Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 69 of 325
Found at i:24343344 original size:96 final size:96
Alignment explanation
Indices: 24342799--24343503 Score: 871
Period size: 96 Copynumber: 7.1 Consensus size: 96
24342789 ACCTCCTCCA
* * *
24342799 CCACCCCCGCCATCACCACCTAAGCACCCTTACAAGTACAAGTCTCCACCACCCCCACCATCACC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT---CCACCCCCACCATCACC
*
24342864 ACCCAAGCATCCCTATAAGTACAAGTCTCCACCTCCACC
63 ACCCAAGCATCCCTACAAGTACAAGTCTCCA----C-CC
* * *
24342903 TCCACCTCCACCATCACCACCCAAGCACCCTTACACGTACAAGTCTCCACCAACCCCACCATCAC
1 -CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA-C--CCCCACCATCAC
* * *
24342968 CACCCAAGCACCCCTACAAGTACAAGTCTCCTCCA
62 CACCCAAGCATCCCTACAAGTACAAGTCTCCACCC
* *
24343003 CCACCTCCACCATCACCACCCAAGCACCCCTACAAGTATAAGTCTCCACCACCCCCACCATCACC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT---CCACCCCCACCATCACC
*
24343068 ACCCAAGCATCCTTACAAGTACAAGTCTCCA---
63 ACCCAAGCATCCCTACAAGTACAAGTCTCCACCC
*
24343099 CCACCACCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCCCCACCATCACC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAG--T-CTCCACCCCCACCATCACC
* *
24343164 ACCCAAGCATCCTTACAAGTACAAGTCTCCACCA
63 ACCCAAGCATCCCTACAAGTACAAGTCTCCACCC
*
24343198 CCACCTCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCCCCACCATCACCACC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCCCCACCATCACCACC
24343263 CAAGCATCCCTACAAGTACAAGTCTCCACCC
66 CAAGCATCCCTACAAGTACAAGTCTCCACCC
* * *
24343294 CCACCCCCACCCTCACCACCCAAGCACCCGTACAAGTACAAGTCTCCACCCCCGCCCCCACCCTC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA------CCCCCACCATC
* *
24343359 ACCGCCCAAGCACCCCTACAAGTACAAGTCTCCACCC
60 ACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCC
* *
24343396 CCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCCCCACCCTC
1 CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCCCCA---CCA---TC
24343461 ACCACCCAAGCA-CCCTTACAAGTACAAGTCTCC-CCC
60 ACCACCCAAGCATCCC-TACAAGTACAAGTCTCCACCC
24343497 ACCACCC
1 -CCACCC
24343504 ACTCCAGTCT
Statistics
Matches: 546, Mismatches: 28, Indels: 55
0.87 0.04 0.09
Matches are distributed among these distances:
96 190 0.35
97 1 0.00
98 1 0.00
99 128 0.23
100 1 0.00
101 8 0.01
102 134 0.25
103 1 0.00
105 82 0.15
ACGTcount: A:0.29, C:0.52, G:0.07, T:0.13
Consensus pattern (96 bp):
CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCCCCACCATCACCACC
CAAGCATCCCTACAAGTACAAGTCTCCACCC
Found at i:24346355 original size:44 final size:43
Alignment explanation
Indices: 24346298--24346403 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
24346288 CTTTTTAGGA
*
24346298 AAAAATGCCGCTAAAGACCAGGACCTTTAGC-AGCGCTTTTCCCC
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGA-CGC-TTTCCCC
* * * *
24346342 AAAAACGCCGCTAACGA-CATGATCTTTAGCGATGCTTTCCCC
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTCCCC
* *
24346384 AAAAACGCCACTAAATACCA
1 AAAAACGCCGCTAAAGACCA
24346404 TATATATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 21 0.40
43 15 0.29
44 16 0.31
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAGGACCTTTAGCGACGCTTTCCCC
Found at i:24350558 original size:18 final size:18
Alignment explanation
Indices: 24350535--24350578 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24350525 AGGGATTTTG
* *
24350535 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
24350552 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
24350571 GGGGAAAT
1 GGGGAAAT
24350579 CTGTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:24350986 original size:74 final size:75
Alignment explanation
Indices: 24350708--24351082 Score: 673
Period size: 75 Copynumber: 5.0 Consensus size: 75
24350698 CGCCGTTTTC
24350708 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
24350773 ATTTGTTATA
66 ATTTGTTATA
*
24350783 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
24350848 ATTTGTTATA
66 ATTTGTTATA
24350858 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
24350923 ATTTGTTATA
66 ATTTGTTATA
*** *
24350933 ATAGTGTTTTTTGTGGCGTTTTTT-TTTAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
24350997 ATTTGTTATA
66 ATTTGTTATA
*
24351007 ATAGTGTTTTTTGTGGTG-TTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
*
24351071 ATTTGATATA
66 ATTTGTTATA
24351081 AT
1 AT
24351083 TTGGAAGCCA
Statistics
Matches: 287, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
73 5 0.02
74 110 0.38
75 172 0.60
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (75 bp):
ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
ATTTGTTATA
Found at i:24351418 original size:7 final size:7
Alignment explanation
Indices: 24351410--24351461 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
24351400 AGTTAACTCT
*
24351410 TAAACCT
1 TAAACCA
*
24351417 TAAACCC
1 TAAACCA
24351424 TAAACCA
1 TAAACCA
* * *
24351431 TATATCT
1 TAAACCA
24351438 TAAACCA
1 TAAACCA
24351445 TAAACCA
1 TAAACCA
*
24351452 TAAACTA
1 TAAACCA
24351459 TAA
1 TAA
24351462 TGATAATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:24351712 original size:40 final size:40
Alignment explanation
Indices: 24351618--24351754 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 40
24351608 GTTATATGAC
* * *
24351618 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTGACAAAAACGCCGCTAATGCTCT-GT
* *
24351659 TTTTAGCGGCGTTTTGCCAAAAACACCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTGACAAAAACGCCGCTAATGCTCTGT
* * * * *
24351699 TTTTAGCGACGTTTTTTACTAAAACGCCGCTATTGCTCTGG
1 TTTTAGCGGCG-TTTTGACAAAAACGCCGCTAATGCTCTGT
* *
24351740 TTTTAGTGGTGTTTT
1 TTTTAGCGGCGTTTT
24351755 TGTTAAAACG
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 16 0.20
41 65 0.80
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGACAAAAACGCCGCTAATGCTCTGT
Found at i:24351723 original size:41 final size:39
Alignment explanation
Indices: 24351618--24351785 Score: 147
Period size: 41 Copynumber: 4.1 Consensus size: 39
24351608 GTTATATGAC
* *
24351618 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTTTCAAAA-CGCCGCTAATGCTCT-GT
** *
24351659 TTTTAGCGGCGTTTTGCCAAAAACACCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTTC-AAAACGCCGCTAATGCTCTGT
* * *
24351699 TTTTAGCGACGTTTTTTACTAAAACGCCGCTATTGCTCTGG
1 TTTTAGCGGCGTTTTTT-C-AAAACGCCGCTAATGCTCTGT
* * * * * *
24351740 TTTTAGTGGTGTTTTTGTTAAAACGCTGCTATTGCTATGT
1 TTTTAGCGGCGTTTTT-TCAAAACGCCGCTAATGCTCTGT
24351780 GTTTTA
1 -TTTTA
24351786 CAATTTTTGC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
40 34 0.32
41 67 0.63
42 5 0.05
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTTTCAAAACGCCGCTAATGCTCTGT
Found at i:24351927 original size:30 final size:30
Alignment explanation
Indices: 24351891--24351951 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
24351881 AAGAGGTAGG
24351891 TGTAGTATTACTTTTAAGTGTAAGGAATAT
1 TGTAGTATTACTTTTAAGTGTAAGGAATAT
24351921 TGTAGTATTACTTTTAAGTGTAAGGAATAT
1 TGTAGTATTACTTTTAAGTGTAAGGAATAT
24351951 T
1 T
24351952 TACATTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (30 bp):
TGTAGTATTACTTTTAAGTGTAAGGAATAT
Found at i:24373034 original size:29 final size:29
Alignment explanation
Indices: 24372954--24373072 Score: 103
Period size: 29 Copynumber: 4.1 Consensus size: 29
24372944 TTACTAGTCA
* *
24372954 GGTCTCCATACTCATTAACAACCTGGTCG
1 GGTCACCATACTCATCAACAACCTGGTCG
* * * * * *
24372983 GATCGCCATACTCATTAAAAATCTGGTTG
1 GGTCACCATACTCATCAACAACCTGGTCG
* * * *
24373012 GGTCACCATACTCGTCAACAATCTAGTCA
1 GGTCACCATACTCATCAACAACCTGGTCG
* * *
24373041 GGTCACCACACCCGTCAACAACCTGGTCG
1 GGTCACCATACTCATCAACAACCTGGTCG
24373070 GGT
1 GGT
24373073 TGCAATACCC
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (29 bp):
GGTCACCATACTCATCAACAACCTGGTCG
Found at i:24375996 original size:16 final size:16
Alignment explanation
Indices: 24375975--24376010 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
24375965 AGTTAAACCA
24375975 TTAA-TTTTCAATGGAT
1 TTAATTTTTCAAT-GAT
24375991 TTAATTTTTCAATGAT
1 TTAATTTTTCAATGAT
24376007 TTAA
1 TTAA
24376011 CAAAAAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (16 bp):
TTAATTTTTCAATGAT
Found at i:24383019 original size:14 final size:14
Alignment explanation
Indices: 24383000--24383035 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
24382990 CATATCCCAG
24383000 AAGAAATGTAATTC
1 AAGAAATGTAATTC
24383014 AAGAAATGTAATTC
1 AAGAAATGTAATTC
24383028 AAGAAATG
1 AAGAAATG
24383036 CAGTTACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (14 bp):
AAGAAATGTAATTC
Found at i:24387466 original size:18 final size:19
Alignment explanation
Indices: 24387433--24387472 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
24387423 TATTATTTTT
24387433 TATATCTTATAAATAATAA
1 TATATCTTATAAATAATAA
24387452 TATATCTTA-AAATAATAA
1 TATATCTTATAAATAATAA
24387470 TAT
1 TAT
24387473 TTAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATCTTATAAATAATAA
Found at i:24396925 original size:18 final size:18
