Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1791
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: 79370
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Found at i:6138 original size:20 final size:20
Alignment explanation
Indices: 6096--6150 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
6086 TAAAATTCTG
**
6096 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
6116 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
*
6136 ATGTTTCGATACATT
1 ATGTATCGATACATT
6151 TCCTTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:7089 original size:52 final size:49
Alignment explanation
Indices: 7033--7741 Score: 363
Period size: 49 Copynumber: 15.6 Consensus size: 49
7023 TGTACTGAGA
** *
7033 CAAGGCCAGTAACATTGGGCTTAGAA-ATGTTAAAGATGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTA-AAGATG---AAGGTGCCAATATGCTGATT
* * * *
7085 CAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* *
7134 CAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* * * * *
7186 TAAGGCCAACGACATCGGTCATAAAGATGAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
7235 CAAGGCCAGCGATATTGGGC-T-----T--A--TGCTAATGTGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* *
7274 CAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * * *
7313 CGAGGCCAGCGACATTAGTCTTAGAGA-CAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * * *
7361 CAAGGCCCAGCGATAATGGGC-T-----T----GTGCCAATGTCCTGATG
1 CAAGG-CCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
7401 CAAGGCCAGTGACATTGGTCTTAAAGATAAAGATGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
7450 CAAGGCCAGCGACATTGGAC-T-----T----GTGCCAATGTGCTGATG
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
7489 CAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
7538 CAAGGCCAGCGATATTGGAC-T-----T----GTGCCAATGTACTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * * * * *
7577 CAAGGCTAGCGGCATTAGTCTTAAAGATAAACGCGCCAATATGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
7626 CAAGGCCAGCGATATTAGAC-T-----T----GTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* * * *
7665 CAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGTTGATT
1 CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
* *
7714 CAAGGCCAGCGATATTGGACTTAGAAGA
1 CAAGGCCAGCGACATTGGGCTTA-AAGA
7742 AGACGCCACC
Statistics
Matches: 519, Mismatches: 81, Indels: 116
0.72 0.11 0.16
Matches are distributed among these distances:
39 172 0.33
40 24 0.05
41 1 0.00
43 4 0.01
45 4 0.01
46 1 0.00
48 24 0.05
49 216 0.42
50 5 0.01
51 3 0.01
52 65 0.13
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
CAAGGCCAGCGACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATT
Found at i:7174 original size:101 final size:101
Alignment explanation
Indices: 7017--7257 Score: 315
Period size: 101 Copynumber: 2.4 Consensus size: 101
7007 TGAAGAAGAA
* ** **
7017 TGCCAATGTACTGAGACAAGGCCAGTAACATTGGGCTTAGAAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATGTTAAAGATGCCAATATGCTG
* * *
7082 ATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAACGACATCGGACATAAAGATGAAGG
* * *
7118 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGATGGTT-AAGGTGCCAATGTGC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGAA-AT-GTTAAAGATGCCAATATGC
* *
7181 TGATTTAAGGCCAACGACATCGGTCATAAAGATGAAGG
64 TGATTCAAGGCCAACGACATCGGACATAAAGATGAAGG
* *
7219 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
7258 TGCTAATGTG
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
100 2 0.02
101 117 0.96
102 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATGTTAAAGATGCCAATATGCTG
ATTCAAGGCCAACGACATCGGACATAAAGATGAAGG
Found at i:7281 original size:39 final size:39
Alignment explanation
Indices: 7219--7687 Score: 236
Period size: 39 Copynumber: 11.0 Consensus size: 39
7209 AAGATGAAGG
*
7219 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
*
7258 TGCTAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
7297 TGCCAATGTGCTGATTCGAGGCCAGCGACATTAGTCTTAGAGACAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
* * *
7343 GGTGCCAATATGCTGATTCAAGGCCCAGCGATAATGGGCTTG
1 --TGCCAATGTGCTGATTCAAGG-CCAGCGATATTGGGCTTA
* * * * *
7385 TGCCAATGTCCTGATGCAAGGCCAGTGACATTGGTCTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----A
* * * *
7434 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
7473 TGCCAATGTGCTGATGCAAGGCTAGCGACATTGGTCTTAAAGATAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A
* * *
7520 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTG
1 --TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * ** * *
7561 TGCCAATGTACTGATTCAAGGCTAGCGGCATTAGTCTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT----A
* * * *
7604 TAAACGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTG
1 T------GCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * *
7649 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
7688 AAGATAAAGG
Statistics
Matches: 330, Mismatches: 60, Indels: 80
0.70 0.13 0.17
Matches are distributed among these distances:
39 176 0.53
40 20 0.06
43 3 0.01
45 3 0.01
46 1 0.00
48 21 0.06
49 106 0.32
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:7415 original size:88 final size:88
Alignment explanation
Indices: 7266--7735 Score: 708
Period size: 88 Copynumber: 5.3 Consensus size: 88
7256 TATGCTAATG
* * * *
7266 TGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCGAGGCCAGCGACATTAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
* *
7331 TCTTAGAGA-CAAGGTGCCAATA
66 TCTTAAAGATAAAGGTGCCAATA
* * * * *
7353 TGCTGATTCAAGGCCCAGCGATAATGGGCTTGTGCCAATGTCCTGATGCAAGGCCAGTGACATTG
1 TGCTGATTCAAGG-CCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
*
7418 GTCTTAAAGATAAAGATGCCAATA
65 GTCTTAAAGATAAAGGTGCCAATA
* * *
7442 TGCTGATTCAAGGCCAGCGACATTGGACTTGTGCCAATGTGCTGATGCAAGGCTAGCGACATTGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
7507 TCTTAAAGATAAAGGTGCCAATA
66 TCTTAAAGATAAAGGTGCCAATA
* * * *
7530 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTACTGATTCAAGGCTAGCGGCATTAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
* *
7595 TCTTAAAGATAAACGCGCCAATA
66 TCTTAAAGATAAAGGTGCCAATA
* *
7618 TGCTGATTCAAGGCCAGCGATATTAGACTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
7683 TCTTAAAGATAAAGGTGCCAATA
66 TCTTAAAGATAAAGGTGCCAATA
*
7706 TGTTGATTCAAGGCCAGCGATATTGGACTT
1 TGCTGATTCAAGGCCAGCGATATTGGACTT
7736 AGAAGAAGAC
Statistics
Matches: 347, Mismatches: 34, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
87 13 0.04
88 310 0.89
89 24 0.07
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
TCTTAAAGATAAAGGTGCCAATA
Found at i:7800 original size:29 final size:31
Alignment explanation
Indices: 7748--7806 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
7738 AAGAAGACGC
7748 CACCAACTTGTGTGGGCTTTTG-AAAGGGTTG
1 CACCAACTTGTGT-GGCTTTTGAAAAGGGTTG
7779 CACCAACTTGTGT-GCTTTTGAAAAGGGT
1 CACCAACTTGTGTGGCTTTTGAAAAGGGT
7807 GCCACTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.26
30 7 0.26
31 13 0.48
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (31 bp):
CACCAACTTGTGTGGCTTTTGAAAAGGGTTG
Found at i:7871 original size:27 final size:27
Alignment explanation
Indices: 7839--7954 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
7829 AGGAGAAAGA
*
7839 TGCCACGAAGTTGTAGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
7866 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAATAG
1 TGCCACGAAGTTGTGGACTTAAAAGG--------G
7901 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
7928 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
7955 AAAAGAGTGC
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
27 51 0.66
35 26 0.34
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:7930 original size:62 final size:61
Alignment explanation
Indices: 7799--8191 Score: 292
Period size: 68 Copynumber: 6.1 Consensus size: 61
