Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 23 of 160
Found at i:6254979 original size:25 final size:25
Alignment explanation
Indices: 6254930--6254986 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
6254920 CAAGAGAAAT
* *
6254930 CTTTTTTTTTCTTTTTTATTTTTTGG
1 CTTTTTTTTACTTTTTGATTTTTT-G
*
6254956 CTTTTTTTTAGTTTTTGA-TTTTTG
1 CTTTTTTTTACTTTTTGATTTTTTG
6254980 -TTTTTTT
1 CTTTTTTT
6254987 AATTAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 1 0.04
25 5 0.18
26 15 0.54
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.81
Consensus pattern (25 bp):
CTTTTTTTTACTTTTTGATTTTTTG
Found at i:6255226 original size:22 final size:22
Alignment explanation
Indices: 6255175--6255294 Score: 80
Period size: 22 Copynumber: 5.5 Consensus size: 22
6255165 TGTTTGCTCA
* * **
6255175 GAGGTTTTAGAGATTATACTCA
1 GAGGTCTTAGAGATTATGCTTG
*
6255197 GAGATCTTAGAGATTATGCTTG
1 GAGGTCTTAGAGATTATGCTTG
* ***
6255219 GAGGTCTTAAAGATTATGCCCA
1 GAGGTCTTAGAGATTATGCTTG
* * * *
6255241 TAAGTCTTACAGAATATGCTTG
1 GAGGTCTTAGAGATTATGCTTG
* * *
6255263 AAGGTTTTAGATATTATG-TTG
1 GAGGTCTTAGAGATTATGCTTG
*
6255284 AAGGTCTTAGA
1 GAGGTCTTAGA
6255295 AATCATTTAA
Statistics
Matches: 74, Mismatches: 24, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
21 13 0.18
22 61 0.82
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (22 bp):
GAGGTCTTAGAGATTATGCTTG
Found at i:6255635 original size:23 final size:23
Alignment explanation
Indices: 6255587--6255644 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
6255577 AGGTGCCAGT
* *
6255587 TAATCTGAACTTAAAGTACTAGC
1 TAATTTGAGCTTAAAGTACTAGC
*
6255610 TAATTTGAGCTTAAAGTGCCTA-C
1 TAATTTGAGCTTAAAGT-ACTAGC
*
6255633 TAATTTGGGCTT
1 TAATTTGAGCTT
6255645 CGGTACCAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (23 bp):
TAATTTGAGCTTAAAGTACTAGC
Found at i:6255734 original size:33 final size:33
Alignment explanation
Indices: 6255663--6255734 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
6255653 GGTAAATTGA
* * *
6255663 TTTAAATATTATTTGGGTGCTAGCTATTCTAAG
1 TTTAAATATTATTTGGATGCCAGCTAATCTAAG
* *
6255696 CTTAAATATTATTTGGATGCCAGCTAATCTACG
1 TTTAAATATTATTTGGATGCCAGCTAATCTAAG
6255729 TTTAAA
1 TTTAAA
6255735 GTTTAAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (33 bp):
TTTAAATATTATTTGGATGCCAGCTAATCTAAG
Found at i:6256101 original size:19 final size:18
Alignment explanation
Indices: 6256042--6256102 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 18
6256032 ATAGACTTTC
6256042 TTCTCTCTTTTTGCTTTTTT
1 TTCTCT-TTTTTG-TTTTTT
* *
6256062 TTGCTATTTTTTTTTTCTTT
1 TT-CTCTTTTTTGTTT-TTT
6256082 TTCTCTTTCTTTGTTTTTT
1 TTCTCTTT-TTTGTTTTTT
6256101 TT
1 TT
6256103 TGTTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 13 0.38
20 18 0.53
21 3 0.09
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.79
Consensus pattern (18 bp):
TTCTCTTTTTTGTTTTTT
Found at i:6257880 original size:141 final size:142
Alignment explanation
Indices: 6257557--6257898 Score: 388
Period size: 141 Copynumber: 2.4 Consensus size: 142
6257547 TTCTTTGCTC
* * * *
6257557 TTTTTTTTTTTTTTGAGAAATAGTTGACTTCAACTTTAGTATTCTAT-TTTTTTGAATTATATTT
1 TTTTTTTTTTTTTT-AGAAATATTTGACTTCATCTTTAGCATTCT-TCTTTCTTGAATTATATTT
** * * * * * * *
6257621 TTTTGAAGCTTCATTCATTTTTTGCCTTGGACTCTTATCTTTGGGGTGCATGTCTTTTTTTTTTG
64 TTTTGAAGCTTCATTCATTTTTTGCCTCAGACTCTCATATTCGAGGTGCATGTCTTTCTTCTTTA
6257686 CTCTTTTTTATTTA
129 CTCTTTTTTATTTA
* * * *