Alignment explanation
Indices: 24396902--24396958 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
24396892 TTGTTTATTT
24396902 TTATTCAATAACAATCAG
1 TTATTCAATAACAATCAG
* * *
24396920 TTATTCAGTATCAAACA-
1 TTATTCAATAACAATCAG
24396937 --A-TCAATAACAATCAG
1 TTATTCAATAACAATCAG
24396952 TTATTCA
1 TTATTCA
24396959 GTCCAGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
17 1 0.03
18 17 0.59
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (18 bp):
TTATTCAATAACAATCAG
Found at i:24398076 original size:13 final size:13
Alignment explanation
Indices: 24398058--24398083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24398048 CCTGTTTCTA
24398058 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
24398071 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
24398084 ATTACTTTAT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:24401784 original size:21 final size:22
Alignment explanation
Indices: 24401758--24401801 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24401748 AAAAAAATAT
*
24401758 TAATTTTTTATA-CTTTTAAAA
1 TAATTTTATATATCTTTTAAAA
*
24401779 TAATTTTATATATTTTTTAAAA
1 TAATTTTATATATCTTTTAAAA
24401801 T
1 T
24401802 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTTATATATCTTTTAAAA
Found at i:24403637 original size:22 final size:21
Alignment explanation
Indices: 24403612--24403653 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24403602 AAAAAAAAAT
*
24403612 TATAAAAAAATTCTAAAAATTG
1 TATAAAAAAAGT-TAAAAATTG
*
24403634 TATAAAGAAAGTTAAAAATT
1 TATAAAAAAAGTTAAAAATT
24403654 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (21 bp):
TATAAAAAAAGTTAAAAATTG
Found at i:24410351 original size:15 final size:16
Alignment explanation
Indices: 24410325--24410354 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24410315 TTTGTCCGGG
24410325 CTAAAAAGCTCAACAT
1 CTAAAAAGCTCAACAT
24410341 CTAAAAA-CTCAACA
1 CTAAAAAGCTCAACA
24410355 GCCCAAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (16 bp):
CTAAAAAGCTCAACAT
Found at i:24410473 original size:13 final size:12
Alignment explanation
Indices: 24410454--24410501 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 12
24410444 TTACTCCAAC
24410454 CACCCCACTAAA
1 CACCCCACTAAA
* *
24410466 CAACCC-C-AAC
1 CACCCCACTAAA
24410476 CACCCCACTAAA
1 CACCCCACTAAA
24410488 TCACCCCACTAAA
1 -CACCCCACTAAA
24410501 C
1 C
24410502 CATCTCAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
10 7 0.24
11 2 0.07
12 8 0.28
13 12 0.41
ACGTcount: A:0.40, C:0.52, G:0.00, T:0.08
Consensus pattern (12 bp):
CACCCCACTAAA
Found at i:24410477 original size:22 final size:22
Alignment explanation
Indices: 24410449--24410495 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
24410439 TATCTTTACT
24410449 CCAACCACCCCACTAAA-CAACC
1 CCAACCACCCCACTAAATC-ACC
24410471 CCAACCACCCCACTAAATCACC
1 CCAACCACCCCACTAAATCACC
24410493 CCA
1 CCA
24410496 CTAAACCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.55, G:0.00, T:0.06
Consensus pattern (22 bp):
CCAACCACCCCACTAAATCACC
Found at i:24410940 original size:19 final size:18
Alignment explanation
Indices: 24410903--24410944 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
24410893 GGGGAAAGTG
*
24410903 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
24410921 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
24410940 TTATT
1 TTATT
24410945 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:24411003 original size:33 final size:39
Alignment explanation
Indices: 24410929--24411010 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
24410919 TATTATTTTC
*
24410929 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
24410968 TATTACTATTA-TATTA-TAATA-CA-T-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
24411001 TATTACTATT
1 TATTACTATT
24411011 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:24421209 original size:38 final size:38
Alignment explanation
Indices: 24421122--24421446 Score: 382
Period size: 38 Copynumber: 8.4 Consensus size: 38
24421112 AAACCCAAAC
* * * * *
24421122 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* *
24421162 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
24421200 ATAATACCAGTACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
24421238 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
24421276 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
* *
24421316 ATATTACCAGCACAAAGCCTGTGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
24421354 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
24421392 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
*
24421432 ACAAT-CTCAGCACAA
1 ATAATAC-CAGCACAA
24421447 TTTATTTTAT
Statistics
Matches: 248, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
38 163 0.66
39 19 0.08
40 66 0.27
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:24421317 original size:116 final size:116
Alignment explanation
Indices: 24421127--24421446 Score: 468
Period size: 116 Copynumber: 2.8 Consensus size: 116
24421117 CAAACATAAC
* * * * * * *
24421127 ACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTA-GGCCTGCGGG-ATT
1 ACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTT
* *
24421190 TAA-CCCGGATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGGATATATT
63 TAAGCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
24421243 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
* *
24421308 GCCCGGATATATTACCAGCACAAAGCCTGTGGGATTTAACCCGGATATATT
66 GCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
24421359 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
*
24421424 GCCCGGATACAAT-CTCAGCACAA
66 GCCCGGATATAATAC-CAGCACAA
24421447 TTTATTTTAT
Statistics
Matches: 187, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
113 2 0.01
114 27 0.14
115 9 0.05
116 149 0.80
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (116 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
GCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:24425388 original size:206 final size:206
Alignment explanation
Indices: 24425030--24425907 Score: 1506
Period size: 206 Copynumber: 4.3 Consensus size: 206
24425020 GATCTGGCTA
* *
24425030 AAGC-AGATCCAATATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
24425094 TTGGCTTTCGCGTGCTTAAGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
24425159 ACAAGTCGAAGTCTGGTATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
24425224 TGTTTATACTG
196 TGTTTATACTG
24425235 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
24425300 TTGCCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
24425365 ACAAGTCGAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATTTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
24425430 TGTTTATACTG
196 TGTTTATACTG
* * *
24425441 AAGCAATATCTAAGATGATTTGACATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * *
24425506 TTGGCTTTCGTGTGCTTACGTTAAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
24425571 ACAAGTCGAAGTCTAGCATCTCCATTTCGACGGATAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
24425636 TGTTTATACTG
196 TGTTTATACTG
* *
24425647 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATTGAAGATATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* *
24425712 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATTTCTGTATTGTTAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
24425777 ACAAGTCGAAGTCTGGCATCTCCATTCCGACAGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
24425842 TGTTTATACCG
196 TGTTTATACTG
** *
24425853 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAATAAACAAATCGAAGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
24425908 AGCAGATTTG
Statistics
Matches: 633, Mismatches: 39, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
205 4 0.01
206 629 0.99
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:24426304 original size:15 final size:16
Alignment explanation
Indices: 24426278--24426307 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24426268 TTTGCCCGGG
24426278 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
24426294 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
24426308 GCCCAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:24426401 original size:13 final size:13
Alignment explanation
Indices: 24426383--24426418 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
24426373 TCTTTACTCC
24426383 AACCACCCCACTA
1 AACCACCCCACTA
24426396 AACCACCCCACTA
1 AACCACCCCACTA
*
24426409 AACCATCCCA
1 AACCACCCCA
24426419 ACCACTCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.53, G:0.00, T:0.08
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:24426532 original size:16 final size:15
Alignment explanation
Indices: 24426501--24426538 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
24426491 AGGGATTTTT
24426501 TTTTTGG-AAGGGAG
1 TTTTTGGAAAGGGAG
*
24426515 TTTTTGGAAAGGCTAG
1 TTTTTGGAAAGG-GAG
24426531 TTTTTGGA
1 TTTTTGGA