7789 TGTGCTTTTG
* * * * *
7799 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAGAAAGA-TGCCACGAAGTTGTAGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTT
*
7859 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAATAGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGAAGTTGTGGACTT
* * *
7921 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGAC-TT
* * * * * * * *
7983 AAAAAGAAAAAGGTGTCATGAAGTTGTAGACTTAAAAGGAAAAAGAGTACCACGGAGTCGTGGGC
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGAC
8048 TTT
60 -TT
* * * * *
8051 AAAAAGAAAAAGTGTGCCATGGAGTCGTGGGCTTAAAAAG-AAAAGA-TGCCACGGAGTTGTGGA
1 -AAAAG-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGA
8114 CTT
59 CTT
* * * *
8117 AAAAGGGAAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCA-TAGAGTTGTG
1 AAAA-GG----G--TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGA-AGTTGTG
8180 GACTT
57 GACTT
8185 AAAAGGG
1 AAAAGGG
8192 ACAAAGATGC
Statistics
Matches: 281, Mismatches: 32, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
60 30 0.11
61 28 0.10
62 54 0.19
63 6 0.02
64 1 0.00
65 4 0.01
66 18 0.06
67 25 0.09
68 94 0.33
69 21 0.07
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGACTT
Found at i:7965 original size:34 final size:34
Alignment explanation
Indices: 7921--8225 Score: 287
Period size: 34 Copynumber: 9.0 Consensus size: 34
7911 TTGTGGACTT
*
7921 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
7955 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * * *
7990 AAAAG-GTGTCATGAAGTTGTAGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * * *
8023 AAAAGAGTACCACGGAGTCGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGG
* * * * *
8058 AAAAGTGTGCCATGGAGTCGTGGGCTTAAAA-AG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
8091 AAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * * *
8124 AAAAGAATGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGG
**
8159 AAAAG-GTGCCATAGAGTTGTGGACTTAAAAGGG
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
* *
8192 ACAAAGA-TGCCACAGAGTTGTGGACATAAAAGGG
1 A-AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
8226 TGCCAGAGAG
Statistics
Matches: 222, Mismatches: 41, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
32 21 0.09
33 33 0.15
34 114 0.51
35 54 0.24
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:8319 original size:96 final size:96
Alignment explanation
Indices: 8121--9177 Score: 294
Period size: 95 Copynumber: 11.2 Consensus size: 96
8111 GGACTTAAAA
* * *
8121 GGGAAAAGAATGCCACGA-AGTTGTGGGCTTTAAAAAG-AAAAAGGTGCCATAGAGTTGTGGACT
1 GGGAAAAGAATGCCA-GAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCATAGAGTCGTGGACT
* ** *
8184 TAAAAGGGACAAAGATGCCACAGAGTTGTGGAC-AT
65 T---TGGGA-AAAGATGCCACAGAGTCATGGACTTT
** *
8219 ---AAAAGGGTGCCAGAGAGTTGTGGACTTCGAAAAGAAAAAAGGTGCCATAGAGTCGTGGACTT
1 GGGAAAAGAATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCATAGAGTCGTGGACTT
* *
8281 TGGGAAGAGATGCCACCGAGTCATGGACTTT
66 TGGGAAAAGATGCCACAGAGTCATGGACTTT
* ** ** * *
8312 GGGAAAAGATTGCCACTGAGTCATGGACTTTG--AAGAAAAGA-TTGCCACT-GAGTCGTGGACT
1 GGGAAAAGAATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGACT
* * **
8373 TTGAAGAAAAGATGCCACTGAGTCACAGACTTT
65 TTG-GGAAAAGATGCCACAGAGTCATGGACTTT
** * * * * * * * * *
8406 GAAAATAAAAAGGTTCCACAGAGTCGTGGACTTTG---GGAAGAGA-TTGCCACT-GAGTCATGG
1 GGGAA-AAGAA--TGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGG
* * * ** *
8466 AC-TTCGAAAAGAGATGCCACTGAGTTGTAGACTTT
62 ACTTTGGGAAA-AGATGCCACAGAGTCATGGACTTT
* * * * * * *
8501 GAAGAAAAG-ATGCCACAGAGTTGTGGAC-TT-AAAAGGAACACGGTGCCATGGAGTTGTGGACT
1 G-GGAAAAGAATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCATAGAGTCGTGGACT
* * ** *
8563 TTGAGAAGAGATTGCCATTGAGTCGTGGACTTT
65 TTGGGAAAAGA-TGCCACAGAGTCATGGACTTT
* * * ** * * *
8596 GAAGAAAAGGATGCCACTA-AGTCATGGAC-TT----AGAAAAGAGATGCCACT-GAGTTGTGGA
1 G-GGAAAAGAATGCCA-GAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGA
* *
8654 CTTTGTAGAAAAGATTGCCACTGAGTCATGGACTTT
63 CTTTG-GGAAAAGA-TGCCACAGAGTCATGGACTTT
* * ** * * * * * *
8690 GAAGAAAAAAGATGCCACTGAGTCGTGGAGTTTG---AGAAAAGAGATGCCACT-GAGTCATGGG
1 G-GGAAAAGA-ATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGA
* ** *
8751 CTTTGGGACAAGATGCCATTGAGTCTTGGACTTT
63 CTTTGGGAAAAGATGCCACAGAGTCATGGACTTT
* ** ** * * * *
8785 GGGAAGAG-ATGCCACTGAGTCATGGACTTTG---GGAAGACA-TTGCCACTA-AGTCGTGGACT
1 GGGAAAAGAATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGACT
* * ** *
8844 TTGAAGAAAATATGCCACTTAGTCGTGGACTTT
65 TTG-GGAAAAGATGCCACAGAGTCATGGACTTT
* * * * ** *
8877 GGGAAGAAAAGATGCCACG-GAGTTGTAGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGA
1 GGGAA-AAGA-ATGCCA-GAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCATAGAGTCGTGGA
* * *
8939 CTTT-GAAAAGAGATTGCCACTGAGTCGTGGACTTT
63 CTTTGGGAAA-AGA-TGCCACAGAGTCATGGACTTT
* * ** * * * *
8974 GAAGAAAAAAGATGCCATTGAGTCGTGGAC-TT----AGAAAAGAGATGCCACTA-AGTTGTGGA
1 G-GGAAAAGA-ATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGGA
* *
9033 CTTTGTAGAAAAGATTGCCCCTA-AGTCATGGAC-TT
63 CTTTG-GGAAAAGA-TGCCAC-AGAGTCATGGACTTT
* ** * * * *
9068 GGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTG---AGAAAAGAGATGCCACT-GAGTCATGG
1 GG--GAAAAGA-ATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCA-TAGAGTCGTGG
* * * *
9129 GCTTTAGGACAAGATGCCACTGAGTCATGGACTTT
62 ACTTTGGGAAAAGATGCCACAGAGTCATGGACTTT
*
9164 GGGAAGAG-ATGCCA
1 GGGAAAAGAATGCCA
9178 CTGAGTCGTG
Statistics
Matches: 756, Mismatches: 149, Indels: 114
0.74 0.15 0.11
Matches are distributed among these distances:
91 21 0.03
92 95 0.13
93 54 0.07
94 132 0.17
95 196 0.26
96 119 0.16
97 136 0.18
98 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (96 bp):
GGGAAAAGAATGCCAGAGAGTTGTGGACTTTGAAAAGAAAAAAGGTGCCATAGAGTCGTGGACTT
TGGGAAAAGATGCCACAGAGTCATGGACTTT
Found at i:8333 original size:31 final size:30
Alignment explanation
Indices: 8255--9329 Score: 751
Period size: 31 Copynumber: 34.2 Consensus size: 30
8245 TCGAAAAGAA
*
8255 AAAAGGTGCCA-TAGAGTCGTGGACTTTGGG
1 AAAAGATGCCACT-GAGTCGTGGACTTTGGG
* * *
8285 AAGAGATGCCACCGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
8315 AAAAGATTGCCACTGAGTCATGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
*
8347 AAAAGATTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
*** **
8379 AAAAGATGCCACTGAGTCACAGACTTTGAAAATA
1 AAAAGATGCCACTGAGTCGTGGACTTTG----GG
* * *
8413 AAAAGGTTCCACAGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * * *
8443 AAGAGATTGCCACTGAGTCATGGAC-TTCGA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGGG
* * *
8473 AAAGAGATGCCACTGAGTTGTAGACTTTGAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
* * **
8505 AAAAGATGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGATGCCACTGAGTCGTGGACTT--TGGG
* * * *
8537 AACACGGTGCCA-TGGAGTTGTGGACTTTGAG
1 AA-AAGATGCCACT-GAGTCGTGGACTTTGGG
* * *
8568 AAGAGATTGCCATTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
* * * *
8600 AAAAGGATGCCACTAAGTCATGGAC-TTAGA
1 AAAA-GATGCCACTGAGTCGTGGACTTTGGG
* *
8630 AAAGAGATGCCACTGAGTTGTGGACTTTGTAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
* *
8662 AAAAGATTGCCACTGAGTCATGGACTTTGAAGAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG--G-G
* *
8696 AAAAGATGCCACTGAGTCGTGGAGTTTGAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTG-GG
* *
8727 AAAGAGATGCCACTGAGTCATGGGCTTTGGG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGGG
* * *
8758 ACAAGATGCCATTGAGTCTTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
8788 AAGAGATGCCACTGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * * *
8818 AAGACATTGCCACTAAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
* *
8850 AAAATATGCCACTTAGTCGTGGACTTTGGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT-GG--G
* * * **
8883 AAAAGATGCCACGGAGTTGTAGACTTAAAAGG
