Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 62 of 172
Found at i:20306883 original size:50 final size:50
Alignment explanation
Indices: 20306808--20307737 Score: 1566
Period size: 50 Copynumber: 18.6 Consensus size: 50
20306798 AAAACTGTGA
20306808 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20306858 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20306908 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20306958 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307008 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307058 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307108 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307158 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307208 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307258 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307308 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307358 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
20307408 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
** * *
20307458 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCCGAAAACT-G-T-GA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC--AGA-TGGTTAGG
20307508 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
* * **
20307558 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
* * * * * * *** *
20307607 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGT-TAGG
* **
20307658 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
* *
20307707 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
20307738 TGCGTACCAG
Statistics
Matches: 841, Mismatches: 31, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
47 1 0.00
48 3 0.00
49 70 0.08
50 724 0.86
51 39 0.05
52 3 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
Found at i:20310784 original size:15 final size:14
Alignment explanation
Indices: 20310764--20310828 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 14
20310754 GTATCTTAGG
20310764 TTTCTTTATTCTGGA
1 TTTCTTTATT-TGGA
*
20310779 TTTCTTTATTTTGA
1 TTTCTTTATTTGGA
20310793 GTTT-TTCTATCTTGGA
1 -TTTCTT-TAT-TTGGA
*
20310809 TTTCTTTATTTGGT
1 TTTCTTTATTTGGA
20310823 TTTCTT
1 TTTCTT
20310829 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 15 0.35
15 22 0.51
16 6 0.14
ACGTcount: A:0.11, C:0.11, G:0.12, T:0.66
Consensus pattern (14 bp):
TTTCTTTATTTGGA
Found at i:20313890 original size:101 final size:101
Alignment explanation
Indices: 20312947--20313882 Score: 1712
Period size: 101 Copynumber: 9.3 Consensus size: 101
20312937 TGAGGTCGCA
* *
20312947 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
* * *** * * *** *
20313012 TGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
66 TGTACGCTACTACATGTATCAG-ATGGT-TAGGTCACG
20313049 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313114 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313150 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313215 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313251 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313316 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313352 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313417 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313453 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313518 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313554 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313619 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313655 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
* *
20313720 TGTACGCTACTACATGTATCAGATGGTTAGGTCGCA
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313756 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
20313821 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
66 TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
20313857 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
20313883 CGTGTACCAG
Statistics
Matches: 816, Mismatches: 17, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
100 1 0.00
101 737 0.90
102 78 0.10
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGACCTCGTGTGTAGTACTAAG
TGTACGCTACTACATGTATCAGATGGTTAGGTCACG
Found at i:20331260 original size:40 final size:40
Alignment explanation
Indices: 20331216--20331359 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
20331206 TGACTTTAGA
20331216 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
20331256 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
** * * * *
20331296 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACC
* *
20331336 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20331360 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 3 0.03
40 83 0.89
41 7 0.08
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:20332429 original size:98 final size:98
Alignment explanation
Indices: 20332320--20332514 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
20332310 ACCATGGCCA
20332320 ATACTTCCAACAACACCAAATAAAAATATACTTCATGGATCTAAGGTAGAACCAAGAAAGAAACT
1 ATACTTCCAACAACACCAAATAAAAATATACTTCATGGATCTAAGGTAGAACCAAGAAAGAAACT
20332385 CATAATCATCAAGATGTAAGCAACTACCATTGG
66 CATAATCATCAAGATGTAAGCAACTACCATTGG
*
20332418 ATACTTGCAACAACACCAAATAAAAATATACTTCATGGATCTAAGGTAGAACCAAGAAAGAAACT
1 ATACTTCCAACAACACCAAATAAAAATATACTTCATGGATCTAAGGTAGAACCAAGAAAGAAACT
20332483 CATAATCATCAAGATGTAAGCAACTACCATTG
66 CATAATCATCAAGATGTAAGCAACTACCATTG
20332515 TTCATCTAGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (98 bp):
ATACTTCCAACAACACCAAATAAAAATATACTTCATGGATCTAAGGTAGAACCAAGAAAGAAACT
CATAATCATCAAGATGTAAGCAACTACCATTGG
Found at i:20335963 original size:27 final size:27
Alignment explanation
Indices: 20335933--20336110 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
20335923 ATATTGAGTC
* *
20335933 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
20335960 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20335987 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
20336015 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
20336042 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
20336069 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
20336096 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20336111 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20342723 original size:42 final size:42
Alignment explanation
Indices: 20342676--20342797 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
20342666 TAAAGTTAGT
20342676 TGAGATTACGTGTAAGACCATATCT-GGAATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGG-ATATGGCATCGATA
* * * *
20342718 TGAGATTTCGTGCAAGACCATAGCTAGGCCAT-TGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTAGG--ATATGGCATCGATA
** *
20342761 TGAGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
20342798 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.42
43 35 0.52
44 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:20342911 original size:20 final size:20
Alignment explanation
Indices: 20342881--20342926 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
20342871 GGCAATGTTA
*
20342881 AAGTTGGGAAAGGCTAGGGT
1 AAGTTGGGAAAGACTAGGGT
* * *
20342901 ATGTTGTGAAAGACTATGGT
1 AAGTTGGGAAAGACTAGGGT
20342921 AAGTTG
1 AAGTTG
20342927 CAGGTTGGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.37, T:0.28
Consensus pattern (20 bp):
AAGTTGGGAAAGACTAGGGT
Found at i:20345583 original size:39 final size:40
Alignment explanation
Indices: 20345488--20345710 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
20345478 TTGAATGATG
*
20345488 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20345526 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
20345567 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20345606 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20345645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
20345684 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20345711 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20345674 original size:79 final size:81
Alignment explanation
Indices: 20345488--20345710 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
20345478 TTGAATGATG
* * *
20345488 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
20345550 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
20345567 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
20345628 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
20345645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
20345709 TG
66 TG
20345711 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:20345732 original size:79 final size:79
Alignment explanation
Indices: 20345488--20345743 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
20345478 TTGAATGATG
* * * *
20345488 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
20345549 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
20345567 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
20345631 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
20345645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
20345708 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
20345725 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20345744 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:20353532 original size:79 final size:81
Alignment explanation
Indices: 20353396--20353580 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
20353386 TTGAATGATG
*
20353396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20353460 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
20353475 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20353537 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
20353555 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20353581 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:20353594 original size:40 final size:40
Alignment explanation
Indices: 20353397--20353580 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
20353387 TGAATGATGT
* * * *
20353397 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
20353437 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
20353477 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20353515 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
20353556 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20353581 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:20353602 original size:79 final size:79
Alignment explanation
Indices: 20353397--20353613 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
20353387 TGAATGATGT
** * * * **
20353397 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
20353460 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
20353477 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
20353542 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
20353556 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
20353614 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:20357941 original size:45 final size:45
Alignment explanation