24426539 GATTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.42
Consensus pattern (15 bp):
TTTTTGGAAAGGGAG
Found at i:24426909 original size:33 final size:39
Alignment explanation
Indices: 24426830--24426916 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 39
24426820 TTTAATATTG
*
24426830 TTATTATTTTCTATTATTATTACTAATACCACTATTATCA
1 TTATTA-TTACTATTATTATTACTAATACCACTATTATCA
*
24426870 TCATTATTACTATTA-TATTA-TAATA-C-CT-TT-TCA
1 TTATTATTACTATTATTATTACTAATACCACTATTATCA
24426903 TTATTATTACTATT
1 TTATTATTACTATT
24426917 GTGTTTTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 16 0.36
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.11
38 5 0.11
39 8 0.18
40 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (39 bp):
TTATTATTACTATTATTATTACTAATACCACTATTATCA
Found at i:24429111 original size:17 final size:17
Alignment explanation
Indices: 24429089--24429121 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24429079 TAAAAGCTTT
24429089 TGACTAAAATCAAAATG
1 TGACTAAAATCAAAATG
24429106 TGACTAAAATCAAAAT
1 TGACTAAAATCAAAAT
24429122 AATAGTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
TGACTAAAATCAAAATG
Found at i:24438356 original size:44 final size:44
Alignment explanation
Indices: 24438275--24438365 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
24438265 AATTCTGTTT
* * * *
24438275 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
** *
24438319 TTAGTTTTGCACTTAAAATTTGATCAGTGGAGATTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
24438363 TTA
1 TTA
24438366 TTTGACGTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
Found at i:24439118 original size:21 final size:20
Alignment explanation
Indices: 24439096--24439133 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24439086 GCATAGTATA
24439096 AAAAAATAATTTTAAAATAT
1 AAAAAATAATTTTAAAATAT
* *
24439116 AAAATATTATTTTAAAAT
1 AAAAAATAATTTTAAAAT
24439134 TTATTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAAATAATTTTAAAATAT
Found at i:24457430 original size:3 final size:3
Alignment explanation
Indices: 24457422--24457450 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24457412 GTTTTAATAT
24457422 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24457451 CTGTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24463360 original size:28 final size:27
Alignment explanation
Indices: 24463329--24463383 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
24463319 AATATGTAGT
*
24463329 AAAATTATATTTTAA-TTTTAAAATAATA
1 AAAATT-TAATTTAATTTTTAAAA-AATA
24463357 AAAATTTAATTTAATTTTTAAAAAATA
1 AAAATTTAATTTAATTTTTAAAAAATA
24463384 TAAAGATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATTTAATTTAATTTTTAAAAAATA
Found at i:24466716 original size:25 final size:24
Alignment explanation
Indices: 24466684--24466731 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24466674 TGTTAAATAA
24466684 GTTAAATATGCGGTTTTTTTAATTG
1 GTTAAATATG-GGTTTTTTTAATTG
**
24466709 GTTAAATATGTTTTTTTTTAATT
1 GTTAAATATGGGTTTTTTTAATT
24466732 TAAGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (24 bp):
GTTAAATATGGGTTTTTTTAATTG
Found at i:24467734 original size:28 final size:30
Alignment explanation
Indices: 24467688--24467745 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
24467678 AACTTTTAAA
*
24467688 TTATTTTCACTATCGT-AAATATGAAAATT
1 TTATTTTCACTATCATAAAATATGAAAATT
* *
24467717 TTATTTTTA-TATCATAAAATATTAAAATT
1 TTATTTTCACTATCATAAAATATGAAAATT
24467746 AATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (30 bp):
TTATTTTCACTATCATAAAATATGAAAATT
Found at i:24471325 original size:6 final size:6
Alignment explanation
Indices: 24471316--24471343 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24471306 CGGCAATGAC
24471316 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
24471344 GGGGTGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:24474841 original size:3 final size:3
Alignment explanation
Indices: 24474833--24474872 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
24474823 AGTATCCCCA
24474833 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
24474873 GGATGTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24477156 original size:3 final size:3
Alignment explanation
Indices: 24477148--24477172 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24477138 ACCAAAATAT
24477148 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
24477173 GAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24478099 original size:19 final size:20
Alignment explanation
Indices: 24478075--24478116 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
24478065 TTAACGAAAA
24478075 TTTTTAAATATTTAAA-ATT
1 TTTTTAAATATTTAAAGATT
* *
24478094 TTTTTATATTTTTAAAGATT
1 TTTTTAAATATTTAAAGATT
24478114 TTT
1 TTT
24478117 GTAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTAAATATTTAAAGATT
Found at i:24478123 original size:19 final size:19
Alignment explanation
Indices: 24478085--24478149 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
24478075 TTTTTAAATA
*
24478085 TTTAAA-ATTTTTTTATATT
1 TTTAAAGATTTTTGTA-ATT
24478104 TTTAAAGATTTTTGTAATT
1 TTTAAAGATTTTTGTAATT
* * *
24478123 TTTATGAAGTTTTTTGAAAAT
1 TTTA--AAGATTTTTGTAATT
24478144 TTTAAA
1 TTTAAA
24478150 ATAATATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 15 0.38
20 8 0.21
21 16 0.41
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAAAGATTTTTGTAATT
Found at i:24478136 original size:21 final size:19
Alignment explanation
Indices: 24478085--24478149 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
24478075 TTTTTAAATA
*
24478085 TTTAAAATTTTTT-TATATT
1 TTTAAAGTTTTTTGTA-ATT
*
24478104 TTTAAAGATTTTTGTAATT
1 TTTAAAGTTTTTTGTAATT
* *
24478123 TTTATGAAGTTTTTTGAAAAT
1 TTTA--AAGTTTTTTGTAATT
24478144 TTTAAA
1 TTTAAA
24478150 ATAATATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 20 0.53
20 2 0.05
21 16 0.42
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAAAGTTTTTTGTAATT
Found at i:24479892 original size:15 final size:17
Alignment explanation
Indices: 24479872--24479903 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
24479862 ATTTCATGTA
24479872 TTATTTT-T-TAAAAAT
1 TTATTTTATATAAAAAT
24479887 TTATTTTATATAAAAAT
1 TTATTTTATATAAAAAT
24479904 AATCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTTTATATAAAAAT
Found at i:24480356 original size:7 final size:7
Alignment explanation
Indices: 24480346--24480371 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24480336 TAAAATTTTA
24480346 AAAATTC
1 AAAATTC
24480353 AAAATTC
1 AAAATTC
24480360 AAAATTC
1 AAAATTC
24480367 AAAAT
1 AAAAT
24480372 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:24482587 original size:26 final size:26
Alignment explanation
Indices: 24482549--24482601 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
24482539 TCGAACCATG
* *
24482549 AACCTTAACCCTAAACTTCAACTCAA
1 AACCTTAACCCTAAACCTAAACTCAA
24482575 AACCTTGAA-CCTAAACCTAAACTCAA
1 AACCTT-AACCCTAAACCTAAACTCAA
24482601 A
1 A
24482602 CTTGTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (26 bp):
AACCTTAACCCTAAACCTAAACTCAA
Found at i:24489428 original size:16 final size:16
Alignment explanation
Indices: 24489407--24489445 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
24489397 AGATTCGACT
24489407 CATTTAATTTATGAAC
1 CATTTAATTTATGAAC
*
24489423 CATTTAATTTATGAAT
1 CATTTAATTTATGAAC
24489439 CATTTAA
1 CATTTAA
24489446 CTCTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (16 bp):
CATTTAATTTATGAAC
Found at i:24489865 original size:14 final size:14
Alignment explanation
Indices: 24489848--24489884 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
24489838 GAAAAAAAAG
*
24489848 AGCAAAAAAATTCC
1 AGCAAAAAAAATCC
24489862 AGCAAAAAAAATCC
1 AGCAAAAAAAATCC
24489876 A--AAAAAAAA
1 AGCAAAAAAAA
24489885 AACATTAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
14 14 0.64
ACGTcount: A:0.70, C:0.16, G:0.05, T:0.08
Consensus pattern (14 bp):
AGCAAAAAAAATCC
Found at i:24490121 original size:20 final size:21
Alignment explanation
Indices: 24490096--24490138 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
24490086 TGTTTTCATA
*
24490096 TTTTCTTTCCTT-GGTTTTTT
1 TTTTCTTTCCTTAGATTTTTT
*
24490116 TTTTCTTTCTTTAGATTTTTT
1 TTTTCTTTCCTTAGATTTTTT
24490137 TT
1 TT
24490139 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (21 bp):
TTTTCTTTCCTTAGATTTTTT
Found at i:24493416 original size:23 final size:23
Alignment explanation
Indices: 24493390--24493435 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24493380 TTGCATTTTA
24493390 CACAATTTAATCAATTCATTATT
1 CACAATTTAATCAATTCATTATT
*
24493413 CACAATTTAATCAATTTATTATT
1 CACAATTTAATCAATTCATTATT
24493436 ATTCAACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (23 bp):
CACAATTTAATCAATTCATTATT
Found at i:24498259 original size:44 final size:44
Alignment explanation
Indices: 24498201--24498612 Score: 219
Period size: 44 Copynumber: 9.4 Consensus size: 44