1 AAAAGATGCCACTGAGTCGTGGACTT--TGGG
* * * *
8915 AACAAGGTGCCACGGAGTTGTGGACTTT-GA
1 AA-AAGATGCCACTGAGTCGTGGACTTTGGG
*
8945 AAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAA
1 AAA-AGA-TGCCACTGAGTCGTGGACTTTG--G-G
* * *
8980 AAAAGATGCCATTGAGTCGTGGAC-TTAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
9009 AAAGAGATGCCACTAAGTTGTGGACTTTGTAG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
* * *
9041 AAAAGATTGCCCCTAAGTCATGGAC-TTGGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGG--G
*
9073 AAAAAAGATGCCACTGAGTCGTGGACTTTGAGA
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-GG
* * *
9106 AAAGAGATGCCACTGAGTCATGGGCTTTAGG
1 AAA-AGATGCCACTGAGTCGTGGACTTTGGG
* *
9137 ACAAGATGCCACTGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
9167 AAGAGATGCCACTGAGTCGTGGAATTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
9197 AAGAGATTGCCACTGAGTCATGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
* *
9229 AAAAAATGCCACTGAGCCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * * *
9259 AAGAGAGGCCATTGAGTCATGGACTTTGGGG
1 AAAAGATGCCACTGAGTCGTGGACTTT-GGG
* * *
9290 AAAAAAGATGACACTGAGTTGTGGACTTTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-GG
9323 AAAAGAT
1 AAAAGAT
9330 TTGAAGAATT
Statistics
Matches: 837, Mismatches: 152, Indels: 111
0.76 0.14 0.10
Matches are distributed among these distances:
29 5 0.01
30 233 0.28
31 241 0.29
32 170 0.20
33 140 0.17
34 43 0.05
35 5 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGG
Found at i:8490 original size:95 final size:90
Alignment explanation
Indices: 8268--9321 Score: 804
Period size: 95 Copynumber: 11.2 Consensus size: 90
8258 AGGTGCCATA
* * * *
8268 GAGTCGTGGACTTTGGGAAGAGATGCCACCGAGTCATGGACTTTG-GGAAAAGATTGCCACTGAG
1 GAGTCGTGGACTTT-GAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGA-TGCCACTGAG
* * *
8332 TCATGGACTTTGAAGAAAAGATTGCCACT
64 TCGTGGACTTTG-GGAAGAGA-TGCCACT
** * * * *
8361 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCACAGACTTTGAAAATAAAAAGGTTCCACA
1 GAGTCGTGGACTTTG-A-AAAAGATGCCACTGAGTCATGGACTTTG--AA-GAAAAGATGCCACT
8426 GAGTCGTGGACTTTGGGAAGAGATTGCCACT
61 GAGTCGTGGACTTTGGGAAGAGA-TGCCACT
* * ** * *
8457 GAGTCATGGACTTCGAAAAGAGATGCCACTGAGTTGTAGACTTTGAAGAAAAGATGCCACAGAGT
1 GAGTCGTGGACTTTGAAAA-AGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGT
* ** * *
8522 TGTGGACTTAAAAGGAACACGGTGCCA-T
65 CGTGGACTT--TGGGAAGA-GATGCCACT
* * * * *
8550 GGAGTTGTGGACTTTGAGAAGAGATTGCCATTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTA
1 -GAGTCGTGGACTTTGA-AAAAGA-TGCCACTGAGTCATGGACTTTGAAGAAAA-GATGCCACTG
* * **
8615 AGTCATGGACTTAGAAAAGAGATGCCACT
62 AGTCGTGGACTTTGGGAAGAGATGCCACT
*
8644 GAGTTGTGGACTTTGTAGAAAAGATTGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTG-A-AAAAGA-TGCCACTGAGTCATGGACTTTGAAG--AAAAGATGCCACT
* *
8709 GAGTCGTGGAGTTTGAGAAAAGAGATGCCACT
61 GAGTCGTGGACTTTG-G-GAAGAGATGCCACT
* * * * * * * *
8741 GAGTCATGGGCTTTGGGACAAGATGCCATTGAGTCTTGGACTTTG-GGAAGAGATGCCACTGAGT
1 GAGTCGTGGACTTT-GAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGT
* *
8805 CATGGACTTTGGGAAGACATTGCCACT
65 CGTGGACTTTGGGAAGAGA-TGCCACT
* * * * *
8832 AAGTCGTGGACTTTGAAGAAAATATGCCACTTAGTCGTGGACTTTGGGAAGAAAAGATGCCACGG
1 GAGTCGTGGACTTTG-A-AAAAGATGCCACTGAGTCATGGACTTT--GAAGAAAAGATGCCACTG
* * ** * * *
8897 AGTTGTAGACTTAAAAGGAACAAGGTGCCACG
62 AGTCGTGGACTT--TGGGAA-GAGATGCCACT
* * *
8929 GAGTTGTGGACTTTGAAAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCATTG
1 GAGTCGTGGACTTTGAAAA-AGA-TGCCACTGAGTCATGGACTTTGAAG--AAAAGATGCCACTG
* **
8994 AGTCGTGGACTTAGAAAAGAGATGCCACT
62 AGTCGTGGACTTTGGGAAGAGATGCCACT
* * * * *
9023 AAGTTGTGGACTTTGTAGAAAAGATTGCCCCTAAGTCATGGACTTGGAAGAAAAAAGATGCCACT
1 GAGTCGTGGACTTTG-A-AAAAGA-TGCCACTGAGTCATGGACTTTGAAG--AAAAGATGCCACT
*
9088 GAGTCGTGGACTTTGAGAAAAGAGATGCCACT
61 GAGTCGTGGACTTTG-G-GAAGAGATGCCACT
* * * * * *
9120 GAGTCATGGGCTTTAGGACAAGATGCCACTGAGTCATGGACTTTG-GGAAGAGATGCCACTGAGT
1 GAGTCGTGGACTTT-GAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGT
*
9184 CGTGGAATTTGGGAAGAGATTGCCACT
65 CGTGGACTTTGGGAAGAGA-TGCCACT
* * * * * * * *
9211 GAGTCATGGACTTTGAAGAAAAAATGCCACTGAGCCGTGGACTTTG-GGAAGAGAGGCCATTGAG
1 GAGTCGTGGACTTTG-A-AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAG
* * *
9275 TCATGGACTTTGGGGAAAAAAGATGACACT
64 TCGTGGACTTT-GGG--AAGAGATGCCACT
*
9305 GAGTTGTGGACTTTGAA
1 GAGTCGTGGACTTTGAA
9322 GAAAAGATTT
Statistics
Matches: 783, Mismatches: 133, Indels: 91
0.78 0.13 0.09
Matches are distributed among these distances:
90 13 0.02
91 40 0.05
92 147 0.19
93 42 0.05
94 133 0.17
95 202 0.26
96 65 0.08
97 133 0.17
98 8 0.01
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (90 bp):
GAGTCGTGGACTTTGAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTC
GTGGACTTTGGGAAGAGATGCCACT
Found at i:8904 original size:409 final size:404
Alignment explanation
Indices: 8254--9329 Score: 1140
Period size: 409 Copynumber: 2.6 Consensus size: 404
8244 TTCGAAAAGA
* * * * * * *
8254 AAAAAGGTGCCA-TAGAGTCGTGGACTTTG-G-GAAGAGATGCCACCGAGTCATGGACTTTGGGA
1 AAAAAGATGCCACT-GAGTCATGGACTTTGAGAAAAAAGATGCCACTGAGTCATGGAGTTTGAGA
* * *
8316 AAAGA-TTGCCACTGAGTCATGGACTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGAAGA
65 AAAGAGATGCCACTGAGTCATGGACTTTG--GGAAAGA-TGCCACTGAGTCGTGGACTTTG-GGA
* ** *
8380 AAAGATGCCACTGAGTCACAGACTTTGAAAATAAAAAGGTT-CCAC-AGAGTCGTGGACTTTGGG
126 AGAGATGCCACTGAGTCATGGACTTTG--AAGAAAAA--TTGCCACTA-AGTCGTGGACTTT--G
* * *
8443 AAG-AGAT-TGCCACTGAGTCATGGAC-TT-CGAAAAGAGATGCCACTGAGTTGTAGACTTTGAA
184 AAGAAGATATGCCACTTAGTCATGGACTTTGGGAAAAAAGATGCCACTGAGTTGTAGACTTTGAA
*
8504 GAAAAGATGCCACAGAGTTGTGGAC-TT-AAAAGGAACACGGTGCCA-TGGAGTTGTGGACTTTG
249 GAAAAGATGCCACAGAGTTGTGGACTTTGAAAA-G-ACA--GTGCCACT-GAGTCGTGGACTTTG
*
8566 -AG-AAGAGATTGCCATTGAGTCGTGGACTTTGAAGAAAAG-GATGCCACTAAGTCATGGAC-T-
309 AAGAAAAAGA-TGCCATTGAGTCGTGGAC-TT--AGAAAAGAGATGCCACTAAGTCATGGACTTG
* ** * *
8626 TAGAAAAGAGATGCCACTGAGTTGTGGACTTTGTAG
370 TAGAAAAGA-ATGCCACTAAGTCATGGACTTGGAAG
*
8662 -AAAAGATTGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAGTTTGAG
1 AAAAAGA-TGCCACTGAGTCATGGACTTTG-AGAAAAAAGATGCCACTGAGTCATGGAGTTTGAG
* * *
8726 AAAAGAGATGCCACTGAGTCATGGGCTTTGGGACAAGATGCCATTGAGTCTTGGACTTTGGGAAG
64 AAAAGAGATGCCACTGAGTCATGGACTTTGGGA-AAGATGCCACTGAGTCGTGGACTTTGGGAAG
* * *
8791 AGATGCCACTGAGTCATGGACTTTG-GGAAGACATTGCCACTAAGTCGTGGACTTTGAAGAAAAT
128 AGATGCCACTGAGTCATGGACTTTGAAGAA-AAATTGCCACTAAGTCGTGGACTTTGAAGAAGAT
* * **
8855 ATGCCACTTAGTCGTGGACTTTGGGAAGAAAAGATGCCACGGAGTTGTAGACTTAAAAGGAACAA
192 ATGCCACTTAGTCATGGACTTTGGGAA-AAAAGATGCCACTGAGTTGTAGACTTTGAA-GAA-AA
* * * *
8920 GGTGCCACGGAGTTGTGGACTTTGAAAAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAAAAG
254 GATGCCACAGAGTTGTGGACTTTGAAAAGACAGTGCCACTGAGTCGTGGACTTTGAAG-AAAAAG
** *
8985 ATGCCATTGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTTGTGGACTTTGTAGAAAAGATTG
318 ATGCCATTGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTCATGGAC-TTGTAGAAAAGAATG
*
9050 CCCCTAAGTCATGGACTTGGAAG
382 CCACTAAGTCATGGACTTGGAAG
* *
9073 AAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCATGG-GCTTT-AG
1 -AAAAAGATGCCACTGAGTCATGGACTTTGAGAAAAAAGATGCCACTGAGTCATGGAG-TTTGAG
* * *
9136 GACA-AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGAATTTGGGAAG
64 AAAAGAGATGCCACTGAGTCATGGACTTTGGGAA-AGATGCCACTGAGTCGTGGACTTTGGGAAG
* * * * *
9200 AGATTGCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGCCGTGGACTTTG-GGAAGAG
128 AGA-TGCCACTGAGTCATGGACTTTGAAGAAAAATTGCCACTAAGTCGTGGACTTTGAAGAAGAT
* * *
9264 AGGCCA-TTGAGTCATGGACTTTGGGGAAAAAAGATGACACTGAGTTGTGGACTTTGAAGAAAAG
192 ATGCCACTT-AGTCATGGACTTT-GGGAAAAAAGATGCCACTGAGTTGTAGACTTTGAAGAAAAG
9328 AT
255 AT
9330 TTGAAGAATT
Statistics
Matches: 565, Mismatches: 68, Indels: 71
0.80 0.10 0.10
Matches are distributed among these distances:
404 4 0.01
405 5 0.01
406 35 0.06
407 14 0.02
408 35 0.06
409 193 0.34
