
49707457 TCATATTCGG
49707467 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
49707532 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
49707549 ATCACC-GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
*
49707613 TTTATAACCTGATTTAT
66 TTTATAACCTGATTCAT
*
49707630 ATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
49707695 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
49707712 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
49707777 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
49707794 ATCACC
1 ATCACC
49707800 AATTCCAAAC
Statistics
Matches: 245, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
81 80 0.33
82 165 0.67
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:49708035 original size:19 final size:19
Alignment explanation
Indices: 49708011--49708047 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49708001 TTGTTCGATC
*
49708011 CACACATATATATATATTA
1 CACACATATACATATATTA
49708030 CACACATATACATATATT
1 CACACATATACATATATT
49708048 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:49715369 original size:50 final size:49
Alignment explanation
Indices: 49715315--49715545 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 49
49715305 TGAGTGTACC
* *
49715315 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTCCGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGT-AGA-GAAGTGCT
* * * *
49715365 AGTGTAAGACCATGTCTGGGACATGGCGTCGACACGGACAGAGAAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGG-TAGAGAAGTGCT
* * *
49715414 CAGTGTAAGACCATGTCTGGGACATTGCATCGGCATGGATAGAGAAGATTC-
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGG-TAGAGAAG-TGCT
* * *
49715465 AGTGTAAGACCTTGTCTGGGACATGACATCGGCTC-G-AGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGTAGA-GAAGTGCT
* *
49715512 AGTGTAAGACCATGTCTAGGACATGACATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
49715546 TCGATATGTG
Statistics
Matches: 152, Mismatches: 22, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 36 0.24
48 1 0.01
49 3 0.02
50 110 0.72
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGTAGAGAAGTGCT
Found at i:49718657 original size:69 final size:70
Alignment explanation
Indices: 49718553--49718696 Score: 168
Period size: 69 Copynumber: 2.1 Consensus size: 70
49718543 AGATTCAATC
* * * * *
49718553 AAATATATTTATAAAACCCTATAAAATTAAGAAATTGTAA-TAAAAAATAT-ATAATATTTTTAA
1 AAATATATTTATAAAACACTATAAAATTAAGAAATTATAATTAAAAAATATAAAAATAGTTATAA
*
49718616 TATTA
66 AATTA
* * *
49718621 AAATATATGTTATAAAATATTATAAAATTTAA-AAATTATAATTTAAAAATATAAAAATAGTTAT
1 AAATATAT-TTATAAAACACTATAAAA-TTAAGAAATTATAATTAAAAAATATAAAAATAGTTAT
49718685 AAAATTA
64 AAAATTA
49718692 AAATA
1 AAATA
49718697 GTTGCATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
68 8 0.13
69 23 0.37
70 13 0.21
71 19 0.30
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (70 bp):
AAATATATTTATAAAACACTATAAAATTAAGAAATTATAATTAAAAAATATAAAAATAGTTATAA
AATTA
Found at i:49718673 original size:13 final size:14
Alignment explanation
Indices: 49718646--49718674 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49718636 AATATTATAA
49718646 AATTTAAAAATTAT
1 AATTTAAAAATTAT
49718660 AATTTAAAAA-TAT
1 AATTTAAAAATTAT
49718673 AA
1 AA
49718675 AAATAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTAAAAATTAT
Found at i:49719362 original size:3 final size:3
Alignment explanation
Indices: 49719322--49719353 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49719312 TTGACAAATG
49719322 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49719354 GTTAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49724751 original size:3 final size:3
Alignment explanation
Indices: 49724743--49724770 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49724733 TTGACCCTAA
49724743 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
49724771 AGTCAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:49725453 original size:68 final size:69
Alignment explanation
Indices: 49725362--49725504 Score: 168
Period size: 68 Copynumber: 2.1 Consensus size: 69
49725352 ATATTCAATC
* * * *
49725362 AAATATATTTATAAAACTCTATAAAA-TTAAGAAATTGTAA-TAAAAATAT-ATAATATTTTTAA
1 AAATATATTTATAAAACTCTATAAAATTTAA-AAATTATAATTAAAAATATAAAAATAGTTATAA
*
49725424 TATTA
65 AATTA
*
49725429 AAATATATATTATAAAA-TATTATAAAATTTAAAAATTATAATTTAAAAATATAAAAATAGTTAT
1 AAATATAT-TTATAAAACT-CTATAAAATTTAAAAATTATAA-TTAAAAATATAAAAATAGTTAT
49725493 AAAATTA
63 AAAATTA
49725500 AAATA
1 AAATA
49725505 GTTGCATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
67 9 0.14
68 23 0.36
69 4 0.06
70 9 0.14
71 19 0.30
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (69 bp):
AAATATATTTATAAAACTCTATAAAATTTAAAAATTATAATTAAAAATATAAAAATAGTTATAAA
ATTA
Found at i:49725481 original size:13 final size:14
Alignment explanation
Indices: 49725454--49725482 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49725444 AATATTATAA
49725454 AATTTAAAAATTAT
1 AATTTAAAAATTAT
49725468 AATTTAAAAA-TAT
1 AATTTAAAAATTAT
49725481 AA
1 AA
49725483 AAATAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTAAAAATTAT
Found at i:49725948 original size:5 final size:6
Alignment explanation
Indices: 49725919--49725946 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49725909 AAACTCAATC
49725919 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
49725947 ATATCCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:49726095 original size:3 final size:3
Alignment explanation
Indices: 49726087--49726112 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49726077 TTGACAAATG
49726087 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
49726113 TGAACTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:49728045 original size:5 final size:5
Alignment explanation
Indices: 49728037--49728084 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
49728027 ATAAATAAGT
49728037 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
49728085 CCTAGAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:49729805 original size:32 final size:30
Alignment explanation
Indices: 49729721--49729786 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
49729711 TAAATATGTA
49729721 TTTTTTATTTTTAAAA-ATATTTTAAAATAC
1 TTTTTTATTTTTAAAATAT-TTTTAAAATAC
*
49729751 TTTTTTATTTTTAAAATATTTTTAACATAC
1 TTTTTTATTTTTAAAATATTTTTAAAATAC
49729781 TTTTTT
1 TTTTTT
49729787 TAATTTTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTATTTTTAAAATATTTTTAAAATAC
Done.