24498191 TAAGCAGCAG
* * * *
24498201 TGGAGCAGGTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAG
1 TGGAGTAGATCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAT
* ** * * **
24498245 CGGAGTAGATCGAAGTTACAAATCTCT-TCTACC-TGAAATGACAT
1 TGGAGTAGATCGAAGCCACAATTCT-TATCT-CCTTGAAGTTTCAT
** * * *
24498289 TGGAGCGGTTCGAAGCCACAATTCTTATCTACTTGAAGTTTCAG
1 TGGAGTAGATCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAT
* * * * **
24498333 TGGAGTAGATCGAAGCTACAAATCTCT-TCTCCCTGAAATGACAT
1 TGGAGTAGATCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAT
* * * * *
24498377 TGGAGCAGCTCGAAGCCACAATTCTTATCACCTTGAAGTTCCAA
1 TGGAGTAGATCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAT
* * * * * * **
24498421 CGGAGTAGATCGAAACTACAAATCTCT-TCTCCCTGAAATGGCAT
1 TGGAGTAGATCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAT
* ** * * * *
24498465 TAGAGCGGCTCGAAGCCACAATTCTTATCTTCTTGAAGTTCCAA
1 TGGAGTAGATCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAT
* * * * **
24498509 CGGAGTAGATCGAAGCTACAAATCTCTT-T-TCCCTGAAATGGCAT
1 TGGAGTAGATCGAAGCCAC-AAT-TCTTATCTCCTTGAAGTTTCAT
* * * *
24498553 TGGAG-ATGTTCGAAGCCAGAACTCTTATCTCCTTGAAG-TTCTAG
1 TGGAGTA-GATCGAAGCCACAATTCTTATCTCCTTGAAGTTTC-AT
*
24498597 TAGAGTAGATCGAAGC
1 TGGAGTAGATCGAAGC
24498613 TATAAATCTC
Statistics
Matches: 259, Mismatches: 94, Indels: 30
0.68 0.25 0.08
Matches are distributed among these distances:
42 4 0.02
43 9 0.03
44 232 0.90
45 10 0.04
46 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TGGAGTAGATCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAT
Found at i:24498294 original size:88 final size:88
Alignment explanation
Indices: 24498201--24498679 Score: 619
Period size: 88 Copynumber: 5.5 Consensus size: 88
24498191 TAAGCAGCAG
* *
24498201 TGGAGCAGGTCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGTTACAA
1 TGGAGCAGGTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAA
*
24498266 ATCTCTTCTACCTGAAATGACAT
66 ATCTCTTCTCCCTGAAATGACAT
* *
24498289 TGGAGC-GGTTCGAAGCCACAATTCTTATCTACTTGAAGTTTCAGTGGAGTAGATCGAAGCTACA
1 TGGAGCAGG-TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
24498353 AATCTCTTCTCCCTGAAATGACAT
65 AATCTCTTCTCCCTGAAATGACAT
* * * * *
24498377 TGGAGCAGCTCGAAGCCACAATTCTTATCACCTTGAAGTTCCAACGGAGTAGATCGAAACTACAA
1 TGGAGCAGGTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAA
*
24498442 ATCTCTTCTCCCTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGACAT
* * * *
24498465 TAGAGC-GGCTCGAAGCCACAATTCTTATCTTCTTGAAGTTCCAACGGAGTAGATCGAAGCTACA
1 TGGAGCAGG-TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACA
* *
24498529 AATCTCTTTTCCCTGAAATGGCAT
65 AATCTCTTCTCCCTGAAATGACAT
* * * ** *
24498553 TGGAG-ATGTTCGAAGCCAGAACTCTTATCTCCTTGAAG-TTCTAGTAGAGTAGATCGAAGCTAT
1 TGGAGCA-GGTCGAAGCCACAATTCTTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAAGCTAC
*
24498616 AAATCTCTTATCCCTGAAATGACAT
64 AAATCTCTTCTCCCTGAAATGACAT
* * * *
24498641 TGGAGC-GATTGAAGACACCAA-TCTTATCTCCCTGAAGTT
1 TGGAGCAGGTCGAAGCCA-CAATTCTTATCTCCTTGAAGTT
24498680 GTAGTGGGGC
Statistics
Matches: 346, Mismatches: 36, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
87 28 0.08
88 316 0.91
89 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (88 bp):
TGGAGCAGGTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAA
ATCTCTTCTCCCTGAAATGACAT
Found at i:24498781 original size:44 final size:43
Alignment explanation
Indices: 24498714--24498945 Score: 159
Period size: 44 Copynumber: 5.3 Consensus size: 43
24498704 AATCACAAAC
* *
24498714 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-T
* * *
24498758 CTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGAAGATTGCCAAT
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG-TT-ACAAT
* ** * *
24498803 CTTATC-TCTCTGAAGTTGCAGTAGG-GCAGATGGAAGCCATTAAC
1 CTTATCTTC-CTGAAGTTGCAGT-GGAGCAGATTGAAGTTA-CAAT
* * ** * *
24498847 CTTATC-TCTCTGAAGTTGTAGTAGAATAGGTTGAAATTACAAGT
1 CTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-T
** *
24498891 CTTATCCCCCTGAAGTTGCAGTGG-GACAGATTGAAGATAGCAAAT
1 CTTATCTTCCTGAAGTTGCAGTGGAG-CAGATTGAAGTTA-C-AAT
24498936 CTTAT-TTCCT
1 CTTATCTTCCT
24498946 TAAAGTTGTA
Statistics
Matches: 143, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
43 3 0.02
44 95 0.66
45 38 0.27
46 7 0.05
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAT
Found at i:24498940 original size:89 final size:89
Alignment explanation
Indices: 24498714--24498965 Score: 221
Period size: 89 Copynumber: 2.8 Consensus size: 89
24498704 AATCACAAAC
* * *
24498714 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGGTTGAAGTTACAAGTCTTATCT-TCCTGAAGTTGT
1 CTTATCTCCCTGAAGTTGCAGTGGGA-CAGATTGAAGATACAAATCTTATCTCT-CTGAAGTTGT
* * *
24498777 AGTGGAGCAGACTGAAGATTGCCAAT
64 AGTAGAACAGACTGAAGATTGACAAT
* * ** ** *
24498803 CTTATCTCTCTGAAGTTGCAGTAGGG-CAGATGGAAGCCATTAACCTTATCTCTCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGT-GGGACAGATTGAAGATACAAATCTTATCTCTCTGAAGTTGTA
* **
24498867 GTAGAATAGGTTGAA-ATT-ACAAGT
65 GTAGAACAGACTGAAGATTGACAA-T
* * *
24498891 CTTATCCCCCTGAAGTTGCAGTGGGACAGATTGAAGATAGCAAATCTTATTTC-CTTAAAGTTGT
1 CTTATCTCCCTGAAGTTGCAGTGGGACAGATTGAAGATA-CAAATCTTATCTCTC-TGAAGTTGT
24498955 AGT-GTAACAGA
64 AGTAG-AACAGA
24498966 TTAAAGCTAC
Statistics
Matches: 128, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
87 6 0.05
88 36 0.28
89 83 0.65
90 1 0.01
91 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGGACAGATTGAAGATACAAATCTTATCTCTCTGAAGTTGTAG
TAGAACAGACTGAAGATTGACAAT
Found at i:24498952 original size:133 final size:133
Alignment explanation
Indices: 24498711--24498953 Score: 328
Period size: 133 Copynumber: 1.8 Consensus size: 133
24498701 ACAAATCACA
* * * **
24498711 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTTCCTGAAGTTG
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTG
* * * *
24498776 TAGTGGAGCAGACTGAAGATTGCCAATCTTATCTCTCTGAAGTTGCAGTAGGGCAGATGGAAGCC
66 CAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGGGCAGATGGAAGCC
24498841 ATT
131 ATT
* * *
24498844 AACCTTATCTCTCTGAAGTTGTAGTAGAATAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTG
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTG
* *
24498909 CAGTGG-GACAGATTGAAGATAGCAAATCTTATTTC-CTTAAAGTTG
66 CAGTGGAG-CAGACTGAAGATAGCAAATCTTATCTCTC-TAAAGTTG
24498954 TAGTGTAACA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
132 2 0.02
133 92 0.98
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (133 bp):
AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTG
CAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGGGCAGATGGAAGCC
ATT
Found at i:24500446 original size:21 final size:21
Alignment explanation
Indices: 24500404--24500446 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24500394 CCAACAGCTA
* *
24500404 ACCATTATCAAGCATTTACAT
1 ACCATTATCAACCATATACAT
24500425 ACCATTCATCAACCATAT-CAT
1 ACCATT-ATCAACCATATACAT
24500446 A
1 A
24500447 AGATCATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (21 bp):
ACCATTATCAACCATATACAT
Found at i:24500761 original size:16 final size:16
Alignment explanation
Indices: 24500742--24500772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24500732 CTTCTTCACT
24500742 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24500758 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24500773 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24500778 original size:20 final size:20
Alignment explanation
Indices: 24500739--24500778 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24500729 AAACTTCTTC
* *
24500739 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24500759 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24500779 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24500886 original size:23 final size:24
Alignment explanation
Indices: 24500851--24500895 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
24500841 TTTGCTCTTC
24500851 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTTGTCTTACCTTTT
24500875 TAGCAT-AACTTGTCTTACCTT
1 TAGCATGAACTTGTCTTACCTT
24500896 ACCTTACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTTGTCTTACCTTTT
Found at i:24501150 original size:55 final size:53
Alignment explanation
Indices: 24501023--24501155 Score: 187
Period size: 55 Copynumber: 2.5 Consensus size: 53
24501013 CTTACCCTTT
*
24501023 CCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATGAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCATCAATG
* * * *
24501076 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G-AACTCATCAATG
24501131 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
24501156 ATTTCCTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.03
53 33 0.47
54 1 0.01
55 34 0.49
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCATCAATG
Found at i:24501188 original size:55 final size:51
Alignment explanation
Indices: 24501023--24501218 Score: 178
Period size: 55 Copynumber: 3.6 Consensus size: 51