410 85 0.15
411 125 0.22
412 59 0.10
413 10 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (404 bp):
AAAAAGATGCCACTGAGTCATGGACTTTGAGAAAAAAGATGCCACTGAGTCATGGAGTTTGAGAA
AAGAGATGCCACTGAGTCATGGACTTTGGGAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGA
TGCCACTGAGTCATGGACTTTGAAGAAAAATTGCCACTAAGTCGTGGACTTTGAAGAAGATATGC
CACTTAGTCATGGACTTTGGGAAAAAAGATGCCACTGAGTTGTAGACTTTGAAGAAAAGATGCCA
CAGAGTTGTGGACTTTGAAAAGACAGTGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCATT
GAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTCATGGACTTGTAGAAAAGAATGCCACTAAGT
CATGGACTTGGAAG
Found at i:9075 original size:379 final size:378
Alignment explanation
Indices: 8315--9262 Score: 1391
Period size: 379 Copynumber: 2.5 Consensus size: 378
8305 GGACTTTGGG
* * * * *
8315 AAAAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGA-TTGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AGAAAAGAGATGCCACTGAGTCATGGGCTTT-AGG
* ** ** * * * *
8379 AAAAGATGCCACTGAGTCACAGACTTTGAAAATAAAAAGGTTCCACAGAGTCGTGGACTTTGGGA
63 ACAAGATGCCACTGAGTCATGGACTTTG----GGAAGAGATGCCACTGAGTCGTGGACTTTGGGA
* * * * *
8444 AGAGATTGCCACTGAGTCATGGACTTCGAA-AAGAGATGCCACTGAGTTGTAGACTTT--GAAGA
124 AGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGGGAAGA
* * * *
8506 AAAGATGCCACAGAGTTGTGGACTTAAAAGGAACACGGTGCCATGGAGTTGTGGACTTTGAGAAG
189 AAAGATGCCACAGAGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
* *
8571 AGATTGCCATTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTAGAAAAGAG
254 AGATTGCCACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTAAGTCATGGACTTAGAAAAGAG
* * *
8636 ATGCCACTGAGTTGTGGACTTTGTAGAAAAGATTGCCACTGAGTCATGGACTTTGAAGAA
319 ATGCCACTAAGTTGTGGACTTTGTAGAAAAGATTGCCACTAAGTCATGGACTTGGAAGAA
* *
8696 AAAAGATGCCACTGAGTCGTGGAGTTTGAGAAAAGAGATGCCACTGAGTCATGGGCTTTGGGACA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCATGGGCTTTAGGACA
* * * *
8761 AGATGCCATTGAGTCTTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGGGAAGACATT
66 AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATT
* * * *
8826 GCCACTAAGTCGTGGACTTTGAAGAAAATATGCCACTTAGTCGTGGACTTTGGGAAGAAAAGATG
131 GCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGGGAAGAAAAGATG
*
8891 CCACGGAGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAGATTGC
196 CCACAGAGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAGATTGC
* * *
8956 CACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGAGTCGTGGACTTAGAAAAGAGATGCCA
261 CACTGAGTCGTGGACTTTGAAG-AAAAAGATGCCACTAAGTCATGGACTTAGAAAAGAGATGCCA
*
9021 CTAAGTTGTGGACTTTGTAGAAAAGATTGCCCCTAAGTCATGGACTTGGAAGAA
325 CTAAGTTGTGGACTTTGTAGAAAAGATTGCCACTAAGTCATGGACTTGGAAGAA
9075 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCATGGGCTTTAGGACA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCATGGGCTTTAGGACA
*
9140 AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGAATTTGGGAAGAGATT
66 AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATT
*
9205 GCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGCCGTGGACTTTGGGAAGA
131 GCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGGGAAGA
9263 GAGGCCATTG
Statistics
Matches: 508, Mismatches: 54, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
375 52 0.10
376 22 0.04
378 93 0.18
379 296 0.58
380 39 0.08
381 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (378 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCATGGGCTTTAGGACA
AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATT
GCCACTGAGTCATGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGGGAAGAAAAGATG
CCACAGAGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAGATTGC
CACTGAGTCGTGGACTTTGAAGAAAAAGATGCCACTAAGTCATGGACTTAGAAAAGAGATGCCAC
TAAGTTGTGGACTTTGTAGAAAAGATTGCCACTAAGTCATGGACTTGGAAGAA
Found at i:10609 original size:13 final size:12
Alignment explanation
Indices: 10593--10634 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
10583 CTTTGCACTC
10593 TTTTTTTGT-TT
1 TTTTTTTGTGTT
*
10604 GTTTTTTGTGTT
1 TTTTTTTGTGTT
10616 TTTTTTCTGTGTT
1 TTTTTT-TGTGTT
10629 TTTTTT
1 TTTTTT
10635 CATCTGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 8 0.30
12 7 0.26
13 12 0.44
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTGTT
Found at i:10640 original size:16 final size:13
Alignment explanation
Indices: 10599--10649 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
10589 ACTCTTTTTT
10599 TGTTTGTTTTT-TG
1 TGTTT-TTTTTCTG
10612 TGTTTTTTTTCTG
1 TGTTTTTTTTCTG
*
10625 TGTTTTTTTTCATC
1 TGTTTTTTTTC-TG
*
10639 TGTTTCTTTTC
1 TGTTTTTTTTC
10650 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 5 0.15
13 18 0.53
14 11 0.32
ACGTcount: A:0.02, C:0.10, G:0.14, T:0.75
Consensus pattern (13 bp):
TGTTTTTTTTCTG
Found at i:10642 original size:14 final size:14
Alignment explanation
Indices: 10612--10651 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10602 TTGTTTTTTG
*
10612 TGTTTTTTTTC-TG
1 TGTTTTTTTTCATC
10625 TGTTTTTTTTCATC
1 TGTTTTTTTTCATC
*
10639 TGTTTCTTTTCAT
1 TGTTTTTTTTCAT
10652 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.05, C:0.12, G:0.10, T:0.72
Consensus pattern (14 bp):
TGTTTTTTTTCATC
Found at i:17858 original size:21 final size:20
Alignment explanation
Indices: 17832--17870 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
17822 GTTGGGACCT
17832 TGTATCGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
17853 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
17871 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:21986 original size:13 final size:13
Alignment explanation
Indices: 21968--22058 Score: 65
Period size: 13 Copynumber: 6.1 Consensus size: 13
21958 ATACATAAGT
*
21968 AATGTATTGATAC
1 AATGTATCGATAC
21981 AATGTATCGATAC
1 AATGTATCGATAC
21994 ATAAGTGTTGTATCGATAC
1 --AA----TGTATCGATAC
22013 AATGTATCGATAC
1 AATGTATCGATAC
22026 ATAAGTGTTGTATCGATAC
1 --AA----TGTATCGATAC
22045 AATGTATCGATAC
1 AATGTATCGATAC
22058 A
1 A
22059 TAAGTGTTGT
Statistics
Matches: 65, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 35 0.54
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:21989 original size:32 final size:32
Alignment explanation
Indices: 21953--22085 Score: 239
Period size: 32 Copynumber: 4.2 Consensus size: 32
21943 ACAATAACTA
** *
21953 TATCGATACATAAGTAATGTATTGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
21985 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
22017 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
22049 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
22081 TATCG
1 TATCG
22086 CTATAAAGCT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 98 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:22007 original size:19 final size:19
Alignment explanation
Indices: 21983--22077 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
21973 ATTGATACAA
21983 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
22002 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
22015 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
22034 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
22047 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
22066 TGTATCGATACA
1 TGTATCGATACA
22078 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 34 0.53
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:22131 original size:20 final size:20
Alignment explanation
Indices: 22106--22162 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
22096 ACTGCCAAGG
22106 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
22126 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
22146 AAATGTATCGATACATT
1 AAATGTATCGATACATT
22163 GATCTTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:22172 original size:20 final size:20
Alignment explanation
Indices: 22149--22201 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
22139 CATTACTAAA