Indices: 20357875--20357985 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
20357865 TGAGATATGA
**
20357875 TATTGAGATAGCTTCGACTATGTATTAG-CACTTTGGTGCAAGATT
1 TATTGAGATAGCTTCGACTATGTATT-GTCACTTCAGTGCAAGATT
* *
20357920 TATTGAGATAGTTTCGGCTATGTATTGTCACTTCAGTGCAAGATT
1 TATTGAGATAGCTTCGACTATGTATTGTCACTTCAGTGCAAGATT
* * *
20357965 GATTAAGATAGCTTTGACTAT
1 TATTGAGATAGCTTCGACTAT
20357986 ATATATTGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (45 bp):
TATTGAGATAGCTTCGACTATGTATTGTCACTTCAGTGCAAGATT
Found at i:20361475 original size:28 final size:27
Alignment explanation
Indices: 20361397--20361510 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
20361387 AGCACGACTG
* * *
20361397 CCAG-AACAGATATTGCGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
* * *
20361423 CAAGATACAGATATTATGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
20361450 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
* * *
20361478 CCAGATA-AGGTATTTGTAGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
20361505 CCAGAA
1 CCAGAA
20361511 CGTTTCCTCC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.04
27 51 0.70
28 19 0.26
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:20361484 original size:55 final size:53
Alignment explanation
Indices: 20361397--20361510 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 53
20361387 AGCACGACTG
*
20361397 CCAG-AACAGATATTGCGACAGAGTCACAAGATACAGATATTATG-GCAGAGCCA
1 CCAGAAACAGATATTGCGACAGAGCCACAAGATA-AGATATT-TGAGCAGAGCCA
* * * *
20361450 CCAGAAACAGATATTTGTGGCAGAGCCACCAGATAAGGTATTTGTAGCAGAGCCA
1 CCAGAAACAGATA-TTGCGACAGAGCCACAAGATAAGATATTTG-AGCAGAGCCA
20361505 CCAGAA
1 CCAGAA
20361511 CGTTTCCTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
53 6 0.12
54 14 0.27
55 32 0.62
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (53 bp):
CCAGAAACAGATATTGCGACAGAGCCACAAGATAAGATATTTGAGCAGAGCCA
Found at i:20366193 original size:26 final size:27
Alignment explanation
Indices: 20366139--20366196 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
20366129 NNNNNNNNNN
20366139 TCTGGTGGCTCTGCCACAATTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGT
*
20366166 TCTGGTGGCTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGT
20366192 TCTGG
1 TCTGG
20366197 CAGCCATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGT
Found at i:20369772 original size:40 final size:40
Alignment explanation
Indices: 20369671--20369901 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
20369661 TGGATGATAA
* * * * **
20369671 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
20369711 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
20369750 ACGGGCTAAGTCCCGAAAGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
20369790 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
20369830 CTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
20369870 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
20369902 AGTTATATCC
Statistics
Matches: 170, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.19
40 136 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:20371404 original size:12 final size:12
Alignment explanation
Indices: 20371384--20371416 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
20371374 ATTTTTGTCC
*
20371384 ACACAGGCAGAG
1 ACACGGGCAGAG
20371396 ACACGGGCAGAG
1 ACACGGGCAGAG
20371408 ACACGGGCA
1 ACACGGGCA
20371417 TGTGTCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.27, G:0.36, T:0.00
Consensus pattern (12 bp):
ACACGGGCAGAG
Found at i:20373635 original size:66 final size:66
Alignment explanation
Indices: 20373524--20373654 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
20373514 CTTTTATTAA
* *
20373524 AAATCATGGTTTATCTTTGTTATTTTTTAAAACTGATCATTTATTAAATCTATCATTCTTAGGTC
1 AAATCATGGTTTATCTTTGTTATTTTTTAAAACTGATCATCTATTAAATATATCATTCTTAGGTC
20373589 T
66 T
* * *
20373590 AAATCGTGGTTTATCTTTGTTATTTTTTAAAATTGTTCATCTATTAAATATATCATTCTTAGGTC
1 AAATCATGGTTTATCTTTGTTATTTTTTAAAACTGATCATCTATTAAATATATCATTCTTAGGTC
20373655 ATGTTATTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.28, C:0.11, G:0.10, T:0.50
Consensus pattern (66 bp):
AAATCATGGTTTATCTTTGTTATTTTTTAAAACTGATCATCTATTAAATATATCATTCTTAGGTC
T
Found at i:20376917 original size:49 final size:49
Alignment explanation
Indices: 20376864--20376978 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
20376854 AAAATCTAAA
* * * *
20376864 GGCTTGACTATAATATT-TAGTATCTGGTAGCTTGTCTACATTATCTGGG
1 GGCTTGACCATAATATTCT-GTATCTGGCAGCTTGTCTACACTATCAGGG
* * * *
20376913 GGCTTGACCACAATATTCTGTATTTGGCAGCTTGTCTGCACTATCAGGT
1 GGCTTGACCATAATATTCTGTATCTGGCAGCTTGTCTACACTATCAGGG
*
20376962 GGCTTGACCATATTATT
1 GGCTTGACCATAATATT
20376979 GGTGTGATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 54 0.98
50 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (49 bp):
GGCTTGACCATAATATTCTGTATCTGGCAGCTTGTCTACACTATCAGGG
Found at i:20384266 original size:36 final size:36
Alignment explanation
Indices: 20384225--20384313 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
20384215 GGAAATTATG
20384225 GTTGATTTGGTGAACTTTAATGTATTATGAAGTTGT
1 GTTGATTTGGTGAACTTTAATGTATTATGAAGTTGT
*
20384261 GTTGATTTGGTGAACTTTAGTGTATTATGAAGTTGT
1 GTTGATTTGGTGAACTTTAATGTATTATGAAGTTGT
*
20384297 GTTAATTTGGTG-ACTTT
1 GTTGATTTGGTGAACTTT
20384314 TAAGTGCTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 5 0.10
36 46 0.90
ACGTcount: A:0.22, C:0.03, G:0.26, T:0.48
Consensus pattern (36 bp):
GTTGATTTGGTGAACTTTAATGTATTATGAAGTTGT
Found at i:20384699 original size:42 final size:42
Alignment explanation
Indices: 20384652--20384734 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
20384642 GGCGACGCAG
20384652 GCTGTCACATGGTCATTTGTGGCAACTCAGAGAGTTACACGA
1 GCTGTCACATGGTCATTTGTGGCAACTCAGAGAGTTACACGA
20384694 GCTGTCACATGGTCATTTGTGGCAACTCAGAGAGTTACACG
1 GCTGTCACATGGTCATTTGTGGCAACTCAGAGAGTTACACG
20384735 GTCTGGCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (42 bp):
GCTGTCACATGGTCATTTGTGGCAACTCAGAGAGTTACACGA
Found at i:20387400 original size:27 final size:27
Alignment explanation
Indices: 20387369--20387546 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20387359 TAAATTGTAC
20387369 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20387396 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20387422 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20387450 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20387478 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20387505 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20387532 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20387547 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20387483 original size:82 final size:81
Alignment explanation
Indices: 20387370--20387525 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20387360 AAATTGTACA
* *
20387370 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20387434 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20387451 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20387516 TGCGAGTTGA
65 TGCGAATTGA
20387526 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20387537 original size:82 final size:81
Alignment explanation
Indices: 20387366--20387546 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20387356 GATTAAATTG
* *
20387366 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20387431 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20387447 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20387511 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20387529 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20387547 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20395588 original size:27 final size:27
Alignment explanation
Indices: 20395557--20395734 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20395547 TAAATTGTAC
20395557 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20395584 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20395610 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20395638 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20395666 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20395693 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20395720 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20395735 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20395671 original size:82 final size:81
Alignment explanation
Indices: 20395558--20395713 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20395548 AAATTGTACA
* *
20395558 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20395622 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20395639 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20395704 TGCGAGTTGA
65 TGCGAATTGA
20395714 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20395725 original size:82 final size:81
Alignment explanation
Indices: 20395554--20395734 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20395544 GATTAAATTG
* *
20395554 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20395619 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20395635 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20395699 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20395717 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20395735 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20398777 original size:27 final size:27
Alignment explanation
Indices: 20398746--20398802 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20398736 TAGGATAGGA
* *
20398746 CACGGGTGGAGGGTCTGGC-GTAGGCGG
1 CACGGGTAGAGGGGCTGGCAG-AGGCGG
20398773 CACGGGTAGAGGGGCTGGCAGAGGCGG
1 CACGGGTAGAGGGGCTGGCAGAGGCGG
20398800 CAC
1 CAC
20398803 CATTTTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.16, C:0.21, G:0.53, T:0.11
Consensus pattern (27 bp):
CACGGGTAGAGGGGCTGGCAGAGGCGG
Found at i:20399018 original size:50 final size:51
Alignment explanation
Indices: 20398919--20399032 Score: 119
Period size: 50 Copynumber: 2.3 Consensus size: 51
20398909 AGAAGAAAAG
* * *
20398919 AAGAGAAGAAGAAGGAGAGAGCGGGAAGGGAAGGGAAAAAGAAAGAAGAAA
1 AAGAGAAGAAGAAGGAGAGAGAGGGAAGGGAAGAGAAAAAGAAAAAAGAAA
* * * *
20398970 AAGAGAAGGAGAA-TAGAGAGAGGGAAGGAGAA-AGAGAAGGAAAAAAG-AA
1 AAGAGAAGAAGAAGGAGAGAGAGGGAAGG-GAAGAGAAAAAGAAAAAAGAAA
*
20399019 AAGAAAAGAA-AAGG
1 AAGAGAAGAAGAAGG
20399033 TAAATTATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
48 2 0.04
49 10 0.20
50 24 0.47
51 15 0.29
ACGTcount: A:0.60, C:0.01, G:0.39, T:0.01
Consensus pattern (51 bp):
AAGAGAAGAAGAAGGAGAGAGAGGGAAGGGAAGAGAAAAAGAAAAAAGAAA
Found at i:20399471 original size:17 final size:17
Alignment explanation
Indices: 20399451--20399486 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20399441 TATGTTTTAA
* *
20399451 TTTTTTAAGATTTTATT
1 TTTTTTAAAATCTTATT
20399468 TTTTTTAAAATCTTATT
1 TTTTTTAAAATCTTATT
20399485 TT
1 TT
20399487 ATGTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTTTAAAATCTTATT
Found at i:20399728 original size:110 final size:112
Alignment explanation
Indices: 20399597--20399820 Score: 328