24501013 CTTACCCTTT
* * *
24501023 CCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATGAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACAT-GTATCCTTTCCTTA-GAACTTATCAATG
* *
24501076 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACAT-GTATCCTTT-CC-T-TAG-AACTTATCAATG
* * * *
24501131 CCATGTCTTGACATGGTCTTACATGATTTCCTTTTCTTAGAAACCTTACCAATTG
1 CCATGCCTTGACATGGTCTTACATG-TATCCTTTCCTTAG-AA-CTTATCAA-TG
* *
24501186 CCATGCCTTGGCATAGTCTTACATGGTATCCTT
1 CCATGCCTTGACATGGTCTTACAT-GTATCCTT
24501219 AAACCTTAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 11 0.09
55 65 0.55
56 6 0.05
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (51 bp):
CCATGCCTTGACATGGTCTTACATGTATCCTTTCCTTAGAACTTATCAATG
Found at i:24502975 original size:16 final size:16
Alignment explanation
Indices: 24502956--24502998 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
24502946 TTGGATCTTG
*
24502956 TTTCTTTTTTTTTTAT
1 TTTCTTTTTTATTTAT
*
24502972 TTTCCTCTTTTATTTAT
1 TTT-CTTTTTTATTTAT
24502989 TTTCTATTTT
1 TTTCT-TTTT
24502999 CAAATCTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTTATTTAT
Found at i:24504177 original size:26 final size:27
Alignment explanation
Indices: 24504093--24504179 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 27
24504083 TTAATTTGTG
* *
24504093 TATTA-TTTATTT-TAATTTATTTAACA
1 TATTATTTTATTTCAAATTTATTT-ATA
*
24504119 TATTA-TTTATTTGAAATTTACTTTATA
1 TATTATTTTATTTCAAATTTA-TTTATA
24504146 TATTATTTTATTTCAAATTT-TTTATA
1 TATTATTTTATTTCAAATTTATTTATA
*
24504172 TTTTATTT
1 TATTATTT
24504180 ATGTTAAATC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
26 25 0.46
27 13 0.24
28 16 0.30
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TATTATTTTATTTCAAATTTATTTATA
Found at i:24505521 original size:26 final size:26
Alignment explanation
Indices: 24505492--24505547 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
24505482 TTCATATTAT
*
24505492 GAATCTTTA-TCAAATAAAGAAAATGA
1 GAATCTATATTCAAA-AAAGAAAATGA
*
24505518 GAAT-TATATTCAAAAAAGAAAGTGA
1 GAATCTATATTCAAAAAAGAAAATGA
24505543 GAATC
1 GAATC
24505548 AAATCAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (26 bp):
GAATCTATATTCAAAAAAGAAAATGA
Found at i:24505559 original size:25 final size:25
Alignment explanation
Indices: 24505500--24505559 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
24505490 ATGAATCTTT
*
24505500 ATCAAATAAAGAAAATGAGAATTATA
1 ATCAAA-AAAGAAAATGAGAATCATA
* *
24505526 TTCAAAAAAGAAAGTGAGAATCA-A
1 ATCAAAAAAGAAAATGAGAATCATA
24505550 ATCAACAAAA
1 ATCAA-AAAA
24505560 TTAAAAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 19 0.66
26 5 0.17
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.18
Consensus pattern (25 bp):
ATCAAAAAAGAAAATGAGAATCATA
Found at i:24507047 original size:20 final size:20
Alignment explanation
Indices: 24507022--24507059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24507012 TATTATATAA
* *
24507022 AATATATTTTTTATATTAGC
1 AATATAATTTTTAAATTAGC
24507042 AATATAATTTTTAAATTA
1 AATATAATTTTTAAATTA
24507060 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AATATAATTTTTAAATTAGC
Found at i:24507779 original size:43 final size:43
Alignment explanation
Indices: 24507732--24507817 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
24507722 TTGTCGGTGG
24507732 ATGACCTATTTTACCACAATGCTGATAAGGTGGGTATTTTTTT
1 ATGACCTATTTTACCACAATGCTGATAAGGTGGGTATTTTTTT
24507775 ATGACCTATTTTACCACAATGCTGATAAGGTGGGTATTTTTTT
1 ATGACCTATTTTACCACAATGCTGATAAGGTGGGTATTTTTTT
24507818 TTCTTTGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (43 bp):
ATGACCTATTTTACCACAATGCTGATAAGGTGGGTATTTTTTT
Found at i:24523083 original size:46 final size:46
Alignment explanation
Indices: 24523029--24523295 Score: 356
Period size: 46 Copynumber: 5.8 Consensus size: 46
24523019 TTCTGATAGA
* *
24523029 AAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
24523075 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
24523121 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* **
24523167 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC-ATG
** * *
24523214 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
24523259 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
24523296 TCATGTCGAA
Statistics
Matches: 202, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 161 0.80
47 40 0.20
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:24524875 original size:21 final size:20
Alignment explanation
Indices: 24524849--24524887 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
24524839 TTCTAATACG
24524849 TATATATATATATATGTATTT
1 TATATATATAT-TATGTATTT
24524870 TATATATATATTATGTAT
1 TATATATATATTATGTAT
24524888 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATATATTATGTATTT
Found at i:24524883 original size:11 final size:11
Alignment explanation
Indices: 24524849--24524892 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
24524839 TTCTAATACG
24524849 TATATATATA-
1 TATATATATAT
* *
24524859 TATATGTATTT
1 TATATATATAT
24524870 TATATATATAT
1 TATATATATAT
*
24524881 TATGTATATAT
1 TATATATATAT
24524892 T
1 T
24524893 TTTTAATGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATATAT
Found at i:24524890 original size:17 final size:17
Alignment explanation
Indices: 24524851--24524891 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
24524841 CTAATACGTA
24524851 TATATATATATATGTAT
1 TATATATATATATGTAT
*
24524868 TTTATATATATAT-TAT
1 TATATATATATATGTAT
24524884 GTATATAT
1 -TATATAT
24524892 TTTTTAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TATATATATATATGTAT
Found at i:24524998 original size:16 final size:16
Alignment explanation
Indices: 24524966--24524997 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
24524956 TATATATTCT
24524966 TAAATATTATTATATA
1 TAAATATTATTATATA
24524982 TAAATA-TA-TATATA
1 TAAATATTATTATATA
24524996 TA
1 TA
24524998 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATTATTATATA
Found at i:24525007 original size:20 final size:18
Alignment explanation
Indices: 24524956--24525004 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
24524946 TCATCTTATG
24524956 TATATATTCTTAAATATTA
1 TATATATT-TTAAATATTA
*
24524975 T-TATA-TATAAATATATA
1 TATATATTTTAAATAT-TA
24524992 TATATATTTTAAA
1 TATATATTTTAAA
24525005 ATACCATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 7 0.28
17 4 0.16
18 8 0.32
19 6 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATATTTTAAATATTA
Found at i:24526669 original size:16 final size:15
Alignment explanation
Indices: 24526643--24526677 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
24526633 TGATGTGAAT
24526643 AATATAAAATATTAA
1 AATATAAAATATTAA
*
24526658 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
24526674 AATA
1 AATA
24526678 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:24526857 original size:20 final size:21
Alignment explanation
Indices: 24526815--24526857 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
24526805 CCTTTTTTAG
* *
24526815 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
24526836 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
24526856 AA
1 AA
24526858 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:24527601 original size:9 final size:9
Alignment explanation
Indices: 24527565--24527606 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
24527555 TTATAACTAA
24527565 TTAATT-AC
1 TTAATTAAC
*
24527573 TTAATTATC
1 TTAATTAAC
24527582 TTAATTAAAC
1 TTAATT-AAC
24527592 TTAATTAAC
1 TTAATTAAC
*
24527601 TAAATT
1 TTAATT
24527607 TAATCATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 6 0.21
9 15 0.52
10 8 0.28
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAATTAAC
Found at i:24527606 original size:19 final size:19
Alignment explanation
Indices: 24527558--24527603 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
24527548 ACTTAGTTTA
24527558 TAACTAATTAATTACTTAAT
1 TAACTAATTAA-TACTTAAT
*
24527578 TATCTTAATTAA-ACTTAAT
1 TAAC-TAATTAATACTTAAT
24527597 TAACTAA
1 TAACTAA
24527604 ATTTAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 3 0.13
21 7 0.30
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
TAACTAATTAATACTTAAT
Found at i:24529058 original size:35 final size:35
Alignment explanation
Indices: 24529016--24529088 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
24529006 TCATAACCTT
24529016 CTTTTTTGTTATGCATTTACCATTTCTGTTCATAA
1 CTTTTTTGTTATGCATTTACCATTTCTGTTCATAA
24529051 CTTTTTTGTTATGCATTTACCATTTCTGTTCATAA
1 CTTTTTTGTTATGCATTTACCATTTCTGTTCATAA
24529086 CTT
1 CTT
24529089 AAGTTTACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.08, T:0.55
Consensus pattern (35 bp):
CTTTTTTGTTATGCATTTACCATTTCTGTTCATAA
Found at i:24530688 original size:22 final size:22
Alignment explanation
Indices: 24530637--24530688 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
24530627 TTACTTTAAA
*
24530637 ATTTAAT--TATAAAAATATGT
1 ATTTAATAATATAAAAATATAT