22149 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
22169 TGTATCGATACATTGATCTT
1 TGTATCGATACATTGATCTT
22189 TGTATCGATACAT
1 TGTATCGATACAT
22202 CTGGGAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGATCTT
Found at i:22173 original size:40 final size:39
Alignment explanation
Indices: 22106--22182 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 39
22096 ACTGCCAAGG
22106 AAATGTATCGATACATTACTAAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT-AATGTATCGATACATTACT
*
22146 AAATGTATCGATACATTGATCT-TTGTATCGATACATT
1 AAATGTATCGATACATT-A-CTAATGTATCGATACATT
22183 GATCTTTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 31 0.91
41 1 0.03
42 2 0.06
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (39 bp):
AAATGTATCGATACATTACTAATGTATCGATACATTACT
Found at i:30893 original size:15 final size:15
Alignment explanation
Indices: 30869--30921 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
30859 CGTCCTTCTC
* *
30869 AAAAAGCAAAAAAAA
1 AAAAAACAAAAAACA
*
30884 AAAAAAC-AAACACA
1 AAAAAACAAAAAACA
*
30898 AAAAAACAAAAACCA
1 AAAAAACAAAAAACA
30913 AAAAAACAA
1 AAAAAACAA
30922 TACAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAACA
Found at i:30899 original size:21 final size:21
Alignment explanation
Indices: 30875--30914 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30865 TCTCAAAAAG
30875 CAAAAAAAAAAAAAACAAACA
1 CAAAAAAAAAAAAAACAAACA
* *
30896 CAAAAAAACAAAAACCAAA
1 CAAAAAAAAAAAAAACAAA
30915 AAAACAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (21 bp):
CAAAAAAAAAAAAAACAAACA
Found at i:30900 original size:14 final size:14
Alignment explanation
Indices: 30883--30930 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
30873 AGCAAAAAAA
30883 AAAAAAACAAACAC
1 AAAAAAACAAACAC
*
30897 AAAAAAACAAAAACC
1 AAAAAAACAAACA-C
30912 AAAAAAACAATACA-
1 AAAAAAACAA-ACAC
30926 AAAAA
1 AAAAA
30931 GGGAAAGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.57
15 11 0.37
16 2 0.07
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAACAAACAC
Found at i:30902 original size:29 final size:28
Alignment explanation
Indices: 30869--30931 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
30859 CGTCCTTCTC
30869 AAAAAGCAAAAAAAAAAAAAACAAACACA
1 AAAAAGCAAAAAAAAAAAAAAC-AACACA
* ** *
30898 AAAAAACAAAAACCAAAAAAACAATACA
1 AAAAAGCAAAAAAAAAAAAAACAACACA
30926 AAAAAG
1 AAAAAG
30932 GGAAAGGTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.81, C:0.14, G:0.03, T:0.02
Consensus pattern (28 bp):
AAAAAGCAAAAAAAAAAAAAACAACACA
Found at i:30930 original size:15 final size:14
Alignment explanation
Indices: 30881--30930 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
30871 AAAGCAAAAA
30881 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
*
30895 ACAAAAAAACAAA-
1 AAAAAAAAACAAAC
30908 AACCAAAAAAACAATAC
1 AA--AAAAAAACAA-AC
30925 AAAAAA
1 AAAAAA
30931 GGGAAAGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 12 0.40
15 14 0.47
16 1 0.03
17 2 0.07
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:32283 original size:28 final size:28
Alignment explanation
Indices: 32211--32602 Score: 374
Period size: 28 Copynumber: 13.7 Consensus size: 28
32201 CAGTACGGCT
* *
32211 TCTTTACAAAGCCCACAAGTCGGTGGCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGC-A
* * * * *
32240 CCCTTTTTAAAACCCATAAGTCAATGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
32269 TCTTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
32297 TCTTTTCAAAGCCCATAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
32325 CCCCTTTTCAAAGCCCACAAGTTAGTGGCA
1 --TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
32355 CCTTCTCAAAGCCCATAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
32383 CCTTCTCAAAGCCCATAAGTCAGTGGTA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
32411 TCTTTTCAAAGCCCACAAGTCAGTGGTAA
1 TCTTTTCAAAGCCCACAAGTCAGTGG-CA
* *
32440 CCCTTTTCAAAGCCCATAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
32469 -CTATTTCAAAGCTCACAAGTCAGTGGTA
1 TCT-TTTCAAAGCCCACAAGTCAGTGGCA
* *
32497 TCTTTTTAAAGCACACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
32525 CCATTTT-AAAGCCCACAATTAAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
* * *
32553 TCTTTTCAAAACCCACAAGTCAATGACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
32581 TCCTTTCAAAGCCTACACAAGT
1 TCTTTTCAAAGCC--CACAAGT
32603 TGATGGCAAC
Statistics
Matches: 303, Mismatches: 49, Indels: 20
0.81 0.13 0.05
Matches are distributed among these distances:
27 6 0.02
28 213 0.70
29 9 0.03
30 75 0.25
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:32364 original size:86 final size:84
Alignment explanation
Indices: 32211--32602 Score: 396
Period size: 86 Copynumber: 4.6 Consensus size: 84
32201 CAGTACGGCT
* * * * * * *
32211 TCTTTACAAAGCCCACAAGTCGGTGGCAACCCTTTTTAAAACCCATAAGTCAATGGCATCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGC-A-CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
32276 AAAGCCCACAAGTTAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * *
32297 TCTTTTCAAAGCCCATAAGTCAATGGCACCCCTTTTCAAAGCCCACAAGTTAGTGGCACCTTCTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
*
32362 AAAGCCCATAAGTTAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * * * *
32383 CCTTCTCAAAGCCCATAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAGTGGTAACCCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG-CA-CCTTTTC
* *
32448 AAAGCCCATAAGTCAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * * *
32469 -CTATTTCAAAGCTCACAAGTCAGTGGTATCTTTTTAAAGCACACAAGTCAGTGGCACCATTTT-
1 TCT-TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTC
32532 AAAGCCCACAA-TTAAGTGGCA
64 AAAGCCCACAAGTT-AGTGGCA
* * *
32553 TCTTTTCAAAACCCACAAGTCAATGACATCC-TTTCAAAGCCTACACAAGT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCC--CACAAGT
32603 TGATGGCAAC
Statistics
Matches: 259, Mismatches: 37, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
83 1 0.00
84 71 0.27
85 12 0.05
86 175 0.68
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (84 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
AGCCCACAAGTTAGTGGCA
Found at i:32419 original size:114 final size:113
Alignment explanation
Indices: 32212--32593 Score: 405
Period size: 114 Copynumber: 3.4 Consensus size: 113
32202 AGTACGGCTT
* * * * *
32212 CTTTACAAAGCCCACAAGTCGGTGGCAACCCTTTTTAAAACCCATAAGTCAATGGCATCTTTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-CCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCA
* *
32277 AAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATAAGTCAATGGCACCC
64 AAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCA-CC
* * * * *
32328 CTTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCATAAGTTAGTGGCACCTTCTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAA
* * * *
32393 GCCCATAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAGTGGTAACC
66 GCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAATGG-CACC
* * * * *
32442 CTTTTCAAAGCCCATAAGTCAGTGGCA-CTATTTCAAAGCTCACAAGTCAGTGGTATCTTTTTAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAA
* * * *
32506 AGCACACAAGTCAGTGGCACCATTTT-AAAGCCCACAA-TTAAGTGGCA-T
65 AGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAA-TGGCACC
* * *
32554 CTTTTCAAAACCCACAAGTCAATGACATCC-TTTCAAAGCC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCC
32594 TACACAAGTT
Statistics
Matches: 221, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
112 32 0.14
113 5 0.02
114 155 0.70
115 6 0.03
116 23 0.10
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (113 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAA
GCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCACC
Found at i:33524 original size:19 final size:20
Alignment explanation
Indices: 33485--33536 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
33475 TTTCAACAAT