Period size: 110 Copynumber: 2.0 Consensus size: 112
20399587 ATTTAAACCA
* * ** *
20399597 AAAATATTTACTTATTATCATTTTAAAGTAATAATAA-AATTTTTTGTTTTTATTATGTATCATT
1 AAAATATTTACTTATTATCATTTTAAAATAATAATAATAA-TATTCATATTTATTATGTATCATT
*
20399661 TATATTATG-TTTTTGTTATTGGCATGTTATTTTTAGTATTTTAATAT
65 TATATTATGTTTTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
* *
20399708 AAAA-ATTTACTTATTGTCATTTTAAAATAATAATAATAATATTCATATTTATTATGTATCGTTT
1 AAAATATTTACTTATTATCATTTTAAAATAATAATAATAATATTCATATTTATTATGTATCATTT
* *
20399772 ATGTTATGTTTTTTTTTATTGGCATATTATTTTTAGTATTTTAATAT
66 ATATTATGTTTTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
20399819 AA
1 AA
20399821 TTTTTTTGTT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
110 57 0.56
111 44 0.44
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (112 bp):
AAAATATTTACTTATTATCATTTTAAAATAATAATAATAATATTCATATTTATTATGTATCATTT
ATATTATGTTTTTTGTTATTGGCATATTATTTTTAGTATTTTAATAT
Found at i:20401968 original size:33 final size:33
Alignment explanation
Indices: 20401865--20401971 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 33
20401855 ATCTTTGGGT
* * * *
20401865 CGTATCCATCGCAGTATAGCACTCCTCTTGGCC
1 CGTATCCACCGCAGTACAGCACTCCCCTCGGCC
* * * * * *
20401898 TGTATCCACTGTAGTACAACACTCCTCC-CAGCT
1 CGTATCCACCGCAGTACAGCACTCC-CCTCGGCC
20401931 CGTATCCACCGCAGTACAGCACTCCCCTCGGCC
1 CGTATCCACCGCAGTACAGCACTCCCCTCGGCC
20401964 CGTATCCA
1 CGTATCCA
20401972 ACATAATACT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.95
34 1 0.02
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (33 bp):
CGTATCCACCGCAGTACAGCACTCCCCTCGGCC
Found at i:20401987 original size:66 final size:66
Alignment explanation
Indices: 20401864--20402021 Score: 174
Period size: 66 Copynumber: 2.4 Consensus size: 66
20401854 TATCTTTGGG
* * * * * * *
20401864 TCGTATCCATCGCAGTATAGCACTCCTCTTGGCCTGTATCCACTGTAGTACAACACTCCTCCCAG
1 TCGTATCCACCGCAGTATAGCACTCCCCTCGGCCCGTATCCACTATAATACAACACTCCTCACAG
20401929 C
66 C
* ** *
20401930 TCGTATCCACCGCAGTACAGCACTCCCCTCGGCCCGTATCCAAC-ATAATACTCCACTCCTCATA
1 TCGTATCCACCGCAGTATAGCACTCCCCTCGGCCCGTATCC-ACTATAATACAACACTCCTCACA
*
20401994 GG
65 GC
* *
20401996 TCGTATTCACCGCAGTATGGCACTCC
1 TCGTATCCACCGCAGTATAGCACTCC
20402022 TCCCAGCTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
66 74 0.97
67 2 0.03
ACGTcount: A:0.22, C:0.38, G:0.15, T:0.25
Consensus pattern (66 bp):
TCGTATCCACCGCAGTATAGCACTCCCCTCGGCCCGTATCCACTATAATACAACACTCCTCACAG
C
Found at i:20402468 original size:64 final size:64
Alignment explanation
Indices: 20402390--20402609 Score: 390
Period size: 64 Copynumber: 3.5 Consensus size: 64
20402380 CAAACTTAGT
20402390 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
1 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
20402454 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
1 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
* * *
20402518 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATTTAATTGGAACAAAC
1 TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
*
20402582 TTTGTAATAT-AATT-TTTTATATAAATTA
1 TTTGTAATATAAATTATGTTATATAAATTA
20402610 CATGAGCTCA
Statistics
Matches: 152, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
62 13 0.09
63 4 0.03
64 135 0.89
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (64 bp):
TTTGTAATATAAATTATGTTATATAAATTAAATACATTACAATCATAATCTAATTGGAGCAAAC
Found at i:20405465 original size:9 final size:9
Alignment explanation
Indices: 20405451--20405488 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
20405441 AAAAATTACA
*
20405451 TTTCTTTTC
1 TTTCTTCTC
20405460 TTTCTTCTC
1 TTTCTTCTC
20405469 TTTTCTT-TC
1 -TTTCTTCTC
20405478 TTTCTTCTC
1 TTTCTTCTC
20405487 TT
1 TT
20405489 CTCCCTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 6 0.23
9 14 0.54
10 6 0.23
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTCTTCTC
Found at i:20405479 original size:18 final size:19
Alignment explanation
Indices: 20405451--20405488 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
20405441 AAAAATTACA
20405451 TTTCTTTTCTTTCTTCTCT
1 TTTCTTTTCTTTCTTCTCT
20405470 TTTC-TTTCTTTCTTCTCT
1 TTTCTTTTCTTTCTTCTCT
20405488 T
1 T
20405489 CTCCCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCT
Found at i:20405603 original size:27 final size:27
Alignment explanation
Indices: 20405565--20405660 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
20405555 TATACTGGGT
* *
20405565 GTGCCGCCTATCAGATAGGCACAACTA
1 GTGCCGCCTATCTGATAGGCACAACTG
*
20405592 GTGCTGCCTATCTGATAGGCACAACTG
1 GTGCCGCCTATCTGATAGGCACAACTG
*
20405619 GTGCTGCCTATCTGATAGGCACAACTG
1 GTGCCGCCTATCTGATAGGCACAACTG
20405646 GTGCCGCCTATCTGA
1 GTGCCGCCTATCTGA
20405661 CACTCTCCAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (27 bp):
GTGCCGCCTATCTGATAGGCACAACTG
Found at i:20408637 original size:99 final size:99
Alignment explanation
Indices: 20408466--20408666 Score: 366
Period size: 99 Copynumber: 2.0 Consensus size: 99
20408456 TGCTGAATTT
* *
20408466 CTGTTTTTCTCTGTAATCATAACACCCACAAGAAATAGGTGTGTCTATGCATTCTTGCCTTGTCC
1 CTGTTTTTCTCTGTAATCATAACACCCACAAGAAACAGGAGTGTCTATGCATTCTTGCCTTGTCC
*
20408531 TCTGCATTTTATACAACTTTTTTGTAATTGCATG
66 TCTGCATTTTATACAACTTTATTGTAATTGCATG
20408565 CTGTTTTTCTCTGTAATCATAACACCCACAAGAAACAGGAGTGTCTATGCATTCTTGCCTTGTCC
1 CTGTTTTTCTCTGTAATCATAACACCCACAAGAAACAGGAGTGTCTATGCATTCTTGCCTTGTCC
*
20408630 TCTGCATTTTATACTACTTTATTGTAATTGCATG
66 TCTGCATTTTATACAACTTTATTGTAATTGCATG
20408664 CTG
1 CTG
20408667 GTTAATAATT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (99 bp):
CTGTTTTTCTCTGTAATCATAACACCCACAAGAAACAGGAGTGTCTATGCATTCTTGCCTTGTCC
TCTGCATTTTATACAACTTTATTGTAATTGCATG
Found at i:20409961 original size:91 final size:92
Alignment explanation
Indices: 20409833--20410053 Score: 277
Period size: 91 Copynumber: 2.4 Consensus size: 92
20409823 GTTATAATTA
* *
20409833 AAAATATCTAATGTGGTA-CTGAAACTATCAATATGTGTAATATTTGGAACATGTATTTTCATAA
1 AAAATATCTAATGTGGTACCT-AAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCATAA
* *
20409897 AATGTCGAATGTGGTA-TATGTACTTTG
65 AATGTCCAATGTGGTATTATATACTTTG
* * * * *
20409924 AAAATATCTAAAGTGGTACCTAAACTATTAATTTGTGTATTATTTGGTACCTGTATTTCCATAAA
1 AAAATATCTAATGTGGTACCTAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCATAAA
*
20409989 ATGTCCAATGTGGTATTTTATACTTTG
66 ATGTCCAATGTGGTATTATATACTTTG
* * * * *
20410016 -AAATTTCCAATGTAGTACATGAACTATCAATTTGTGTA
1 AAAATATCTAATGTGGTACCTAAACTATCAATTTGTGTA
20410054 TTACTATGGT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
91 100 0.90
92 11 0.10
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (92 bp):
AAAATATCTAATGTGGTACCTAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCATAAA
ATGTCCAATGTGGTATTATATACTTTG
Found at i:20412874 original size:32 final size:33
Alignment explanation
Indices: 20412836--20412915 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 33
20412826 GTATTATTAG
*
20412836 AAACATATATCAGATC-GTAAGGTCATATTTTC-
1 AAACATATATCAGATCAG-AAGATCATATTTTCA
* * * *
20412868 GAACATATTTCAAATCAGAATATCATATTTTCA
1 AAACATATATCAGATCAGAAGATCATATTTTCA
20412901 TAAACATATATCAGA
1 -AAACATATATCAGA
20412916 CTAGAACAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 25 0.68
33 1 0.03
34 11 0.30
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (33 bp):
AAACATATATCAGATCAGAAGATCATATTTTCA
Found at i:20427319 original size:26 final size:26
Alignment explanation
Indices: 20427290--20427397 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20427280 TGGTACAAAT
20427290 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
20427316 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20427342 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20427368 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20427394 TGAT
1 TGAT
20427398 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20429796 original size:45 final size:45
Alignment explanation
Indices: 20429723--20430127 Score: 553
Period size: 45 Copynumber: 9.0 Consensus size: 45
20429713 CGTTGATTTG
*
20429723 ACTATTCGGGCCTTTGAGCGTAGCAGGCTATGATGCCGGTGAAAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
* *
20429768 ACTATTCGGGCCTTTGAGCCTAGTAGGCTATGATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
* * * *
20429813 ATTGTTCGGGCCTTTGAGCCTAGCAGGCTAAGATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
*
20429858 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
* * * * * *
20429903 ACTATTTGGACCTTTGAGCCTACCAGGTTATGATGCTGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
* * * *
20429948 ATTATTCAGGCCTTTGAACCTAGCAGGCTATGATGTCGGTGAAAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
*
20429993 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
* * * * *
20430038 ATTATTTGGGCCTTTGAGCCTAGCACGCTATAATGTCGGT-AAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAA-AT
*
20430083 ACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATGATGCCGGTGAAAT
20430128 GATAATCAGG
Statistics
Matches: 315, Mismatches: 42, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
44 5 0.02
45 308 0.98
46 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAAT
Found at i:20434772 original size:69 final size:71
Alignment explanation
Indices: 20434664--20434798 Score: 177
Period size: 69 Copynumber: 1.9 Consensus size: 71
20434654 TTATATTATT
* * * * * *
20434664 TCATATGGCCGAATATATAAGTTCAATAAATCATTACATGTAACCTAATGTTCAAGTTCAA-ATA
1 TCATATGGCCGAATATACAAATTCAATAAATCATCACATGTAACCAAATATACAAGTTCAATATA
20434728 AACATG
66 AACATG
*
20434734 TCATATGGCCG-ATATACAAATTCAATATAA-CCTCACATGTAACCAAATATACAAGTTCAATAT
1 TCATATGGCCGAATATACAAATTCAATA-AATCATCACATGTAACCAAATATACAAGTTCAATAT
20434797 AA
65 AA
20434799 CCTCACATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 39 0.70
70 17 0.30
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (71 bp):
TCATATGGCCGAATATACAAATTCAATAAATCATCACATGTAACCAAATATACAAGTTCAATATA
AACATG
Found at i:20441586 original size:30 final size:31
Alignment explanation
Indices: 20441552--20441619 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
20441542 AGTCTATATC
* *
20441552 TTTAT-ATATTTTAAAGGATTAAATCAAATT
1 TTTATCATATTTTAAAGGATAAAATAAAATT
* *
20441582 TTTATCATTTTTTAAAGGCTAAAATAAAA-T
1 TTTATCATATTTTAAAGGATAAAATAAAATT
20441612 TTTATCAT
1 TTTATCAT
20441620 TAATAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (31 bp):
TTTATCATATTTTAAAGGATAAAATAAAATT
Found at i:20441620 original size:30 final size:31
Alignment explanation
Indices: 20441552--20441620 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
20441542 AGTCTATATC
* * *
20441552 TTTAT-ATATTTTAAAGGATTAAATCAAATT
1 TTTATCATTTTTTAAAGGATAAAATCAAAAT
*
20441582 TTTATCATTTTTTAAAGGCTAAAAT-AAAAT
1 TTTATCATTTTTTAAAGGATAAAATCAAAAT
20441612 TTTATCATT
1 TTTATCATT
20441621 AATAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
TTTATCATTTTTTAAAGGATAAAATCAAAAT
Found at i:20443277 original size:17 final size:17
Alignment explanation
Indices: 20443251--20443295 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
20443241 TTTACAGAAT
*
20443251 CAAATCTTCTAAGACTA
1 CAAATATTCTAAGACTA
* *