* * *
24530657 AATTATTAATATAAAATTATAT
1 ATTTAATAATATAAAAATATAT
24530679 ATTTAATAAT
1 ATTTAATAAT
24530689 TATTGATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 5 0.21
22 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTAATAATATAAAAATATAT
Found at i:24531312 original size:23 final size:22
Alignment explanation
Indices: 24531268--24531327 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
24531258 ATAATGATAT
* *
24531268 TATAATATATATTTTTGTATTAA
1 TATAA-ATATAATTTTATATTAA
24531291 TATAAATATAATTTTATAATTAA
1 TATAAATATAATTTTAT-ATTAA
* *
24531314 AATTAA-ATAATTTT
1 TATAAATATAATTTT
24531328 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAAATATAATTTTATATTAA
Found at i:24532063 original size:17 final size:18
Alignment explanation
Indices: 24532033--24532066 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24532023 ATTAATTAGT
24532033 TTGAAATAATTAAAATAA
1 TTGAAATAATTAAAATAA
24532051 TTGAAAT-ATTAAAATA
1 TTGAAATAATTAAAATA
24532067 TATCAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
TTGAAATAATTAAAATAA
Found at i:24532552 original size:14 final size:17
Alignment explanation
Indices: 24532521--24532557 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
24532511 ATTATAAAGG
24532521 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
24532538 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
24532552 ATATTA
1 ATATTA
24532558 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:24532768 original size:17 final size:16
Alignment explanation
Indices: 24532746--24532779 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24532736 AAGTTTAAAT
24532746 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
24532763 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
24532779 A
1 A
24532780 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:24533933 original size:37 final size:39
Alignment explanation
Indices: 24533874--24533969 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
24533864 CGGATAGATT
* * * *
24533874 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
24533911 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
24533950 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
24533970 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:24535808 original size:14 final size:13
Alignment explanation
Indices: 24535781--24535820 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
24535771 TAATTATCTC
24535781 TATTTTATATTTT
1 TATTTTATATTTT
24535794 TATTTTATAATTTT
1 TATTTTAT-ATTTT
*
24535808 TATATTATTATTT
1 TATTTTA-TATTT
24535821 AAGTTCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 15 0.62
15 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTATATTTT
Found at i:24542679 original size:2 final size:2
Alignment explanation
Indices: 24542672--24542700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24542662 TGTACATTGT
24542672 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
24542701 GGAATGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24548097 original size:38 final size:38
Alignment explanation
Indices: 24548047--24548123 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
24548037 AAATATGGTT
*
24548047 TTAATTAATAATAAAACAAAGTGGCATGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGAGTGGGA
24548085 TTAATTAATAATAAAACAAAGTAGCATGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGAGTGGGA
24548123 T
1 T
24548124 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (38 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGAGTGGGA
Found at i:24552081 original size:41 final size:41
Alignment explanation
Indices: 24552031--24552288 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
24552021 AATTCATCAT
* *
24552031 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
24552072 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
24552113 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
24552154 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
24552195 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
24552236 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
24552277 ATTCATATCACC
1 ATTCAGATCACC
24552289 AATTCCAAAC
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:24552174 original size:82 final size:82
Alignment explanation
Indices: 24552037--24552288 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
24552027 TCATATTCGG
24552037 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
24552102 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
24552119 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
24552184 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
24552201 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
24552266 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
24552283 ATCACC
1 ATCACC
24552289 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:24552524 original size:19 final size:19
Alignment explanation
Indices: 24552500--24552536 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24552490 TTGTTCGATC
*
24552500 CACACATATATATATATTA
1 CACACATATACATATATTA
24552519 CACACATATACATATATT
1 CACACATATACATATATT
24552537 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:24567394 original size:18 final size:18
Alignment explanation
Indices: 24567367--24567459 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
24567357 TACGACCGTT
24567367 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
24567385 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
24567403 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
24567421 TATGGAACTATTCACGTA
1 TACGGTACTATTCACGTA
*
24567439 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
24567457 TAC
1 TAC
24567460 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:24572175 original size:16 final size:16
Alignment explanation
Indices: 24572151--24572182 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24572141 ATGGTGCTAC
*
24572151 CGTTTCTCACAATCAA
1 CGTTCCTCACAATCAA
24572167 CGTTCCTCACAATCAA
1 CGTTCCTCACAATCAA
24572183 AACAGTGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.28
Consensus pattern (16 bp):
CGTTCCTCACAATCAA
Found at i:24581650 original size:26 final size:27
Alignment explanation
Indices: 24581621--24581674 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
24581611 TATGTATACC
* * *
24581621 AAATAATAGGTAATAATA-TTAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
24581647 AAATAATAAGTAACAATAGTGAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
24581674 A
1 A
24581675 TAAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATAATAAGTAACAATAGTGAAAATA
Found at i:24581685 original size:12 final size:12
Alignment explanation
Indices: 24581670--24581780 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
24581660 CAATAGTGAA
*
24581670 AATAATAAGTAT
1 AATAATAAATAT
24581682 AATAATAAATAT
1 AATAATAAATAT
*
24581694 AATGAT--ATAT
1 AATAATAAATAT
*
24581704 AAAAATAATATTAT
1 AATAATAA-A-TAT
24581718 ATATAA-AAAGTAT
1 A-ATAATAAA-TAT
* **
24581731 -ATATATACACGT
1 AATA-ATAAATAT
24581743 -ATAATAAA-AT
1 AATAATAAATAT
*
24581753 AATACT-AATATT
1 AATAATAAATA-T
24581765 AATAATAAATAT
1 AATAATAAATAT
24581777 AATA
1 AATA
24581781 GGGGTAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
10 11 0.15
11 12 0.16
12 32 0.43
13 11 0.15
14 6 0.08
15 3 0.04
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:24581709 original size:18 final size:19
Alignment explanation
Indices: 24581683--24581734 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
24581673 AATAAGTATA
24581683 ATAATAAATATA-ATGATAT
1 ATAA-AAATATATATGATAT
*
24581702 ATAAAAATA-ATATTATAT
1 ATAAAAATATATATGATAT
24581720 ATAAAAAGTATATAT
1 ATAAAAA-TATATAT
24581735 ATACACGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 18 0.62
19 6 0.21
20 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
ATAAAAATATATATGATAT
Found at i:24581734 original size:20 final size:18
Alignment explanation
Indices: 24581668--24581726 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
24581658 AACAATAGTG
*
24581668 AAAATAATAAGTATA-ATA
1 AAAATAAT-ATTATATATA
*
24581686 ATAAAT-ATAATGATATATA
1 A-AAATAAT-ATTATATATA
24581705 AAAATAATATTATATATA
1 AAAATAATATTATATATA
24581723 AAAA
1 AAAA
24581727 GTATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 25 0.71
19 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATAATATTATATATA
Found at i:24581832 original size:27 final size:26
Alignment explanation
Indices: 24581801--24581867 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 26
24581791 TAGATATAAT
*
24581801 AATATGTACATAATATGGTATTAAAAA
1 AATAT-TACATAATATAGTATTAAAAA
*
24581828 AATA-T--ATAATATAGTATTTAAAA
1 AATATTACATAATATAGTATTAAAAA
*
24581851 AATGTATACATAATATA
1 AATAT-TACATAATATA
24581868 TATATTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 19 0.58
25 2 0.06
27 12 0.36
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (26 bp):