33485 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
33505 TTGTATCGATACAT-AAGTG
1 TTGTATCGATACATAAAGTG
33524 TTGTATCGATACA
1 TTGTATCGATACA
33537 ATGTATCGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:33667 original size:52 final size:52
Alignment explanation
Indices: 33622--33750 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
33612 CACTGATCTT
*
33622 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
*
33674 TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
33726 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
33751 CCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
Found at i:36903 original size:14 final size:13
Alignment explanation
Indices: 36884--36918 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
36874 AGGGGGAACA
36884 AAAAAAAGTTGTCT
1 AAAAAAAGTTGT-T
36898 AAAAAAAGTTGTT
1 AAAAAAAGTTGTT
36911 AAAAAAAG
1 AAAAAAAG
36919 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.60, C:0.03, G:0.14, T:0.23
Consensus pattern (13 bp):
AAAAAAAGTTGTT
Found at i:42687 original size:21 final size:21
Alignment explanation
Indices: 42663--42704 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
42653 GTATCGATAC
42663 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
42684 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
42705 GGCAGTTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:42766 original size:13 final size:13
Alignment explanation
Indices: 42748--42774 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42738 ACAAAACTTA
42748 TGTATCGATACAT
1 TGTATCGATACAT
42761 TGTATCGATACAT
1 TGTATCGATACAT
42774 T
1 T
42775 TACTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43495 original size:42 final size:41
Alignment explanation
Indices: 43393--43501 Score: 96
Period size: 42 Copynumber: 2.6 Consensus size: 41
43383 AAATAGGTCT
* * *
43393 TGCTCCTTGAGGACAAAGGAAGAGAGGAAAAGGAAAGTGTCC
1 TGCTCTTTGAGGACAAAAGAA-AAAGGAAAAGGAAAGTGTCC
* ** *
43435 TG-TTTCTTGAGGGTAAAAGAAAAAGGAAAA-TAAAGTGCATCC
1 TGCTCT-TTGAGGACAAAAGAAAAAGGAAAAGGAAAGTG--TCC
43477 TGCTCTTTGAGGACAAAAGAGAAAA
1 TGCTCTTTGAGGACAAAAGA-AAAA
43502 AAAGGGAAGG
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
40 6 0.12
41 9 0.17
42 31 0.60
43 6 0.12
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (41 bp):
TGCTCTTTGAGGACAAAAGAAAAAGGAAAAGGAAAGTGTCC
Found at i:43610 original size:61 final size:58
Alignment explanation
Indices: 43523--43806 Score: 274
Period size: 61 Copynumber: 4.8 Consensus size: 58
43513 AGTGTGTCCC
* * * *
43523 GCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCT
1 GCTCTTTGAGGACTGAAGA-TGCCACCAACTTGTGTGGGCTTTGAAAA-AAAA-GCATCCT
*
43584 GC-CTTTTGAGGACTGGAAGATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCCT
1 GCTC-TTTGAGGACT-GAAGATGCCACCAACTTGTGTGGGCTTTG-AAAAA-AAAGCATCCT
* * * * *
43645 ACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCAT
1 GCTCTTTGAGGACTGAAGA-TGCCACCAACTTGTGTGGGCTTTGAAAA--A-AAAGCATCCT
* * *
43706 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTT----AAAAAGCATCCT
1 GCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGCATCCT
* * *
43760 GATATTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTGAAA
1 GCTCTTTGAGGACTGAA-GATGCCACCAACTTGTGTGGGCTTTGAAA
43807 GGTGTCTTGC
Statistics
Matches: 187, Mismatches: 23, Indels: 28
0.79 0.10 0.12
Matches are distributed among these distances:
54 22 0.12
55 24 0.13
57 1 0.01
59 4 0.02
60 26 0.14
61 98 0.52
62 12 0.06
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (58 bp):
GCTCTTTGAGGACTGAAGATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGCATCCT
Found at i:43797 original size:115 final size:118
Alignment explanation
Indices: 43527--43808 Score: 369
Period size: 122 Copynumber: 2.4 Consensus size: 118
43517 TGTCCCGCTC
* * *
43527 TTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCGTCCTGCCTTTT
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCATGCCTTTT
*
43591 GAGGACTGGAAGATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGCATCCTACTC
65 GAGGACTGGAAGATGCCACCAACTTATGTGGGCTTT----AAAGAAAGCATCCTACTA
*
43649 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCATG-CTCTTT
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATGCCT-TTT
* *
43713 GAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTT-AA-AAAGCATCCTGA-TA
65 GAGGACTGGAAGATGCCACCAACTTATGTGGGCTTTAAAGAAAGCATCCT-ACTA
** *
43764 TTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
43809 TGTCTTGCTC
Statistics
Matches: 147, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
115 53 0.36
116 3 0.02
121 32 0.22
122 59 0.40
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (118 bp):
TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATGCCTTTTG
AGGACTGGAAGATGCCACCAACTTATGTGGGCTTTAAAGAAAGCATCCTACTA
Found at i:43823 original size:55 final size:54
Alignment explanation
Indices: 43646--43833 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
43636 AAGCATCCTA
*
43646 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCATG
1 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCATG
* * * * * *
43707 CTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAGCATCCTG
1 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATG
* * * *
43761 ATATTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTG
1 CTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATG
*
43816 CTCTTTGAGGACTAAAGG
1 CTCTTTGAGGACTGAAGG
43834 GTGAAAGGAG
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
54 24 0.22
55 45 0.42
60 24 0.22
61 14 0.13
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (54 bp):
CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCATG
Found at i:43938 original size:155 final size:148
Alignment explanation
Indices: 43689--43963 Score: 374
Period size: 155 Copynumber: 1.8 Consensus size: 148
43679 GTGGGCTTTA
*
43689 AAAGGAGAAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAG
1 AAAGGAGAAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAG
** *
43754 CATCCTGATATTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTC
66 CATCCTGATATTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTC
43819 TTTGAGGACTAAAGGGTG
131 TTTGAGGACTAAAGGGTG
* *
43837 AAAGGAG-AGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGCA
1 AAAGGAGAAG-GCGTCATGCTCTTTGAGGACT--GAAGGTGCCACCAACTTATGTGGGCTTT---
* * *
43900 AAAAGAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
60 --AA-AAAGCATCCTGATATTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
43964 AGAAGGTGTC
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
147 2 0.02
148 27 0.25
149 22 0.20
150 3 0.03
154 2 0.02
155 53 0.49
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (148 bp):
AAAGGAGAAGGCGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAG
CATCCTGATATTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTC
TTTGAGGACTAAAGGGTG
Found at i:44053 original size:115 final size:117
Alignment explanation
Indices: 43849--44078 Score: 322
Period size: 115 Copynumber: 1.9 Consensus size: 117
43839 AGGAGAGAGC
* *
43849 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCGTCC
1 GTCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTATGTGGGCTTT--AAAAAG--AGCATCC
*
43914 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
61 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGT
* *
43971 GTCCTGTTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTT-AAAAG-GCATCCTGCT
1 GTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTATGTGGGCTTTAAAAAGAGCATCCTGCT
* *
44033 TTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG
65 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGG
44079 CGTCCTGCTC
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
115 52 0.52
118 5 0.05
120 3 0.03
121 22 0.22
122 18 0.18
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (117 bp):
GTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTATGTGGGCTTTAAAAAGAGCATCCTGCTC
TTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGT
Found at i:44058 original size:270 final size:270
Alignment explanation
Indices: 43577--44206 Score: 1018
Period size: 270 Copynumber: 2.3 Consensus size: 270
43567 AAAAGAAAAG
*
43577 GCGTCCTGC-CTTTTGAGGACT-GGAAGATGCCACCAACTTATGTGGGCTTTGCAAAAAGAAAGC
1 GCGTCCTGCTC-TTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGC
*
43640 ATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCA
64 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCA
43705 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAGCATCCTGATATTTGAG
129 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAGCATCCTGATATTTGAG
* * * * *
43770 GACTGAATGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTAAAGGG
194 GACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
43835 TGAAAGGAGAGA
259 TGAAAGGAGAGA
*
43847 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCGT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
* *
43912 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTG
66 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCATG
* * * *
43977 TTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGGCATCCTGCTTTTTGAGGA
131 CTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAGCATCCTGATATTTGAGGA
44042 CTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
196 CTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
44107 AAAGGAGAGA
261 AAAGGAGAGA
* * * *
44117 ACGTCCTGCTCTTTGAGGAC-ATGAAGGTGCCACCAACTTGTGTGAGCTTT--AAAAGGAAAAGG
1 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGCAAAAAG-AAA-G
44179 CATCCTGCTCTTTGAGGACTGAAAAGTG
63 CATCCTGCTCTTTGAGGACTGAAAAGTG
44207 GAAGGAGAAG
Statistics
Matches: 336, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
268 5 0.01
269 7 0.02
270 318 0.95
271 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (270 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCATG
CTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAGCATCCTGATATTTGAGGA
CTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG
AAAGGAGAGA
Found at i:44072 original size:55 final size:56
Alignment explanation
Indices: 43844--44103 Score: 287
Period size: 61 Copynumber: 4.5 Consensus size: 56
43834 GTGAAAGGAG
* *
43844 AGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTGCAAAA
1 AGAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT---AAA
* *
43903 AGAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 AG--AGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
* * * *
43961 AGGAGAAGGTGTCCTGTTCTTTGAGGACTG-AAGGTGCCACCAGCTTATGTGGGCTTTAAA
1 A-GAGCA----TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
* *
44021 AG-GCATCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAA
1 AGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
*
44076 AG-GCGTCCTGCTCTTTGAGGACT-AAAGG
1 AGAGCATCCTGCTCTTTGAGGACTGAAAGG
44104 GTGAAAGGAG
Statistics
Matches: 177, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
54 22 0.12
55 48 0.27
57 2 0.01
58 6 0.03
59 4 0.02
60 31 0.18
61 64 0.36
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (56 bp):
AGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
Found at i:45180 original size:1 final size:1
Alignment explanation
Indices: 45174--45266 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
45164 CCAGTTCTTC
* * * * * * * * *
45174 TTTTTTTTTTCTTTTTTTTCTTTGTTTTGTTTTTTGTCTTTTTTTTGTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
45239 GTTTTTTTTGTTGTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
45267 GAAAAAGAAT
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:45190 original size:9 final size:9
Alignment explanation
Indices: 45176--45267 Score: 105
Period size: 9 Copynumber: 10.0 Consensus size: 9
45166 AGTTCTTCTT
*
45176 TTTTTTTTC
1 TTTTTTTTG
*
45185 TTTTTTTTC
1 TTTTTTTTG
*
45194 TTTGTTTTG
1 TTTTTTTTG
* *
45203 TTTTTTGTC
1 TTTTTTTTG
45212 TTTTTTTTG
1 TTTTTTTTG
45221 TTGTTTTTT-
1 TT-TTTTTTG
45230 TGTTTTTTTG
1 T-TTTTTTTG
45240 TTTTTTTTG
1 TTTTTTTTG
45249 TTGTTTTTTG
1 TT-TTTTTTG
45259 TTTTTTTTG
1 TTTTTTTTG
45268 AAAAAGAATG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
9 55 0.76
10 17 0.24
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:45214 original size:38 final size:35
Alignment explanation
Indices: 45178--45266 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 35
45168 TTCTTCTTTT
*
45178 TTTTTTCTTTTTTTTCTTTGTTTTGTTTTTTGTCTTT
1 TTTTTTTTTTTTTTTCTTT-TTTTGTTTTTT-TCTTT
* *
45215 TTTTTGTTGTTTTTTTGTTTTTTTGTTTTTTT-TGTT
1 TTTTT-TTTTTTTTTTCTTTTTTTGTTTTTTTCT-TT
*
45251 GTTTTTTGTTTTTTTT
1 -TTTTTTTTTTTTTTT
45267 GAAAAAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 1 0.02
36 11 0.25
37 21 0.48
38 11 0.25
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (35 bp):
TTTTTTTTTTTTTTTCTTTTTTTGTTTTTTTCTTT
Found at i:45267 original size:28 final size:28
Alignment explanation
Indices: 45176--45266 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
45166 AGTTCTTCTT
* *
45176 TTTTTTTTCTTTTTTTTCTT-TGTTTTG
1 TTTTTTTTCTTTTTTTTGTTGTTTTTTG
*
45203 TTTTTTGTCTTTTTTTTGTTGTTTTTT-
1 TTTTTTTTCTTTTTTTTGTTGTTTTTTG
*
45230 TGTTTTTTTGTTTTTTTTGTTGTTTTTTG
1 T-TTTTTTTCTTTTTTTTGTTGTTTTTTG
45259 TTTTTTTT
1 TTTTTTTT
45267 GAAAAAGAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.34
28 36 0.64
29 1 0.02
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTTTGTTGTTTTTTG
Found at i:59133 original size:21 final size:20
Alignment explanation
Indices: 59107--59145 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
59097 GTTGGGACCT
59107 TGTATCGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
59128 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
59146 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:63250 original size:19 final size:19
Alignment explanation
Indices: 63203--63286 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 19
63193 TTCAACAATT
*
63203 TGTATCGATACAAACAGTAA
1 TGTATCGATACATA-AGTAA
*
63223 CTATATCGATACATAAGTAA
1 -TGTATCGATACATAAGTAA
63243 TGTATCGATAC------AA
1 TGTATCGATACATAAGTAA
**
63256 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTAA
63275 TGTATCGATACA
1 TGTATCGATACA
63287 ATGTATCGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
13 13 0.25
19 22 0.42
20 5 0.10
21 12 0.23
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATAAGTAA
Found at i:63259 original size:13 final size:13
Alignment explanation
Indices: 63241--63299 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 13
63231 ATACATAAGT
63241 AATGTATCGATAC
1 AATGTATCGATAC
63254 AATGTATCGATAC
1 AATGTATCGATAC
63267 ATAAGTGTTGTATCGATAC
1 --AA----TGTATCGATAC
63286 AATGTATCGATAC
1 AATGTATCGATAC
63299 A
1 A
63300 TAAGTGTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 25 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:63267 original size:32 final size:32
Alignment explanation
Indices: 63226--63326 Score: 175
Period size: 32 Copynumber: 3.2 Consensus size: 32
63216 ACAGTAACTA
**
63226 TATCGATACATAAGTAATGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
63258 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
63290 TATCGATACATAAGTGTTGTATCAATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
63322 TATCG
1 TATCG
63327 CTATAAAGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:63312 original size:19 final size:19
Alignment explanation
Indices: 63256--63318 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
63246 ATCGATACAA
63256 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
63275 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
63288 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
63307 TGTATCAATACA
1 TGTATCGATACA