20443268 CAAATATTCTAAGATTG
1 CAAATATTCTAAGACTA
*
20443285 CTAATATTCTA
1 CAAATATTCTA
20443296 TGATTACTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (17 bp):
CAAATATTCTAAGACTA
Found at i:20446146 original size:47 final size:49
Alignment explanation
Indices: 20446085--20446220 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 49
20446075 AATTTTCTAT
* * *
20446085 AAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTGGCAGCATATTTGC
1 AAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGCCAGCATATCTGC
* * ** *
20446134 ATAT-A-TGGTGGCTTGTCCACAAAATGTTATCAATGCCAGTTTATCTGT
1 AAATCAGTGGTGGCTTGTCCACAAAGTGTT-TCAATGCCAGCATATCTGC
20446182 AAATCAGTGGTGGCTTGTCCACAAATAGTGTTTCGAATG
1 AAATCAGTGGTGGCTTGTCCAC-AA-AGTGTTTC-AATG
20446221 GACGAGTTCT
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
47 22 0.31
48 17 0.24
49 4 0.06
50 15 0.21
51 4 0.06
52 9 0.13
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (49 bp):
AAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAATGCCAGCATATCTGC
Found at i:20451013 original size:46 final size:46
Alignment explanation
Indices: 20450862--20451037 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
20450852 CTTCGTGTGT
* * **
20450862 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAAT-A
* * * *
20450908 GAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGACATTGAGACA-A
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAGA-ATA
* * *
20450956 GGGCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGAAGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAA-TA
20451003 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
20451038 TATGAGATGA
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 55 0.52
47 30 0.28
48 18 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAATA
Found at i:20451062 original size:46 final size:45
Alignment explanation
Indices: 20450872--20451128 Score: 149
Period size: 46 Copynumber: 5.5 Consensus size: 45
20450862 GAGCTAGTGT
*** * * *
20450872 AAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTA
1 AAGACATGTCTGGGACATGCATCGGCTTGA-GATGAAAGCCAATG-A
* * * * * * * *
20450919 AGGCCATGTCTGGGACATGGCATCGACATTGAGA-CAAGGGCTAGTGT
1 AAGACATGTCTGGGACAT-GCATCGGC-TTGAGATGAA-AGCCAATGA
* * * * * *
20450966 AAGATATGTCTGGGACATGCATCGGCCTCGAGAAGTAAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGG-CTTGAGATGAAAGCCAATGA
**
20451012 AAGACATGTCTGGGACATGCATCGGCTATGAGATGAAAGTTAATGA
1 AAGACATGTCTGGGACATGCATCGGCT-TGAGATGAAAGCCAATGA
* * ** *
20451058 AAGACCATGACTGGGACATGCCATCGACTTGAGATGTGAGCCAGTGTA
1 AAGA-CATGTCTGGGACATG-CATCGGCTTGAGATGAAAGCCAATG-A
*
20451106 AA-CCATGTCTGGGACATGGCATC
1 AAGACATGTCTGGGACAT-GCATC
20451129 AGCACCTTAC
Statistics
Matches: 162, Mismatches: 38, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
45 2 0.01
46 74 0.46
47 61 0.38
48 24 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGCATCGGCTTGAGATGAAAGCCAATGA
Found at i:20451128 original size:140 final size:140
Alignment explanation
Indices: 20450867--20451128 Score: 323
Period size: 140 Copynumber: 1.9 Consensus size: 140
20450857 TGTGTGAGCT
* * * * * *
20450867 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAAGCCAATGAAAGACCATGACTGG
* * * *
20450932 GACATGGCATCGACATTGAGACAAGGGCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGA
66 GACATGCCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
20450997 GAAGTAAGCC
131 GAAGTAAGCC
* * **
20451007 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGAAAGTTAATGAAAGACCATGACTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAAAGCCAATGAAAGACCATGACTG
***
20451071 GGACATGCCATCGAC-TTGAGATGTGAGCCAGTGTAA-ACCATGTCTGGGACATGGCATC
65 GGACATGCCATCGACATTGAGACAAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
20451129 AGCACCTTAC
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
138 1 0.01
139 29 0.28
140 71 0.70
141 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAAAGCCAATGAAAGACCATGACTGG
GACATGCCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
GAAGTAAGCC
Found at i:20453457 original size:7 final size:8
Alignment explanation
Indices: 20453445--20453530 Score: 54
Period size: 7 Copynumber: 10.4 Consensus size: 8
20453435 TATCTTTGTA
20453445 TATTAT-T
1 TATTATAT
20453452 TATTATAT
1 TATTATAT
*
20453460 TATTTTACAT
1 TA--TTATAT
20453470 TATTATA-
1 TATTATAT
20453477 TATTATAT
1 TATTATAT
*
20453485 TACCTATAT
1 TA-TTATAT
20453494 T-TTACTAT
1 TATTA-TAT
20453502 ATATATATAT
1 -TAT-TATAT
*
20453512 ATATTATTT
1 -TATTATAT
20453521 TA-TATAT
1 TATTATAT
20453528 TAT
1 TAT
20453531 CTACCATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
7 21 0.33
8 14 0.22
9 11 0.17
10 15 0.24
11 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:20453868 original size:16 final size:16
Alignment explanation
Indices: 20453827--20453864 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20453817 AAATATCTTT
* *
20453827 ATTTTTATTTTATTTG
1 ATTTATATTTTATATG
20453843 ATTTATATTTTATATG
1 ATTTATATTTTATATG
20453859 -TTTATA
1 ATTTATA
20453865 ATTTGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
ATTTATATTTTATATG
Found at i:20458119 original size:40 final size:40
Alignment explanation
Indices: 20458075--20458299 Score: 389
Period size: 40 Copynumber: 5.6 Consensus size: 40
20458065 AAAATGATTT
20458075 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
20458115 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
20458155 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* **
20458195 CAAATGCCTTCAGGACTTAGCCTAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20458235 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
20458275 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
20458300 TTACCATCCG
Statistics
Matches: 176, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 175 0.99
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20468435 original size:44 final size:43
Alignment explanation
Indices: 20468380--20468896 Score: 705
Period size: 44 Copynumber: 11.8 Consensus size: 43
20468370 CGGTGACATC
* * *
20468380 TGGCATCTCTGTATTGACAGAGAGCAGACCGAAGATGACAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
* * *
20468424 TGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGATAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
*
20468468 TGGCGTCTCTGTATTGTCAGAGAGAAGATCGAAGATAACAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
20468512 TGGCGTCTCTGTATTGTCAGAGAGCA-AGTCGAA-AGTAGCAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGA-TCGAAGA-TA-CAGATT
*
20468556 TGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAACAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
* * *
20468600 TGGCATCTCTGTATTGTCAGAGAGCAGGTCGAAAATAGCAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA-CAGATT
* *
20468644 TGACGTCTCTGTATTGCCAGAGAGCAGATCGAAGATAACAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
*
20468688 TGGCGTCTCTGTATTGTTAGAGAGCAGATCGAAGATAACAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATT
* * * * *
20468732 TGACGTCTCTGTATTGTCAGAGAGCCGGTCAAAGATAGCAAATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA-CAGATT
* *
20468776 TGGCGTCTCTGTATTGCCAGAGAGTAGATCGAAGATAGCAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA-CAGATT
*
20468820 TGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGATAGCAGATT
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA-CAGATT
20468864 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
20468897 CATTTCAGCT
Statistics
Matches: 426, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
43 5 0.01
44 417 0.98
45 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (43 bp):
TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATACAGATT
Found at i:20470498 original size:12 final size:12
Alignment explanation
Indices: 20470483--20470593 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
20470473 TTTATCTTTG
*
20470483 TATATTATTTAT
1 TATATTATATAT
20470495 TATATTAT-TAT
1 TATATTATATAT
*
20470506 ACATTATTATATAT
1 -TA-TATTATATAT
*
20470520 TATATTACATA-
1 TATATTATATAT
*
20470531 TATTTTACTATAT
1 TATATTA-TATAT
*
20470544 ATATATTAT-TTT
1 -TATATTATATAT
*
20470556 ATATATTATCTAT
1 -TATATTATATAT
* * *
20470569 CATATTGTCTA-
1 TATATTATATAT
20470580 TATCATTATATAT
1 TAT-ATTATATAT
20470593 T
1 T
20470594 TTGTTTATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
11 11 0.14
12 46 0.60
13 11 0.14
14 9 0.12
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (12 bp):
TATATTATATAT
Found at i:20470520 original size:7 final size:7
Alignment explanation
Indices: 20470483--20470593 Score: 57
Period size: 7 Copynumber: 14.9 Consensus size: 7
20470473 TTTATCTTTG
20470483 TATATTA
1 TATATTA
*
20470490 TTTATTA
1 TATATTA
20470497 TATTATTA
1 TA-TATTA
20470505 TACATTATTA
1 T--A-TATTA
20470515 TATATTA
1 TATATTA
*
20470522 TAT-TACA
1 TATAT-TA
*
20470529 TATATTT
1 TATATTA
20470536 TACTATATA
1 TA-TAT-TA
20470545 TATATTA
1 TATATTA
20470552 T-T-TTA
1 TATATTA
20470557 TATATTA
1 TATATTA
* *
20470564 TCTATCA
1 TATATTA
*
20470571 TATTGTCTA
1 TA-TAT-TA
20470580 TATCATTA
1 TAT-ATTA
20470588 TATATT
1 TATATT
20470594 TTGTTTATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
5 4 0.05
6 3 0.04
7 36 0.45
8 22 0.28
9 7 0.09
10 8 0.10
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:20470526 original size:30 final size:29
Alignment explanation
Indices: 20470483--20470573 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
20470473 TTTATCTTTG
20470483 TATAT-TATT-TATTATATTATTATAC-A
1 TATATATATTATATTATATTATTATACTA
* *
20470509 TTATTATATATTATATTACATATATTTTACTA
1 -TA-TATATATTATATTATAT-TATTATACTA
*
20470541 TATATATATTATTTTATA-TATTAT-CTA
1 TATATATATTATATTATATTATTATACTA
20470568 TCATAT
1 T-ATAT
20470574 TGTCTATATC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.11
28 12 0.23
29 4 0.08
30 21 0.40
31 9 0.17
32 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
TATATATATTATATTATATTATTATACTA
Found at i:20470533 original size:14 final size:14
Alignment explanation
Indices: 20470483--20470564 Score: 66
Period size: 12 Copynumber: 5.9 Consensus size: 14
20470473 TTTATCTTTG
20470483 TATAT-TATT-TAT
1 TATATATATTATAT
20470495 TATAT-TATTATACAT
1 TATATATATTAT--AT
20470510 TATTATATATTATAT
1 TA-TATATATTATAT
* *
20470525 TACATATATTTTACT
1 TATATATATTATA-T
20470540 ATATATATATTAT-T
1 -TATATATATTATAT
20470554 T-TATATATTAT
1 TATATATATTAT
20470565 CTATCATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
12 19 0.32
13 2 0.03
14 10 0.17
15 9 0.15
16 13 0.22
17 6 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATATATTATAT
Found at i:20470558 original size:10 final size:10
Alignment explanation
Indices: 20470483--20470559 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
20470473 TTTATCTTTG
20470483 TATATTATTTAT
1 TATATTA-TT-T
*
20470495 TATATTATTA
1 TATATTATTT
* *
20470505 TACATTATTA
1 TATATTATTT
*
20470515 TATATTATAT
1 TATATTATTT
*
20470525 TACATATATTT
1 TATAT-TATTT
*
20470536 TACTA-TA-TA
1 TA-TATTATTT
20470545 TATATTATTT
1 TATATTATTT
20470555 TATAT
1 TATAT
20470560 ATTATCTATC
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