AATATTACATAATATAGTATTAAAAA
Found at i:24581836 original size:23 final size:23
Alignment explanation
Indices: 24581810--24581858 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24581800 TAATATGTAC
*
24581810 ATAATATGGTATTAAAAAAATAT
1 ATAATATAGTATTAAAAAAATAT
* *
24581833 ATAATATAGTATTTAAAAAATGT
1 ATAATATAGTATTAAAAAAATAT
24581856 ATA
1 ATA
24581859 CATAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (23 bp):
ATAATATAGTATTAAAAAAATAT
Found at i:24581885 original size:3 final size:3
Alignment explanation
Indices: 24581877--24581962 Score: 59
Period size: 3 Copynumber: 28.3 Consensus size: 3
24581867 ATATATTATG
* * * * *
24581877 AAT AAT AAT AAT AGT ATAT ACAT -AT AAA AAT ATAT ATT AAT ATT AAA
1 AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
24581924 AAT AAT AAT CAT AAT AGT AAT ACT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24581963 CAATGACAAA
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
2 4 0.06
3 51 0.82
4 7 0.11
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24581919 original size:18 final size:18
Alignment explanation
Indices: 24581867--24581927 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
24581857 TACATAATAT
* *
24581867 ATATATTATGAATAATAATA
1 ATATA-TATTAAT-ATAAAA
24581887 ATAGTATA-TACATATAAAA
1 ATA-TATATTA-ATATAAAA
24581906 ATATATATTAATATTAAAA
1 ATATATATTAATA-TAAAA
24581925 ATA
1 ATA
24581928 ATAATCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 7 0.20
19 19 0.54
20 7 0.20
21 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATATATTAATATAAAA
Found at i:24582105 original size:17 final size:17
Alignment explanation
Indices: 24582083--24582147 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
24582073 ATATAATAAT
24582083 TAATAATAATATTAAAA
1 TAATAATAATATTAAAA
*
24582100 TAATAACAATATGTTAAAGA
1 TAATAATAATA--TTAAA-A
* ** *
24582120 TAATAATAAAAGGAAAG
1 TAATAATAATATTAAAA
24582137 TAATAATAATA
1 TAATAATAATA
24582148 ATATAATTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 20 0.53
18 3 0.08
19 5 0.13
20 10 0.26
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (17 bp):
TAATAATAATATTAAAA
Found at i:24582205 original size:22 final size:22
Alignment explanation
Indices: 24582168--24582224 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
24582158 TACTAAAAAG
*
24582168 AAATATATAAATAAATAGGATAGA
1 AAATAGAT-AATAAATAGGATA-A
*
24582192 AAATA-ATAATAAATATGATAA
1 AAATAGATAATAAATAGGATAA
*
24582213 TAATAGATAATA
1 AAATAGATAATA
24582225 GCAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 18 0.60
23 2 0.07
24 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (22 bp):
AAATAGATAATAAATAGGATAA
Found at i:24583814 original size:62 final size:63
Alignment explanation
Indices: 24583739--24583880 Score: 241
Period size: 62 Copynumber: 2.3 Consensus size: 63
24583729 TCTTTGGTCC
* *
24583739 GCTCCACTACAACTTCAGGATTTCGCTACAACTTCATGGAGATAA-ACTTGTAATTTCAACCT
1 GCTCCACTACAACTTCAGGATTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAACCT
* *
24583801 GCTCCACAACAACTTCAGGGTTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAACCT
1 GCTCCACTACAACTTCAGGATTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAACCT
24583864 GCTCCACTACAACTTCA
1 GCTCCACTACAACTTCA
24583881 AAGAGGCCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 41 0.55
63 33 0.45
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (63 bp):
GCTCCACTACAACTTCAGGATTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAACCT
Found at i:24584163 original size:63 final size:65
Alignment explanation
Indices: 24584083--24584256 Score: 183
Period size: 75 Copynumber: 2.6 Consensus size: 65
24584073 GAGTTGATAG
*
24584083 AAACTAAAAATACCTCAGCATGTGACCCGAGG-GTCA-CAATATGAGTTGATTTTTTTGAAACAT
1 AAACTAAAAATACCTCAGCATGTGACCCGAGGACTCACCAATATGAGTTGATTTTTTTGAAACAT
* * *
24584146 AAACTAAAAATACCTCAGTACGCGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAACTAAAAATACCTCAGCATGTGACCCGAGG----ACTCA-----C-CAATATGAGTTGATTTT
24584211 TTTGAAACAT
56 TTTGAAACAT
* *
24584221 AAACTAAAAATACCTCAGCGTGTGACCTGAGG-CTCA
1 AAACTAAAAATACCTCAGCATGTGACCCGAGGACTCA
24584257 ACTCACCTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
63 29 0.32
68 3 0.03
70 4 0.04
75 54 0.60
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (65 bp):
AAACTAAAAATACCTCAGCATGTGACCCGAGGACTCACCAATATGAGTTGATTTTTTTGAAACAT
Found at i:24584253 original size:75 final size:75
Alignment explanation
Indices: 24584119--24584689 Score: 561
Period size: 75 Copynumber: 7.3 Consensus size: 75
24584109 CCGAGGGTCA
*** * * *
24584119 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGTACGCGACCCGAGGCTTAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
24584184 TCACCTCTCG
66 TCACCTCTCG
24584194 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
24584259 TCACCTCTCG
66 TCACCTCTCG
* * * ** **
24584269 CAATATGAGTTGACGTTTTTTTTTTTTAAAACATAAATTAAAAATACCTCAGTGCATGATTTGAG
1 CAATATGAGTTGA-------TTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAG
*
24584334 GCTCAACTCACTTCTCG
59 GCTCAACTCACCTCTCG
* *
24584351 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTAACCCGAGGCTCAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
24584416 TCACCTCTCG
66 TCACCTCTCG
* * * * * *
24584426 CAATATGAGTTGACGTTTTTTTTTTGTTTTTTTAAACATAAATTGAAAATATCTCAGTGCGTGAT
1 CAATATGAGTTGA-----TTTTTTTG-------AAACATAAACTAAAAATACCTCAGCGTGTGAC
* * *
24584491 TTGAGGCTCAACTTACTTCTCG
54 CTGAGGCTCAACTCACCTCTCG
* * * * * *
24584513 CAATATGAGTTGACTTTTTCGAAAAATAGGAACTGAAGATACCTCAGCATGTGACCTGAGGCTCA
1 CAATATGAGTTGATTTTTTTGAAACATA--AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCA
24584578 ACTCACCTCTCG
64 ACTCACCTCTCG
* * * * *
24584590 CCATATGAGTTGA-TTTTTTGAACAACAGAAATTGAAAATACCTC-GACGTGTGACCCGAGGCTC
1 CAATATGAGTTGATTTTTTTG-A-AACATAAACTAAAAATACCTCAG-CGTGTGACCTGAGGCTC
* *
24584653 AACTCTCCTCTCA
63 AACTCACCTCTCG
*
24584666 CAATATAAGTTGATTTTTTTGAAA
1 CAATATGAGTTGATTTTTTTGAAA
24584690 AACAGAAATA
Statistics
Matches: 411, Mismatches: 60, Indels: 50
0.79 0.12 0.10
Matches are distributed among these distances:
75 156 0.38
76 57 0.14
77 57 0.14
78 4 0.01
80 8 0.02
82 73 0.18
87 56 0.14
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
TCACCTCTCG
Found at i:24584315 original size:157 final size:157
Alignment explanation
Indices: 24584132--24584689 Score: 657
Period size: 157 Copynumber: 3.5 Consensus size: 157
24584122 TATGAGTTGA
* * * *
24584132 TTTTTTTGAAACATAAACTAAAAATACCTCAGTACGCGACCCGAGGCTTAACTCACCTCTCGCAA
1 TTTTTTTAAAACATAAATTAAAAATACCTCAGTACGTGACCCGAGGCTCAACTCACCTCTCGCAA
24584197 TATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCA
66 TATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCA
24584262 CCTCTCGCAATATGAGTTGACGTTTTT
131 CCTCTCGCAATATGAGTTGACGTTTTT
* * *** *
24584289 TTTTTTTAAAACATAAATTAAAAATACCTCAGTGCATGATTTGAGGCTCAACTCACTTCTCGCAA
1 TTTTTTTAAAACATAAATTAAAAATACCTCAGTACGTGACCCGAGGCTCAACTCACCTCTCGCAA
* *
24584354 TATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTAACCCGAGGCTCAACTCA
66 TATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCA
24584419 CCTCTCGCAATATGAGTTGACGTTTTTTTTT
131 CCTCTCGCAATATGAGTTGACG----TTTTT
* * * * *** * *
24584450 TGTTTTTTTAAACATAAATTGAAAATATCTCAGTGCGTGATTTGAGGCTCAACTTACTTCTCGCA
1 T-TTTTTTAAAACATAAATTAAAAATACCTCAGTACGTGACCCGAGGCTCAACTCACCTCTCGCA
* * * * * *
24584515 ATATGAGTTGACTTTTTCGAAAAATAGGAACTGAAGATACCTCAGCATGTGACCTGAGGCTCAAC
65 ATATGAGTTGATTTTTTTGAAACATA--AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
*
24584580 TCACCTCTCGCCATATGAGTTGA-------
128 TCACCTCTCGCAATATGAGTTGACGTTTTT
* * * * *
24584603 TTTTTTGAACAACAGAAATTGAAAATACCTC-G-ACGTGTGACCCGAGGCTCAACTCTCCTCTCA
1 TTTTTTTAA-AACATAAATTAAAAATACCTCAGTAC--GTGACCCGAGGCTCAACTCACCTCTCG
*
24584666 CAATATAAGTTGATTTTTTTGAAA
63 CAATATGAGTTGATTTTTTTGAAA
24584690 AACAGAAATA
Statistics
Matches: 350, Mismatches: 41, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
151 1 0.00
152 7 0.02
153 61 0.17
157 140 0.40
161 6 0.02
162 81 0.23
164 54 0.15
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (157 bp):
TTTTTTTAAAACATAAATTAAAAATACCTCAGTACGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGACGTTTTT
Found at i:24584463 original size:87 final size:87
Alignment explanation
Indices: 24584364--24584531 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 87
24584354 TATGAGTTGA
*
24584364 TTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTAACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTTTTTGAAACATAAACTAAAAATACCTCAGCGCGTAACCCGAGGCTCAACTCACCTCTCGCAA
24584429 TATGAGTTGACGTTTTTTTTTTG
66 TATGAGTTGAC-TTTTTTTTTTG
* * * * * *** * *
24584452 TTTTTTT-AAACATAAATTGAAAATATCTCAGTGCGTGATTTGAGGCTCAACTTACTTCTCGCAA
1 TTTTTTTGAAACATAAACTAAAAATACCTCAGCGCGTAACCCGAGGCTCAACTCACCTCTCGCAA
24584516 TATGAGTTGACTTTTT
66 TATGAGTTGACTTTTT
24584532 CGAAAAATAG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
86 5 0.07
87 57 0.83