63319 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:72129 original size:14 final size:14
Alignment explanation
Indices: 72112--72159 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
72102 AAAGCAAAAA
72112 AAAAAAACAAACAC
1 AAAAAAACAAACAC
*
72126 AAAAAAACAAAAACC
1 AAAAAAACAAACA-C
72141 AAAAAAACAATACA-
1 AAAAAAACAA-ACAC
72155 AAAAA
1 AAAAA
72160 GGGAAAGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.57
15 11 0.37
16 2 0.07
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAACAAACAC
Found at i:72129 original size:15 final size:15
Alignment explanation
Indices: 72111--72159 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
72101 AAAAGCAAAA
72111 AAAAAAAACAAACAC
1 AAAAAAAACAAACAC
*
72126 -AAAAAAACAAAAAC
1 AAAAAAAACAAACAC
*
72140 CAAAAAAACAATACA-
1 AAAAAAAACAA-ACAC
72155 AAAAA
1 AAAAA
72160 GGGAAAGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 13 0.45
15 14 0.48
16 2 0.07
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAAAAACAAACAC
Found at i:72132 original size:28 final size:27
Alignment explanation
Indices: 72100--72159 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
72090 CGTCCTTCTC
*
72100 AAAAAGCAAAAA-AAAAAAACAAACACA
1 AAAAAACAAAAACAAAAAAAC-AACACA
*
72127 AAAAAACAAAAACCAAAAAAACAATACA
1 AAAAAACAAAAA-CAAAAAAACAACACA
72155 AAAAA
1 AAAAA
72160 GGGAAAGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.38
28 10 0.34
29 8 0.28
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.02
Consensus pattern (27 bp):
AAAAAACAAAAACAAAAAAACAACACA
Found at i:73511 original size:28 final size:28
Alignment explanation
Indices: 73439--73830 Score: 374
Period size: 28 Copynumber: 13.7 Consensus size: 28
73429 CAGTACGGCT
*
73439 TCTTTACAAAGCCCACAAGTCAGTGGCAA
1 TCTTTTCAAAGCCCACAAGTCAGTGGC-A
* * * * *
73468 CCCTTTTTAAAACCCATAAGTCAATGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
73497 TCTTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
73525 TCTTTTCAAAGCCCATAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
73553 CCCCTTTTCAAAGCCCACAAGTTAGTGGCA
1 --TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
73583 CCTTCTCAAAGCCCATAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
73611 CCTTCTCAAAGCCCATAAGTCAGTGGTA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
73639 TCTTTTCAAAGCCCACAAGTCAGTGGTAA
1 TCTTTTCAAAGCCCACAAGTCAGTGG-CA
* *
73668 CCCTTTTCAAAGCCCATAAGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
73697 -CTATTTCAAAGCTCACAAGTCAGTGGTA
1 TCT-TTTCAAAGCCCACAAGTCAGTGGCA
* * *
73725 TCTTTTTAAAGCACACAAGTCAGTGGTA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
73753 CCATTTT-AAAGCCCACAATTAAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
* * *
73781 TCTTTTCAAAACCCACAAGTCAATGACA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
73809 TCCTTTCAAAGCCTACACAAGT
1 TCTTTTCAAAGCC--CACAAGT
73831 TGATGGCAAC
Statistics
Matches: 304, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
27 6 0.02
28 213 0.70
29 9 0.03
30 76 0.25
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:73592 original size:86 final size:84
Alignment explanation
Indices: 73439--73830 Score: 396
Period size: 86 Copynumber: 4.6 Consensus size: 84
73429 CAGTACGGCT
* * * * * *
73439 TCTTTACAAAGCCCACAAGTCAGTGGCAACCCTTTTTAAAACCCATAAGTCAATGGCATCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGC-A-CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
73504 AAAGCCCACAAGTTAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * *
73525 TCTTTTCAAAGCCCATAAGTCAATGGCACCCCTTTTCAAAGCCCACAAGTTAGTGGCACCTTCTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
*
73590 AAAGCCCATAAGTTAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * * * *
73611 CCTTCTCAAAGCCCATAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAGTGGTAACCCTTTTC
1 TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGG-CA-CCTTTTC
* *
73676 AAAGCCCATAAGTCAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * * * *
73697 -CTATTTCAAAGCTCACAAGTCAGTGGTATCTTTTTAAAGCACACAAGTCAGTGGTACCATTTT-
1 TCT-TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTTC
73760 AAAGCCCACAA-TTAAGTGGCA
64 AAAGCCCACAAGTT-AGTGGCA
* * *
73781 TCTTTTCAAAACCCACAAGTCAATGACATCC-TTTCAAAGCCTACACAAGT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCC--CACAAGT
73831 TGATGGCAAC
Statistics
Matches: 260, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
83 1 0.00
84 71 0.27
85 12 0.05
86 176 0.68
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (84 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
AGCCCACAAGTTAGTGGCA
Found at i:73647 original size:114 final size:113
Alignment explanation
Indices: 73440--73821 Score: 414
Period size: 114 Copynumber: 3.4 Consensus size: 113
73430 AGTACGGCTT
* * * *
73440 CTTTACAAAGCCCACAAGTCAGTGGCAACCCTTTTTAAAACCCATAAGTCAATGGCATCTTTTCA
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-CCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCA
* * *
73505 AAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCATAAGTCAATGGCACCC
64 AAGCCCACAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAATGGCA-CC
* * * * *
73556 CTTTTCAAAGCCCACAAGTTAGTGGCACCTTCTCAAAGCCCATAAGTTAGTGGCACCTTCTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAA
* * *
73621 GCCCATAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAGTGGTAACC
66 GCCCACAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAATGG-CACC
* * * * *
73670 CTTTTCAAAGCCCATAAGTCAGTGGCA-CTATTTCAAAGCTCACAAGTCAGTGGTATCTTTTTAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAA
* * * *
73734 AGCACACAAGTCAGTGGTACCATTTT-AAAGCCCACAA-TTAAGTGGCA-T
65 AGCCCACAAGTCAGTGGTATC-TTTTCAAAGCCCACAAGTCAA-TGGCACC
* * *
73782 CTTTTCAAAACCCACAAGTCAATGACATCC-TTTCAAAGCC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCC
73822 TACACAAGTT
Statistics
Matches: 223, Mismatches: 37, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
112 32 0.14
113 5 0.02
114 156 0.70
115 6 0.03
116 24 0.11
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (113 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAA
GCCCACAAGTCAGTGGTATCTTTTCAAAGCCCACAAGTCAATGGCACC
Found at i:74755 original size:19 final size:20
Alignment explanation
Indices: 74716--74767 Score: 97
Period size: 19 Copynumber: 2.6 Consensus size: 20
74706 TTTCAGCAAT
74716 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
74736 TTGTATCGATACAT-AAGTG
1 TTGTATCGATACATAAAGTG
74755 TTGTATCGATACA
1 TTGTATCGATACA
74768 ATGTATCGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:74838 original size:13 final size:13
Alignment explanation
Indices: 74820--74891 Score: 84
Period size: 13 Copynumber: 5.9 Consensus size: 13
74810 ATTACTCAAA
74820 TGTATCGATACAT
1 TGTATCGATACAT
74833 TGTATCGATACA-
1 TGTATCGATACAT
74845 T-TACTC-A-A-A-
1 TGTA-TCGATACAT
74854 TGTATCGATACAT
1 TGTATCGATACAT
74867 TGTATCGATACAT
1 TGTATCGATACAT
*
74880 TGTATTGATACA
1 TGTATCGATACA
74892 CTGATCTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 4 0.08
12 4 0.08
13 36 0.69
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74842 original size:34 final size:34
Alignment explanation
Indices: 74799--74880 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
74789 GCCAAGAAAA
74799 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
74833 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
74867 TGTATCGATACATT
1 TGTATCGATACATT
74881 GTATTGATAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:74958 original size:52 final size:52
Alignment explanation
Indices: 74900--75028 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
74890 CACTGATCTT
* *
74900 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
*
74952 TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
75004 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
75029 CCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
Done.