8 2 0.04
9 5 0.10
10 28 0.55
11 8 0.16
12 8 0.16
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATTATTT
Found at i:20470868 original size:6 final size:6
Alignment explanation
Indices: 20470857--20470937 Score: 51
Period size: 6 Copynumber: 12.5 Consensus size: 6
20470847 TTTAAATATC
*
20470857 TTTATT TTTATT TTTA-T TTTATT TATATT TTATATGT TTATAATT TGCTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TAT-T TT-T-ATT T--TTATT
20470910 TATT-TT TGTT-TT TTTATTT TTTATT TTT
1 T-TTATT T-TTATT TTTA-TT TTTATT TTT
20470938 TAGAATTGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 7 0.11
6 30 0.48
7 11 0.17
8 11 0.17
9 3 0.05
10 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:20470877 original size:17 final size:19
Alignment explanation
Indices: 20470852--20470897 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
20470842 AATTTTTTAA
* *
20470852 ATATCTTTATTTTTATTTT
1 ATATGTTTATTTATATTTT
20470871 -TAT-TTTATTTATATTTT
1 ATATGTTTATTTATATTTT
20470888 ATATGTTTAT
1 ATATGTTTAT
20470898 AATTTGCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 6 0.25
19 5 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
ATATGTTTATTTATATTTT
Found at i:20470937 original size:15 final size:15
Alignment explanation
Indices: 20470861--20470938 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
20470851 AATATCTTTA
20470861 TTTTTA-TTTTTATT
1 TTTTTATTTTTTATT
* *
20470875 TTATTTATATTTTATA
1 TT-TTTATTTTTTATT
* ** **
20470891 TGTTTATAATTTGCT
1 TTTTTATTTTTTATT
* *
20470906 TATTTA-TTTTTGTT
1 TTTTTATTTTTTATT
20470920 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
20470935 TTTT
1 TTTT
20470939 AGAATTGTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
14 12 0.25
15 29 0.60
16 7 0.15
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:20472399 original size:13 final size:13
Alignment explanation
Indices: 20472381--20472406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20472371 TCTAAGATTA
20472381 CAAATCTTCTATG
1 CAAATCTTCTATG
20472394 CAAATCTTCTATG
1 CAAATCTTCTATG
20472407 ATTTCTTCCC
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:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
CAAATCTTCTATG
Found at i:20479194 original size:47 final size:46
Alignment explanation
Indices: 20479086--20479205 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 46
20479076 TATCTGTGCG
20479086 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCC
* * * *
20479132 GATG-CATGTCCCAGACAT-ATCTTACACTAGCACTCGTTTCA-ATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATA-GCC
20479178 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
20479206 TTGGCTCTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 18 0.28
47 14 0.22
48 7 0.11
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCC
Found at i:20479256 original size:94 final size:92
Alignment explanation
Indices: 20479086--20479256 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 92
20479076 TATCTGTGCG
*
20479086 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAGACATA
20479151 TCTTACACTAGCACTCGTTTCAATGCC
66 TCTTACACTAGCACTCGTTTCAATGCC
* * * *
20479178 GATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATGTGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TAA--TAGCCGATGCATGTCCCAGAC
* *
20479242 ATGTCTTACTCTAGC
63 ATATCTTACACTAGC
20479257 TCACACAAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
91 2 0.03
92 34 0.49
94 33 0.48
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCCGATGCATGTCCCAGACATA
TCTTACACTAGCACTCGTTTCAATGCC
Found at i:20486904 original size:156 final size:156
Alignment explanation
Indices: 20486620--20486931 Score: 606
Period size: 156 Copynumber: 2.0 Consensus size: 156
20486610 AAAGATTTCG
* *
20486620 GTAAATTATATTTATTTAAATTTATATATGAACCAAATTCATATATGAATAGAATTATGTTCTCC
1 GTAAACTATATTTATTTAAATTTATATACGAACCAAATTCATATATGAATAGAATTATGTTCTCC
20486685 TTATGTGTACAACATCCTTGTACATATAATATGTTCGATATTTGATTGCCCATGTAACAACCAAA
66 TTATGTGTACAACATCCTTGTACATATAATATGTTCGATATTTGATTGCCCATGTAACAACCAAA
20486750 CACAATACCAACTATGTTTTGTTCCA
131 CACAATACCAACTATGTTTTGTTCCA
20486776 GTAAACTATATTTATTTAAATTTATATACGAACCAAATTCATATATGAATAGAATTATGTTCTCC
1 GTAAACTATATTTATTTAAATTTATATACGAACCAAATTCATATATGAATAGAATTATGTTCTCC
20486841 TTATGTGTACAACATCCTTGTACATATAATATGTTCGATATTTGATTGCCCATGTAACAACCAAA
66 TTATGTGTACAACATCCTTGTACATATAATATGTTCGATATTTGATTGCCCATGTAACAACCAAA
20486906 CACAATACCAACTATGTTTTGTTCCA
131 CACAATACCAACTATGTTTTGTTCCA
20486932 TTCATTTCAA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (156 bp):
GTAAACTATATTTATTTAAATTTATATACGAACCAAATTCATATATGAATAGAATTATGTTCTCC
TTATGTGTACAACATCCTTGTACATATAATATGTTCGATATTTGATTGCCCATGTAACAACCAAA
CACAATACCAACTATGTTTTGTTCCA
Found at i:20493979 original size:42 final size:42
Alignment explanation
Indices: 20493930--20494012 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
20493920 CGGATTCCTT
*
20493930 ACAGCTCATGTGAGCAGCATCATGTAGCTTACATTCCGACCC
1 ACAGCTCATGAGAGCAGCATCATGTAGCTTACATTCCGACCC
* *
20493972 ACAGCTCATGAGAGCAGCATCGTGTAGCTTACATTCTGACC
1 ACAGCTCATGAGAGCAGCATCATGTAGCTTACATTCCGACC
20494013 TACAACTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (42 bp):
ACAGCTCATGAGAGCAGCATCATGTAGCTTACATTCCGACCC
Found at i:20494029 original size:42 final size:42
Alignment explanation
Indices: 20493934--20494029 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
20493924 TTCCTTACAG
*
20493934 CTCATGTGAGCAGCATCATGTAGCTTACATTCCGACCCACAG
1 CTCATGTGAGCAGCATCATGTAGCTTACATTCCGACCCACAA
* * * *
20493976 CTCATGAGAGCAGCATCGTGTAGCTTACATTCTGACCTACAA
1 CTCATGTGAGCAGCATCATGTAGCTTACATTCCGACCCACAA
**
20494018 CTTGTGTGAGCA
1 CTCATGTGAGCA
20494030 AGCCCATTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CTCATGTGAGCAGCATCATGTAGCTTACATTCCGACCCACAA
Found at i:20495155 original size:42 final size:42
Alignment explanation
Indices: 20495084--20495175 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
20495074 TCAAGTCAGT
* * *
20495084 GAGTTACACGGCCTAGCACACGGGTGTGTATGGCAACTCAAA
1 GAGTTACACGGCCTAGCACACAGGCGTGTAGGGCAACTCAAA
* * **
20495126 GAGTTACACGGCCTAGCACATAGGCGTGTAGGGCTACTCAGT
1 GAGTTACACGGCCTAGCACACAGGCGTGTAGGGCAACTCAAA
20495168 GAGTTACA
1 GAGTTACA
20495176 TAGGTGAGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (42 bp):
GAGTTACACGGCCTAGCACACAGGCGTGTAGGGCAACTCAAA
Found at i:20502256 original size:16 final size:16
Alignment explanation
Indices: 20502235--20502302 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
20502225 TTTGGTTCGC
20502235 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
20502251 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
20502267 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
20502283 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
20502299 TGTA
1 TGTA
20502303 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:20502560 original size:18 final size:17
Alignment explanation
Indices: 20502539--20502573 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20502529 TTATTATTAA
*
20502539 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20502557 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20502574 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20502712 original size:157 final size:157
Alignment explanation
Indices: 20502426--20502742 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
20502416 TAGAATACCC
20502426 TTAGCATAAATTTGATTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGATTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
20502491 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
20502556 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAAGAA
* *
20502583 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGATTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
20502648 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
20502713 TATATAATTTAATAAAATTCTTAAGAA
131 TATATAATTTAATAAAATTCTTAAGAA
20502740 TTA
1 TTA
20502743 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCATAAATTTGATTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAAGAA
Found at i:20502713 original size:16 final size:16
Alignment explanation
Indices: 20502676--20502717 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20502666 TTAATCATAT
*
20502676 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
20502692 TT-AAATATATTATAA
1 TTAAAATATATTATAA
20502707 TTAAAATATAT
1 TTAAAATATAT
20502718 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:20502724 original size:14 final size:15
Alignment explanation
Indices: 20502685--20502726 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20502675 TTTAAACATA
*
20502685 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20502700 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
20502714 A-TATAATTTAATA
1 ATTATAATTAAATA
20502727 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20502814 original size:120 final size:106
Alignment explanation
Indices: 20502745--20502956 Score: 319
Period size: 106 Copynumber: 2.0 Consensus size: 106
20502735 AAGAATTAAT
* *
20502745 ATTCTT-AT-ATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAA
1 ATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAACATAA
20502806 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAA
65 TTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAA
20502849 ATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAA-ATAAT
1 ATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAACATAAT
* *
20502913 TAATATTAAATATGATTTAATT-AAATATATGATTTAATAAA
66 TATTATTAAATAT-ATTTAATTAAAATATATAATTTAATAAA
20502954 ATT
1 ATT
20502957 TAAAATAATT
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
104 6 0.06
105 26 0.26
106 64 0.65
107 3 0.03
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (106 bp):
ATTCTTAATAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAACATAAT
TATTATTAAATATATTTAATTAAAATATATAATTTAATAAA
Found at i:20502827 original size:157 final size:155
Alignment explanation
Indices: 20502478--20502808 Score: 369
Period size: 157 Copynumber: 2.1 Consensus size: 155
20502468 TTTAAATTTT
* * *
20502478 AATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATAT
1 AATAACATAATTAATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATAT
* * * * * **
20502543 ATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATTTGTTTTGGTAAAT
66 ATTATAATTAAAATATATAATTTAATAAAATTCTTAAGAATTAACATAAATATGATTTACTAAAT
* * * * *
20502608 TATTATTGTTATTGTTATTTAAATTTT
131 TAATATTGATACTGTTA--TAAATATA
* * *
20502635 AATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
1 AATAACATAATTAATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATAT
* **
20502700 ATTATAATTAAAATATATAATTTAATAAAATTCTTAAGAATTAATATTCTTATATGAATTTACTC
66 ATTATAATTAAAATATATAATTTAATAAAATTCTTAAGAATTAACA-T-AAATATG-ATTTACT-
20502765 AAATCATAATATATGATACTG-TA-AAATATA
127 AAAT--TAATAT-TGATACTGTTATAAATATA
20502795 AATTAACATAATTA
1 AA-TAACATAATTA
20502809 TTATTAAATA
Statistics
Matches: 147, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
157 105 0.71
158 1 0.01
159 4 0.03