88 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (87 bp):
TTTTTTTGAAACATAAACTAAAAATACCTCAGCGCGTAACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGACTTTTTTTTTTG
Found at i:24584704 original size:76 final size:75
Alignment explanation
Indices: 24584493--24584705 Score: 241
Period size: 76 Copynumber: 2.8 Consensus size: 75
24584483 TGCGTGATTT
* * * * *
24584493 GAGGCTCAACT-TACTTCTCGCAATATGAGTTGACTTTTTCGAAAAATAGGAACTGAAGATACCT
1 GAGGCTCAACTCT-CCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACA-GAAATGAAAATACCT
*
24584557 CAGCATGTGACCT
63 CAGCATGTGACCC
* * *
24584570 GAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTTTGAACAACAGAAATTGAAAATACCTC-
1 GAGGCTCAACTCTCCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TGAAAATACCTCA
*
24584634 GACGTGTGACCC
65 G-CATGTGACCC
* * *
24584646 GAGGCTCAACTCTCCTCTCACAATATAAGTTGATTTTTTTGAAAAACAGAAATAAAAATA
1 GAGGCTCAACTCTCCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATGAAAATA
24584706 TCAGGATACC
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
75 4 0.03
76 66 0.57
77 46 0.40
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
GAGGCTCAACTCTCCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATGAAAATACCTCAG
CATGTGACCC
Found at i:24595443 original size:59 final size:57
Alignment explanation
Indices: 24595377--24595565 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
24595367 ATTTTATTAA
24595377 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
24595436 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
24595497 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
24595556 ATCATATATT
1 ATCATATATT
24595566 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:24595474 original size:66 final size:64
Alignment explanation
Indices: 24595404--24595602 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
24595394 AAATATATTT
*
24595404 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
24595469 G
64 G
* * * * **
24595470 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
24595524 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
24595589 G
64 G
*
24595590 AATATTGATTATT
1 AATATTAATTATT
24595603 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:24595496 original size:120 final size:120
Alignment explanation
Indices: 24595366--24595663 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
24595356 AATTATTTTA
* * *
24595366 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
24595430 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
24595486 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
24595551 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
24595606 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
24595664 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:24595506 original size:61 final size:61
Alignment explanation
Indices: 24595439--24595626 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
24595429 TTATAGTATC
*
24595439 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
24595500 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
24595558 C
61 T
*
24595559 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
24595620 CTATATT
1 ATATATT
24595627 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:24595526 original size:15 final size:15
Alignment explanation
Indices: 24595491--24595542 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24595481 TTAAGAATTT
*
24595491 TATTAAATTAT-ATA
1 TATTTAATTATAATA
24595505 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
24595519 TATTTAATAATAAT-
1 TATTTAATTATAATA
24595533 TATGTTAATT
1 TAT-TTAATT
24595543 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:24595898 original size:16 final size:16
Alignment explanation
Indices: 24595877--24595944 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
24595867 GATTTGCTAT
24595877 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24595893 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
24595909 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
24595925 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24595941 TACA
1 TACA
24595945 GCGAACCAAA
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:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24606126 original size:15 final size:14
Alignment explanation
Indices: 24606106--24606182 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
24606096 CTATTATTAG
*
24606106 TTATCTAATTTTTAT
1 TTATCT-ATTTATAT
24606121 TTATCTATTTATAT
1 TTATCTATTTATAT
*
24606135 TTCAACTA-TTATTAT
1 TT-ATCTATTTA-TAT
24606150 ATT-TCTATTTATTAT
1 -TTATCTATTTA-TAT
*
24606165 ATT-TCTATTTCTAT
1 -TTATCTATTTATAT
24606179 TTAT
1 TTAT
24606183 ATACTAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.04
14 19 0.36
15 30 0.57
16 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATCTATTTATAT
Found at i:24606151 original size:17 final size:15
Alignment explanation
Indices: 24606129--24606174 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
24606119 ATTTATCTAT
24606129 TTATATTTCAACTATTA
1 TTATATTTCAA-T-TTA
*
24606146 TTATATTTCTATTTA
1 TTATATTTCAATTTA
*
24606161 TTATATTTCTATTT
1 TTATATTTCAATTT
24606175 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 17 0.61
16 1 0.04
17 10 0.36
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATATTTCAATTTA
Found at i:24606172 original size:44 final size:44
Alignment explanation
Indices: 24606093--24606210 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 44
24606083 TGTTATTCTA
*
24606093 ATACTATTATTAGTTATCTAATTT-TTATTTATCTATTTATATTT-C
1 ATACTATTATTA-TTTTCT-ATTTATTATTT-TCTATTTATATTTAC
* *
24606138 A-ACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTTAT
1 ATACTATTATTAT-TTTCTATTTATTAT-TTTCTATTTATATTTAC
*
24606183 ATACTAATATTATTTTC-A-TTATTATTTT
1 ATACTATTATTATTTTCTATTTATTATTTT
24606211 TCTTATATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.05
43 12 0.19
44 31 0.48
45 8 0.12
46 10 0.16
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (44 bp):
ATACTATTATTATTTTCTATTTATTATTTTCTATTTATATTTAC
Found at i:24606327 original size:25 final size:24
Alignment explanation
Indices: 24606261--24606359 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 24
24606251 TTTTTTTGTT
* *
24606261 ATTATCTATTTTAACTTTTTATAC
1 ATTATTTATTTTAAATTTTTATAC
** * *
24606285 AACATTCATTTCAAATTTTTATAC
1 ATTATTTATTTTAAATTTTTATAC
* *
24606309 ATTATTTATTTTAATATTTTCATAT
1 ATTATTTATTTTAA-ATTTTTATAC
* *
24606334 ATTATGTATTTTAAACTTTTTTTAC
1 ATTATTTATTTTAAA-TTTTTATAC
24606359 A
1 A
24606360 CATTATATTT
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 29 0.51
25 28 0.49
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (24 bp):
ATTATTTATTTTAAATTTTTATAC
Found at i:24606902 original size:71 final size:71
Alignment explanation
Indices: 24606822--24606960 Score: 251
Period size: 71 Copynumber: 2.0 Consensus size: 71
24606812 GTTTTCTTAA
* * *
24606822 ATTAAAATAAGGCAATATTTTGTGTTTGGAAATTTGAGAAATCGTGCCTAATCCTGCTGGGTTTC
1 ATTAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCATACCTAATCCTGCTGGGTTTC
24606887 GACATT
66 GACATT
24606893 ATTAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCATACCTAATCCTGCTGGGTTTC
1 ATTAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCATACCTAATCCTGCTGGGTTTC
24606958 GAC
66 GAC
24606961 TTACCGTTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (71 bp):
ATTAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCATACCTAATCCTGCTGGGTTTC
GACATT
Found at i:24612301 original size:20 final size:19
Alignment explanation
Indices: 24612261--24612304 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24612251 AATAACATAT
*
24612261 TAAAAAATATAAATATAAA
1 TAAAAAATATAAACATAAA
24612280 TAAAAAA-ATAAGACATATAA
1 TAAAAAATATAA-ACATA-AA
24612300 TAAAA
1 TAAAA
24612305 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAAATATAAACATAAA
Found at i:24617370 original size:32 final size:30
Alignment explanation
Indices: 24617307--24617377 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
24617297 TCTCTTTTCA
* *
24617307 TTTTTGGTCACCCAACTATCAATTTTTTTT
1 TTTTTGGTCACCCAACTATCAATTATGTTT
*
24617337 TTAATTTGGTCACCCAACTAATCGA-TATGTTT
1 TT--TTTGGTCACCCAACT-ATCAATTATGTTT
24617369 TTTTTGGTC
1 TTTTTGGTC
24617378 CATTTCTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
30 9 0.26
32 22 0.63
33 4 0.11
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (30 bp):
TTTTTGGTCACCCAACTATCAATTATGTTT
Found at i:24628535 original size:39 final size:39
Alignment explanation
Indices: 24628481--24628559 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
24628471 CTATCAAGAA
24628481 AAAAAAATAAAGGATGTTTGTATTTACATTTCGTTTTCC
1 AAAAAAATAAAGGATGTTTGTATTTACATTTCGTTTTCC
24628520 AAAAAAATAAAGGATGTTTGTATTTACATTTCGTTTTCC
1 AAAAAAATAAAGGATGTTTGTATTTACATTTCGTTTTCC
24628559 A
1 A
24628560 GTTTTCATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (39 bp):
AAAAAAATAAAGGATGTTTGTATTTACATTTCGTTTTCC
Done.