160 11 0.07
161 13 0.09
163 7 0.05
164 6 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
AATAACATAATTAATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATAT
ATTATAATTAAAATATATAATTTAATAAAATTCTTAAGAATTAACATAAATATGATTTACTAAAT
TAATATTGATACTGTTATAAATATA
Found at i:20502837 original size:18 final size:17
Alignment explanation
Indices: 20502816--20502850 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20502806 TTATTATTAA
*
20502816 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
20502834 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
20502851 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20502858 original size:24 final size:24
Alignment explanation
Indices: 20502831--20502886 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
20502821 TTTTAATTAA
*
20502831 AATATAT-AATTTAATAAAATTCTT
1 AATATATGAATTTAATAAAA-TCAT
* *
20502855 AATA-ATGAATTTACTCAAATCAT
1 AATATATGAATTTAATAAAATCAT
20502878 AATATATGA
1 AATATATGA
20502887 TACTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
AATATATGAATTTAATAAAATCAT
Found at i:20502937 original size:15 final size:15
Alignment explanation
Indices: 20502917--20502955 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
20502907 AATAATTAAT
20502917 ATTAAATATGATTTA
1 ATTAAATATGATTTA
20502932 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
20502949 ATAAAAT
1 ATTAAAT
20502956 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:20502942 original size:17 final size:17
Alignment explanation
Indices: 20502922--20502955 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20502912 TTAATATTAA
*
20502922 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
20502939 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
20502956 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:20505275 original size:28 final size:28
Alignment explanation
Indices: 20505244--20505297 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
20505234 GCAAATCGGT
*
20505244 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
20505272 AGAAAAGAAAAGAAAAGAAACGGAGG
1 AGAAAAGAAAAGAAAAGAAACAGAGG
20505298 AAGCAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.65, C:0.06, G:0.28, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:20506119 original size:17 final size:18
Alignment explanation
Indices: 20506097--20506130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20506087 CACATAGAAG
20506097 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
20506114 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
20506131 CTTCTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:20507331 original size:28 final size:29
Alignment explanation
Indices: 20507268--20507367 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
20507258 CATATGACCC
* * * *
20507268 AATCTCATTCATATGGTCTATTAGGCCAA
1 AATCACATTCATATGGCCCATTAGGCCCA
*
20507297 AATCACATTCGTATGGCCCATT-GGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
20507325 AATCACATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
20507354 AATCACATTCATAT
1 AATCACATTCATAT
20507368 ACATGCTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 26 0.41
29 38 0.59
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:20507348 original size:57 final size:57
Alignment explanation
Indices: 20507255--20507363 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
20507245 CATGCATATA
* * *
20507255 GCCCATATGACCCAATCTCATTCATATGGTCTATTAGGCCAAAATCACATTCGTATG
1 GCCCATATGACCCAATCACATTCATATGGCCCATTAGGCCAAAATCACATTCGTATG
* *
20507312 GCCCAT-TGGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATCACATTC
1 GCCCATATGACCC-AATCACATTCATATGGCCCATTAGGCCAAAATCACATTC
20507364 ATATACATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 5 0.11
57 41 0.89
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (57 bp):
GCCCATATGACCCAATCACATTCATATGGCCCATTAGGCCAAAATCACATTCGTATG
Found at i:20515112 original size:68 final size:69
Alignment explanation
Indices: 20515029--20515216 Score: 236
Period size: 68 Copynumber: 2.7 Consensus size: 69
20515019 TGTATTATTG
* * * *
20515029 TCCCGACAGACTACACTAGTGGCTATAGTCTAACTATGGTCATACACCTTACATTTCTTG-TTTT
1 TCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACATTTCTCGTTTTT
20515093 ACTA
66 ACTA
* * * *
20515097 TCCCGA-TGAACTACACTAGAGGCCATAGTCCAACTATGGCCTTACACCTTACGTTTCTCGTTTT
1 TCCCGACAG-ACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACATTTCTCGTTTT
*
20515161 TACTG
65 TACTA
* * * *
20515166 TCTCGACAGACTACACTGGTGGCCATAGCCCAACTACGGTCTTACACCTTA
1 TCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTA
20515217 TGTTTCCCAG
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
67 1 0.01
68 50 0.50
69 49 0.49
70 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (69 bp):
TCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACATTTCTCGTTTTT
ACTA
Found at i:20515199 original size:69 final size:69
Alignment explanation
Indices: 20515027--20515242 Score: 256
Period size: 69 Copynumber: 3.1 Consensus size: 69
20515017 CCTGTATTAT
* * * * *
20515027 TGTCCCGACAGACTACACTAGTGGCTATAGTCTAACTATGGTCATACACCTTACATTTCTTG-TT
1 TGTCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACGTTTCTCGTTT
20515091 TTAC
66 TTAC
* * * *
20515095 TATCCCGA-TGAACTACACTAGAGGCCATAGTCCAACTATGGCCTTACACCTTACGTTTCTCGTT
1 TGTCCCGACAG-ACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACGTTTCTCGTT
20515159 TTTAC
65 TTTAC
* * * * * * *
20515164 TGTCTCGACAGACTACACTGGTGGCCATAGCCCAACTACGGTCTTACACCTTATGTTTCCCAGTG
1 TGTCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACGTTTCTC-GTT
20515229 TTTAC
65 TTTAC
20515234 TGTCCCGAC
1 TGTCCCGAC
20515243 GGGCTACTAT
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
67 1 0.01
68 51 0.41
69 55 0.45
70 16 0.13
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (69 bp):
TGTCCCGACAGACTACACTAGTGGCCATAGTCCAACTATGGTCTTACACCTTACGTTTCTCGTTT
TTAC
Found at i:20515368 original size:45 final size:44
Alignment explanation
Indices: 20515251--20515381 Score: 142
Period size: 45 Copynumber: 3.0 Consensus size: 44
20515241 ACGGGCTACT
* * *
20515251 ATGATGCCATAGCATCTTTCAGCTATGGTCTTAGTTC-TGCTTACC
1 ATGATGCCATAGCATCTTTCAGCTACGGTCTTA-CTCAT-TTTACC
* * *
20515296 ATAATGCC-TAGCATCTTTC-GATCACGGTCTTACTCATTTATATC
1 ATGATGCCATAGCATCTTTCAGCT-ACGGTCTTACTCATTT-TACC
*
20515340 ATGATGCCATTGCATCTTTCAGCTACGGTCTTACTCATTTTA
1 ATGATGCCATAGCATCTTTCAGCTACGGTCTTACTCATTTTA
20515382 AGCGTATAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.07
44 32 0.44
45 33 0.46
46 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (44 bp):
ATGATGCCATAGCATCTTTCAGCTACGGTCTTACTCATTTTACC
Found at i:20524657 original size:29 final size:29
Alignment explanation
Indices: 20524624--20524682 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
20524614 ATAGTATAGG
* *
20524624 GATTTTCCATGAAAATATTTATGTTGTTT
1 GATTTGCCATGAAAAGATTTATGTTGTTT
20524653 GATTTGCCATGAAAAGATTTATGTTGTTT
1 GATTTGCCATGAAAAGATTTATGTTGTTT
20524682 G
1 G
20524683 CTGAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (29 bp):
GATTTGCCATGAAAAGATTTATGTTGTTT
Found at i:20525492 original size:46 final size:45
Alignment explanation
Indices: 20525398--20525671 Score: 144
Period size: 46 Copynumber: 5.8 Consensus size: 45
20525388 GGTGGTATGT
* *
20525398 GAGCCAGTGTAAGACATGTCTGGGACATGTATCGACCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CACATTACGA
* *
20525444 GAGCCAGTGTAAGACATGTCTAGGACATGCATC-A-GCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACACATT---ACGA
* * * ** *
20525490 GAGCTAGTGTAAGACATGTTTGGGACATGTATTAGCCTCAAGATATAC-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCA-T--CGAC-ACAT-TACGA
* * * * *
20525539 -AGCTAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACA-C-AT-TACGA
* * * * *
20525587 GAGCCAGTGTAAGACCTGTCTGGGACACGACATCAGCCTCGATATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATG-CATC-GACAC-AT-TACGA
* * *
20525636 -AGTCAATGTAAGACCTGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGAC
20525672 TTTGATGTGC
Statistics
Matches: 180, Mismatches: 30, Indels: 35
0.73 0.12 0.14
Matches are distributed among these distances:
43 4 0.02
45 2 0.01
46 63 0.35
47 7 0.04
48 55 0.31
49 42 0.23
50 4 0.02
52 2 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACACATTACGA
Found at i:20525600 original size:49 final size:48
Alignment explanation
Indices: 20525399--20525713 Score: 190
Period size: 48 Copynumber: 6.6 Consensus size: 48
20525389 GTGGTATGTG
* * * *
20525399 AGCCAGTGTAAGACATGTCTGGGACAT-GTATCGACCAC-AT-TATGA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
* * * * *
20525444 GAGCCAGTGTAAGACATGTCTAGGACAT-GCATC-AGCATTG--AGACGA
1 -AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGA
* * * * * * *
20525490 GAGCTAGTGTAAGACATGTTTGGGACAT-GTAT-TAGCCTCAAGATATA-CA
1 -AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTC--GATAGATGA
* *
20525539 AGCTAGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGA
* * *
20525587 GAGCCAGTGTAAGACCTGTCTGGGACACGACATC-AGCCTCGATATATGA
1 -AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGA
* * * * *
20525636 AGTCAATGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATG-A
*
20525683 AGCCAGTGTAAGACCATGTTTGGGACATGGC
1 AGCCAGTGTAAGACC-TGTCTGGGACATGGC
20525714 GTCGGCATCT
Statistics
Matches: 213, Mismatches: 38, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.00
46 68 0.32
47 18 0.08
48 76 0.36
49 46 0.22
50 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA
Found at i:20525613 original size:97 final size:96
Alignment explanation
Indices: 20525398--20525711 Score: 279
Period size: 97 Copynumber: 3.3 Consensus size: 96
20525388 GGTGGTATGT
* * * * * *
20525398 GAGCCAGTGTAAGACATGTCTGGGACATGTA-TCGAC-CACA-TTATGAGAGCCAGTGTAAGACA
1 GAGCCAGTGTAAGACATGTCTGGGACATGTATTAGCCTCA-AGATAT-AAAGCTAGTGTAAGACC
*
20525460 TGTCTAGGACAT-GCATC-AGCATTG--AGACGA
64 TGTCTAGGACATGGCATCGA-CATTGATAGATGA
* *
20525490 GAGCTAGTGTAAGACATGTTTGGGACATGTATTAGCCTCAAGATATACAAGCTAGTGTAAGACCT
1 GAGCCAGTGTAAGACATGTCTGGGACATGTATTAGCCTCAAGATATA-AAGCTAGTGTAAGACCT
**
20525555 GTCTAGGACATGGCATCGACACCGATAGATGA
65 GTCTAGGACATGGCATCGACATTGATAGATGA
* * * * * * * *
20525587 GAGCCAGTGTAAGACCTGTCTGGGACACGACATCAGCCTCGATATATGAAG-TCAATGTAAGACC
1 GAGCCAGTGTAAGACATGTCTGGGACATG-TATTAGCCTCAAGATATAAAGCT-AGTGTAAGACC
* * *
20525651 TGTCTGGGACATGGCATCGACTTTGAT-G-TGC
64 TGTCTAGGACATGGCATCGACATTGATAGATGA
* *
20525682 TAGCCAGTGTAAGACCATGTTTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
20525712 GCGTCGGCAT
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
92 29 0.16
93 5 0.03
94 30 0.17
95 23 0.13
96 15 0.08
97 66 0.36
98 13 0.07
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (96 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGTATTAGCCTCAAGATATAAAGCTAGTGTAAGACCTG
TCTAGGACATGGCATCGACATTGATAGATGA
Found at i:20525656 original size:48 final size:49
Alignment explanation
Indices: 20525545--20525671 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
20525535 TACAAGCTAG
* * * *
20525545 TGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACACGACATCGACACCGATAGATGAGAGCCAA
* *
20525594 TGTAAGACCTGTCTGGGACACGACATC-AGC-CTCGATATATGA-AGTCAA
1 TGTAAGACCTGTCTGGGACACGACATCGA-CAC-CGATAGATGAGAGCCAA
* *
20525642 TGTAAGACCTGTCTGGGACATGGCATCGAC
1 TGTAAGACCTGTCTGGGACACGACATCGAC
20525672 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
48 32 0.48
49 35 0.52
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACACGACATCGACACCGATAGATGAGAGCCAA
Found at i:20528717 original size:20 final size:20
Alignment explanation
Indices: 20528692--20528733 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
20528682 GTCCCTTATA
*
20528692 TTTTGTAAAATTTTTCTAAG
1 TTTTGTAAAATTTTCCTAAG
20528712 TTTTGTAAAATTTTCCTAAG
1 TTTTGTAAAATTTTCCTAAG
20528732 TT
1 TT
20528734 ACCAGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTGTAAAATTTTCCTAAG
Found at i:20529594 original size:35 final size:35
Alignment explanation
Indices: 20529538--20529620 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
20529528 ATTCCAACAT
* *
20529538 AAACACACTAGATGCTCAAAAGAGCTAATCCATCCG
1 AAACACACCA-ATACTCAAAAGAGCTAATCCATCCG
* *
20529574 AAACACACCAATACTCAAAAGAGTTAATCCATCTG
1 AAACACACCAATACTCAAAAGAGCTAATCCATCCG
20529609 AAACACACCAAT
1 AAACACACCAAT
20529621 GGCTCCGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.46, C:0.28, G:0.10, T:0.17
Consensus pattern (35 bp):
AAACACACCAATACTCAAAAGAGCTAATCCATCCG
Found at i:20537354 original size:68 final size:69
Alignment explanation
Indices: 20537265--20537398 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 69
20537255 GACTATGTTG
* * *
20537265 GTGGCCATAGTCCAGCTATGGTCTTACACCTTACGTTTCC-CATGTTTACTGTCCCGACAGACTA
1 GTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCCTCATGTTTACTGTCCCAACAGACTA
20537329 CACT
66 CACT
* * * *
20537333 GTGGCCATAGTCCAACAATGGTTTTACACCTTATGTTTCCTTATGTTTACTGTTCCAACAGACTA
1 GTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCCTCATGTTTACTGTCCCAACAGACTA
20537398 C
66 C
20537399 TAGGAGGCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 36 0.62
69 22 0.38
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (69 bp):
GTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCCTCATGTTTACTGTCCCAACAGACTA
CACT
Found at i:20539022 original size:47 final size:47
Alignment explanation
Indices: 20538812--20539117 Score: 169
Period size: 47 Copynumber: 6.5 Consensus size: 47
20538802 TTGCCGCTGC
* * * * * * *
20538812 CATGTCCCAGACACGGTCTTACGCTGGCTACCTTCATCGAGGCTGATG
1 CATGTCCCAGACA-TGTCTTACACTAGCTATCATCATCGAAGCCGATG
* * * * *
20538860 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CAT-CGAAGCCGATG
* * **
20538910 CATGTCCCAGACATGTCTTACACTAGC-ATGA--AACTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAAGCCGATG
** * * * * *
20538954 CATGTATCATACACGTTTTACACTGGCTATCATCATCGAATCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAAGCCGATG
* *
20539001 CATGTCCCAGACATGTCTTACACTAGC-ACTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCGAAGCCGATG
* * * * ** *
20539047 CCATGTCCCAGACGTGGTCTTATA-TGGGCTATCATGAT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACT-AGCTATCATCATCGAAGCCGATG
* *
20539095 TATGTCCCAGACATGGCTTACAC
1 CATGTCCCAGACATGTCTTACAC
20539118 CAGCCCTCGT
Statistics
Matches: 196, Mismatches: 47, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.14
45 3 0.02
46 16 0.08
47 62 0.32
48 32 0.16
49 43 0.22
50 9 0.05
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAAGCCGATG
Found at i:20557388 original size:29 final size:29
Alignment explanation
Indices: 20557355--20557413 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
20557345 ATAGTATAGG
*
20557355 GATTTTCCATGAAAATATTTATGTTGTTT
1 GATTTTCCATGAAAAGATTTATGTTGTTT
20557384 GATTTTCCATGAAAAGATTTATGTTGTTT
1 GATTTTCCATGAAAAGATTTATGTTGTTT
20557413 G
1 G
20557414 CTGAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (29 bp):
GATTTTCCATGAAAAGATTTATGTTGTTT
Found at i:20558196 original size:46 final size:43
Alignment explanation
Indices: 20558124--20558252 Score: 152
Period size: 46 Copynumber: 2.9 Consensus size: 43
20558114 CATTGGGTGG
*
20558124 TATGTGAGCCAGTGTAAGACATGTCTAGGACATGCAT-GGACCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGG----CAT
20558170 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCAT
1 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCAT
* * *
20558213 TGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 T---ATGAGAGCCAGTGTAAGACATGTCTAGGACATGCAT
20558253 TGGCCTCAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
43 4 0.05
46 69 0.92
47 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (43 bp):
TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCAT
Found at i:20558387 original size:141 final size:138
Alignment explanation
Indices: 20558182--20558443 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 138
20558172 TGAGAGCCAG
* * * *
20558182 TGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGAC
1 TGTAAGACATGTCTAGGACATGCATCGACACTGAGACGAGAGCCAGTGTAAGACATGCCTGGGAC
* ** *
20558247 ATG-CATTGGCCTCAAGATATA-CAAG-CTAGTGTAAGACCTGTCTAGGACATGGCGTCAGGTTG
66 ACGACATCAGCCTC--GATATATCAAGTC-AATGTAAGACCTGTCTAGGACATGGCGTCAGGTTG
20558309 TTGTGTGTTAC
128 TTGTGTGTTAC
* * *
20558320 TGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGTGTAAGACCTGCCTGG
1 TGTAAGACATGTCTAGGACAT-GCATCGACACTG--AGACGAGAGCCAGTGTAAGACATGCCTGG
*
20558385 GACACGACATCAGCCTCGATATATGAAGTCAATGTAAGACCTGTCTAGGACATGGCGTC
63 GACACGACATCAGCCTCGATATATCAAGTCAATGTAAGACCTGTCTAGGACATGGCGTC
20558444 GACTTTGATG
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
138 20 0.19
139 10 0.09
140 6 0.06
141 61 0.58
142 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (138 bp):
TGTAAGACATGTCTAGGACATGCATCGACACTGAGACGAGAGCCAGTGTAAGACATGCCTGGGAC
ACGACATCAGCCTCGATATATCAAGTCAATGTAAGACCTGTCTAGGACATGGCGTCAGGTTGTTG
TGTGTTAC
Found at i:20558436 original size:48 final size:49
Alignment explanation
Indices: 20558320--20558436 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
20558310 TGTGTGTTAC
* * *
20558320 TGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTAGGACACGACATCGACACTGATAGATGAGAGCCAA
* * * *
20558369 TGTAAGACCTGCCTGGGACACGACATC-AGC-CTCGATATATGA-AGTCAA
1 TGTAAGACCTGTCTAGGACACGACATCGA-CACT-GATAGATGAGAGCCAA
20558417 TGTAAGACCTGTCTAGGACA
1 TGTAAGACCTGTCTAGGACA
20558437 TGGCGTCGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 25 0.44
49 32 0.56
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (49 bp):
TGTAAGACCTGTCTAGGACACGACATCGACACTGATAGATGAGAGCCAA
Found at i:20558906 original size:34 final size:34
Alignment explanation
Indices: 20558863--20558931 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
20558853 TTACGAATGT
20558863 GGTGAAAATGAATTAATAAGGTGTGAGAAACTTA
1 GGTGAAAATGAATTAATAAGGTGTGAGAAACTTA
*
20558897 GGTGAAAATGAATTAATAAGGTGTGATAAACTTA
1 GGTGAAAATGAATTAATAAGGTGTGAGAAACTTA
20558931 G
1 G
20558932 TATCATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.28
Consensus pattern (34 bp):
GGTGAAAATGAATTAATAAGGTGTGAGAAACTTA
Found at i:20561523 original size:20 final size:20
Alignment explanation
Indices: 20561498--20561539 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
20561488 GTCCCTTGTA
*
20561498 TTTTGTAAAATTTTTCTAAG
1 TTTTGTAAAATTTTCCTAAG
20561518 TTTTGTAAAATTTTCCTAAG
1 TTTTGTAAAATTTTCCTAAG
20561538 TT
1 TT
20561540 ACCGGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTGTAAAATTTTCCTAAG
Found at i:20562399 original size:35 final size:35
Alignment explanation
Indices: 20562344--20562427 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
20562334 ATTCCAACAT
20562344 AAACACACCAGATGCTCAAAAGAGCTAATCCATCCG
1 AAACACACCA-ATGCTCAAAAGAGCTAATCCATCCG
* *
20562380 AAACACACCAATGCTCAAAAGAGTTAATCCATCTG
1 AAACACACCAATGCTCAAAAGAGCTAATCCATCCG
20562415 AAACACACCAATG
1 AAACACACCAATG
20562428 GCTCCGAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (35 bp):
AAACACACCAATGCTCAAAAGAGCTAATCCATCCG
Found at i:20570226 original size:69 final size:68
Alignment explanation
Indices: 20570078--20570213 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 68
20570068 GGACTATGTT
* * * *
20570078 GGTGGCCGTAGTCCAGCTATGGTCTTACACCTTACGTTTCCCATGTTTACTGTCCTGACAGACTA
1 GGTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCCCATGTTTACTGTCCTAACAGACTA
20570143 CAC
66 CAC
* * * *
20570146 TGGTGGCCATAGTCCAACAATGGTTTTACACCTTATGTTTCCTTATGTTTACTATTCC-AACAGA
1 -GGTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCC-CATGTTTACT-GTCCTAACAGA
20570210 CTAC
63 CTAC
20570214 TAGGATGCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
69 36 0.63
70 18 0.32
71 3 0.05
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (68 bp):
GGTGGCCATAGTCCAACAATGGTCTTACACCTTACGTTTCCCATGTTTACTGTCCTAACAGACTA
CAC
Found at i:20571823 original size:47 final size:46
Alignment explanation
Indices: 20571718--20571984 Score: 163
Period size: 47 Copynumber: 5.8 Consensus size: 46
20571708 GTGTATACGT
* * * * *
20571718 GCTGATGCATGTCCCAGACATGTCTTACA-TAGC-ATGAAACT--TA
1 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTAT-CATCTCGAA
*
20571761 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAA
1 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTATCATC-TCGAA
* * * * *
20571808 TCTGATGCATGTCCCAGACATGTCTTACACTAGC-ACTCATCTCTAC
1 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCTCGAA
* * * * **
20571854 GCCGATGCCATGTCCCAGACATGGTCTTATA-TGGGCTATCATGAT-GTG
1 GCTGATG-CATGTCCCAGACA-CGTCTTACACT-GGCTATCAT-CTCGAA
* * ** *
20571902 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTC-AA
1 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTCGAA
* * *
20571947 TGCTAATGCCATGTCCCGGACACGGTCTTATACTGGCT
1 -GCTGATG-CATGTCCCAGACAC-GTCTTACACTGGCT
20571985 CTCACATAAC
Statistics
Matches: 171, Mismatches: 37, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
43 27 0.16
44 5 0.03
45 4 0.02
46 27 0.16
47 76 0.44
48 30 0.18
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTCGAA
Found at i:20571917 original size:94 final size:93
Alignment explanation
Indices: 20571718--20571984 Score: 312
Period size: 94 Copynumber: 2.9 Consensus size: 93
20571708 GTGTATACGT
* *
20571718 GCTGATGCATGTCCCAGACATGTCTTACA-TAGCA-TGAAACT-TAGCCGATG-CATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACT-CATCTCTAGCCGATGCCATGTCCCAGA
* *
20571779 CACGTCTTACACTGGCTATCATCATCGAA
65 CAGGTCTTATACTGGCTATCATCATCGAA
*
20571808 TCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTA-GCCGATGCCATGTCCCAGA
* **
20571873 CATGGTCTTATA-TGGGCTATCATGAT-GTG
65 CA-GGTCTTATACT-GGCTATCATCATCGAA
* * * ** *
20571902 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCTAATGCCATGTCCCGGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTA-GCCGATGCCATGTCCCAGA
20571967 CACGGTCTTATACTGGCT
65 CA-GGTCTTATACTGGCT
20571985 CTCACATAAC
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
90 28 0.18
91 8 0.05
92 3 0.02
93 7 0.05
94 87 0.57
95 19 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAGCCGATGCCATGTCCCAGAC
AGGTCTTATACTGGCTATCATCATCGAA
Found at i:20580902 original size:48 final size:48
Alignment explanation
Indices: 20580838--20581301 Score: 298
Period size: 48 Copynumber: 9.7 Consensus size: 48
20580828 TCATGTCGAA
* * * * *
20580838 GCCATGTCCTAGACATGGTTTTACACTAGCTTACATAACAATGCCGGT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
* ***
20580886 GCCATG-CTCCAAACATGGTTTTACACTGGCTCACATATTGAGGCCGAT
1 GCCATGTC-CCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
* * * * * *
20580934 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATACCAGTGCAGAC
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATA-ACAAG-GCCGAT
* * * * *
20580984 ACCATGTCCCAATCATGGTCTTT-CACTA--ACACATATCAAGGCCTAT
1 GCCATGTCCCAAACATGGT-TTTACACTAGCTCACATAACAAGGCCGAT
* * * *** * *
20581030 GCCATGTCCCAAACATAGTCTTACACTGGCTCACATATTGACGCTGAT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
** * * * * * *
20581078 GCCATGTCTTAGACATGGTCTTACATTGGCTCTCATATAC-CGGTACCGAT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATA-ACAAGG--CCGAT
* * * * *
20581128 GGCATGTCCCAAACATGGTCTTACACT-G-ACACCTATCAAGGCCGAT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
* * * ** *
20581174 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACCGGTGTCGAT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATA-ACAAG-GCCGAT
* * * * *
20581224 GCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAGGCTGAT
1 GCCATGTCCCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
* *
20581270 GCCATGTCCCAGACATGGTCTTACACTAGCTC
1 GCCATGTCCCAAACATGGTTTTACACTAGCTC
20581302 TCATTTCGCC
Statistics
Matches: 322, Mismatches: 76, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.01
46 84 0.26
47 9 0.03
48 135 0.42
49 7 0.02
50 83 0.26
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTTTTACACTAGCTCACATAACAAGGCCGAT
Found at i:20581054 original size:144 final size:144
Alignment explanation
Indices: 20580839--20581251 Score: 479
Period size: 144 Copynumber: 2.8 Consensus size: 144
20580829 CATGTCGAAG
* * * * * * *
20580839 CCATGTCCTAGACATGGTTTTACACTAGCTTACATAACAATGCCGGTGCCATG-CTCCAAACATG
1 CCATGTCCCAAACATGGTCTTACACTAAC--ACATATCAAGGCCGATGCCATGTC-CCAAACATG
* *
20580903 GTTTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
63 GTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
*
20580968 ATATACCAGTGCAGACA
128 ATATACCAGTACAGACA
* * * *
20580985 CCATGTCCCAATCATGGTCTTTCACTAACACATATCAAGGCCTATGCCATGTCCCAAACATAGTC
1 CCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATGGTC
* * ** *
20581050 TTACACTGGCTCACATATTGACGCTGATGCCATGTCTTAGACATGGTCTTACATTGGCTCTCATA
66 TTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
* * **
20581115 TACCGGTACCGATG
131 TACCAGTACAGACA
* * * *
20581129 GCATGTCCCAAACATGGTCTTACACTGACACCTATCAAGGCCGATGCCATGTCCCAGACATGGTC
1 CCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATGGTC
* * * *
20581194 TTACACTAGCTCTCATATACCG-GTGTCGATGCCATGTCCCAGACATGGTCTTACACTG
66 TTACACTGGCTCACATAT--TGAG-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
20581252 ACACATATCA
Statistics
Matches: 223, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
144 169 0.76
145 1 0.00
146 53 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
CCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATGGTC
TTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
TACCAGTACAGACA
Found at i:20581115 original size:96 final size:94
Alignment explanation
Indices: 20580885--20581305 Score: 393
Period size: 96 Copynumber: 4.4 Consensus size: 94
20580875 ACAATGCCGG
* * * * **
20580885 TGCCATG-CTCCAAACATGGTTTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAAACA
1 TGCCATGTC-CCAGACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCCCAAACA
* * * *
20580949 TGGTCTTACACTGGCTCTCATATACCAGTGCAGA
65 TGGTCTTACACT-G-ACACATAT-CAAG-GCTGA
** * * * *
20580983 CACCATGTCCCA-ATCATGGTCTTTCACTA--ACACATATCAAGGCCTATGCCATGTCCCAAACA
1 TGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCCCAAACA
* * ** *
20581045 TAGTCTTACACTGGCTCACATATTGACGCTGA
65 TGGTCTTACACT-G-ACACATATCAAGGCTGA
** * * * *
20581077 TGCCATGTCTTAGACATGGTCTTACATTGGCTCTCATAT-ACCGGTACCGATGGCATGTCCCAAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-AGG--CCGATGCCATGTCCCAAA
* *
20581141 CATGGTCTTACACTGACACCTATCAAGGCCGA
63 CATGGTCTTACACTGACACATATCAAGGCTGA
** * *
20581173 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACCGGTGTCGATGCCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT-CAAG-GCCGATGCCATGTCCCAAAC
20581238 ATGGTCTTACACTGACACATATCAAGGCTGA
64 ATGGTCTTACACTGACACATATCAAGGCTGA
20581269 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
20581306 TTCGCCATGG
Statistics
Matches: 267, Mismatches: 45, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
94 24 0.09
95 3 0.01
96 186 0.70
97 3 0.01
98 50 0.19
99 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCCCAAACAT
GGTCTTACACTGACACATATCAAGGCTGA
Found at i:20581259 original size:144 final size:144
Alignment explanation
Indices: 20580838--20581297 Score: 461
Period size: 144 Copynumber: 3.2 Consensus size: 144
20580828 TCATGTCGAA
* * * * * * *
20580838 GCCATGTCCTAGACATGGTTTTACACTAGCTTACATAACAATGCCGGTGCCATG-CTCCAAACAT
1 GCCATGTCCCAAACATGGTCTTACACTAAC--ACATATCAAGGCCGATGCCATGTC-CCAAACAT
* * * * *
20580902 GGTTTTACACTGGCTCACATATTGAGGC-CGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
63 AGTCTTACACTAGCTCACATATTGACGCTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
* *
20580966 TCATATACCAGTGCAGAC
128 TCATATACCGGT-CAGAT
* * * *
20580984 ACCATGTCCCAATCATGGTCTTTCACTAACACATATCAAGGCCTATGCCATGTCCCAAACATAGT
1 GCCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATAGT
* ** *
20581049 CTTACACTGGCTCACATATTGACGCT-GATGCCATGTCTTAGACATGGTCTTACATTGGCTCTCA
66 CTTACACTAGCTCACATATTGACGCTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
*
20581113 TATACCGGTACCGAT
131 TATACCGGT-CAGAT
* * * * *
20581128 GGCATGTCCCAAACATGGTCTTACACTGACACCTATCAAGGCCGATGCCATGTCCCAGACATGGT
1 GCCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATAGT
* * *
20581193 CTTACACTAGCTCTCATA-T-ACCGGTGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-AC
66 CTTACACTAGCTCACATATTGA-C-G-CTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
* * *
20581254 ACATAT-CAAGG-CTGAT
128 TCATATAC-CGGTCAGAT
*
20581270 GCCATGTCCCAGACATGGTCTTACACTA
1 GCCATGTCCCAAACATGGTCTTACACTA
20581298 GCTCTCATTT
Statistics
Matches: 263, Mismatches: 44, Indels: 18
0.81 0.14 0.06
Matches are distributed among these distances:
142 30 0.11
143 3 0.01
144 177 0.67
145 3 0.01
146 50 0.19
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
GCCATGTCCCAAACATGGTCTTACACTAACACATATCAAGGCCGATGCCATGTCCCAAACATAGT
CTTACACTAGCTCACATATTGACGCTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
TATACCGGTCAGAT
Found at i:20585804 original size:19 final size:19
Alignment explanation
Indices: 20585780--20585825 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
20585770 GTAATCCAGT
*
20585780 AAATAAAGACAAAATTAAC
1 AAATAAAAACAAAATTAAC
20585799 AAATAAAAACAAAATTAAC
1 AAATAAAAACAAAATTAAC
20585818 AAATAAAA
1 AAATAAAA
20585826 GTGTCCATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (19 bp):
AAATAAAAACAAAATTAAC
Found at i:20591963 original size:26 final size:26
Alignment explanation
Indices: 20591915--20591964 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
20591905 CGTGTATATA
* *
20591915 TCTGGCAGCTTTGCTGCGTTATTATT
1 TCTGGCAGCTATGCTGCGATATTATT
* *
20591941 TCTGGTAGCTATGCTGGGATATTA
1 TCTGGCAGCTATGCTGCGATATTA
20591965 CTGTGCTAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (26 bp):
TCTGGCAGCTATGCTGCGATATTATT
Found at i:20593059 original size:49 final size:49
Alignment explanation
Indices: 20592951--20593077 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 49
20592941 TAAGATGCCG
* *
20592951 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCTG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGTGAGGCTA
* * * *
20593001 ATGCTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTG-GTCTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTGAGGCT-A
20593050 ATGCCATGTCCCAGACAGGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
20593078 AACACATGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.04
49 50 0.72
50 16 0.23
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTGAGGCTA
Found at i:20593164 original size:48 final size:47
Alignment explanation
Indices: 20592950--20593266 Score: 202
Period size: 48 Copynumber: 6.7 Consensus size: 47
20592940 TTAAGATGCC
* * *
20592950 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGT-GAGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-TT-ATCTACTCGAGGCT
* * * *
20593000 GATGCTATGTCCCAGACAGGTCTTACACTGGCTCTCATCTA-TTG-GTCT
1 GATGC-ATGTCCCAGACATGTCTTACACTAGCT-T-ATCTACTCGAGGCT
* * * ** * * *
20593048 CAATGCCATGTCCCAGACAGGTCTTACACTAACACAT-GA-T--AAGCC
1 -GATG-CATGTCCCAGACATGTCTTACACTAGCTTATCTACTCGAGGCT
* * * * *
20593093 AACGCCATGTCCTAGACAGGTCTTACACTAGCTTATCTACCGCGAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTATCTA-CTCGAGGCT
* * *
20593142 GATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGT-CTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTATC-TACTCGAGGCT
* * * **
20593188 GATGCATGTCCCAGATATGTCTTACACTGGCCTAAATATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTATCTA-CTCGAGGCT
20593236 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
20593267 ACACATATCA
Statistics
Matches: 213, Mismatches: 39, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 31 0.15
45 2 0.01
46 37 0.17
47 7 0.03
48 66 0.31
49 53 0.25
50 17 0.08
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTATCTACTCGAGGCT
Found at i:20596220 original size:7 final size:7
Alignment explanation
Indices: 20596203--20596241 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
20596193 TGTTCCTTCT
20596203 TTTTTTA
1 TTTTTTA
20596210 -TTTTTA
1 TTTTTTA
20596216 TTTTTTTA
1 -TTTTTTA
20596224 TTTTTTA
1 TTTTTTA
*
20596231 TTTTTTG
1 TTTTTTA
20596238 TTTT
1 TTTT
20596242 GCTTTGATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:20596222 original size:15 final size:15
Alignment explanation
Indices: 20596202--20596236 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
20596192 TTGTTCCTTC
20596202 TTTTTTTA-TTTTTA
1 TTTTTTTATTTTTTA
20596216 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
20596231 TTTTTT
1 TTTTTT
20596237 GTTTTGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:20599177 original size:47 final size:47
Alignment explanation
Indices: 20599090--20599256 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 47
20599080 TAAGGTGCCA
*
20599090 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCAAGTCG
* *
20599137 ATGCCATGTCCCTA-ACATGGTCTTACACTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCC-AGACATGGTCTTACACTGACTATCATCTC-AAGTCG
* * ** *
20599185 ATG-CATGTCCCAGACAT-GTCATACACTCACCCTCGTCTCAA-TGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGT-C-G
**
20599231 ATGCCATGTCCTGGACATGGTCTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
20599257 GCTAGCTCTC
Statistics
Matches: 99, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 24 0.24
47 59 0.60
48 14 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGTCG
Done.