6257700 TTTATTTTTTTTTTTAAAAATATTTAACTTTATCTTTAGCATTCTTCTTTCTTGAATTTTA-TTT
1 TTT-TTTTTTTTTTTAGAAATATTTGACTTCATCTTTAGCATTCTTCTTTCTTGAATTATATTTT
**
6257764 TTTGAAGCTTCATTCACTTTTTT-CC-CAGACTCTCATATTCGATTTGCATGTCTTTCTTCTTTA
65 TTTGAAGCTTCATTCA-TTTTTTGCCTCAGACTCTCATATTCGAGGTGCATGTCTTTCTTCTTTA
6257827 CTCTTTTTTTATTTTA
129 CTC-TTTTTTA-TTTA
* * * *
6257843 TTTTATTTTTTTTT-GAAATATTTGACTTCATTTTTAGCAATCTACTTTCTTGAATT
1 TTTTTTTTTTTTTTAGAAATATTTGACTTCATCTTTAGCATTCTTCTTTCTTGAATT
6257899 CTTGGGATTC
Statistics
Matches: 168, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
141 66 0.39
142 39 0.23
143 52 0.31
144 11 0.07
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.59
Consensus pattern (142 bp):
TTTTTTTTTTTTTTAGAAATATTTGACTTCATCTTTAGCATTCTTCTTTCTTGAATTATATTTTT
TTGAAGCTTCATTCATTTTTTGCCTCAGACTCTCATATTCGAGGTGCATGTCTTTCTTCTTTACT
CTTTTTTATTTA
Found at i:6258237 original size:12 final size:13
Alignment explanation
Indices: 6258208--6258244 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6258198 GAGATAAAAA
6258208 TCTTT-TTTTTAT
1 TCTTTATTTTTAT
*
6258220 TTTTTATTTTT-T
1 TCTTTATTTTTAT
6258232 TCTTTATTTTTAT
1 TCTTTATTTTTAT
6258245 GTTATAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (13 bp):
TCTTTATTTTTAT
Found at i:6260432 original size:13 final size:13
Alignment explanation
Indices: 6260414--6260447 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6260404 TTGGTTAAAT
6260414 AATAAAATAATAA
1 AATAAAATAATAA
6260427 AATAAAATAATAA
1 AATAAAATAATAA
6260440 AA-AAAATA
1 AATAAAATA
6260448 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:6261631 original size:12 final size:12
Alignment explanation
Indices: 6261599--6261632 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6261589 TTATAATAAT
*
6261599 TAATAATAATGA
1 TAATAATATTGA
*
6261611 CAATAATATTGA
1 TAATAATATTGA
6261623 TAATAATATT
1 TAATAATATT
6261633 AGTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (12 bp):
TAATAATATTGA
Found at i:6262071 original size:30 final size:30
Alignment explanation
Indices: 6262047--6262121 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
6262037 AAAACACTTG
6262047 AAACCCTAAAATTAAAACCCAAAACCATCT
1 AAACCCTAAAATTAAAACCCAAAACCATCT
*
6262077 AAACCCTAAAATTGAAACCCAAAACCA--T
1 AAACCCTAAAATTAAAACCCAAAACCATCT
* *
6262105 AAACCTTAAAATCAAAA
1 AAACCCTAAAATTAAAA
6262122 TCTTAAACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 15 0.37
30 26 0.63
ACGTcount: A:0.56, C:0.27, G:0.01, T:0.16
Consensus pattern (30 bp):
AAACCCTAAAATTAAAACCCAAAACCATCT
Found at i:6262130 original size:58 final size:61
Alignment explanation
Indices: 6262023--6262146 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 61
6262013 TTAAAATTTA
* * * * *
6262023 AAAATTTAAACCCTAAAACACTTGAAACCCTAAAATTAAAACCCAAAACCATCTAAACCCT
1 AAAATTGAAACCCTAAAACACATGAAACCCTAAAATCAAAACCCAAAACCACCAAAACCCT
* * ** *
6262084 AAAATTGAAACCC-AAAAC-CAT-AAACCTTAAAATCAAAATCTTAAACCCCCAAAACCCT
1 AAAATTGAAACCCTAAAACACATGAAACCCTAAAATCAAAACCCAAAACCACCAAAACCCT
6262142 AAAAT
1 AAAAT
6262147 CAAGACCTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
58 34 0.64
59 2 0.04
60 5 0.09
61 12 0.23
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (61 bp):
AAAATTGAAACCCTAAAACACATGAAACCCTAAAATCAAAACCCAAAACCACCAAAACCCT
Found at i:6263868 original size:20 final size:20
Alignment explanation
Indices: 6263843--6263891 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
6263833 TATATTCTGT
6263843 TTTG-TTATATATTATACTTG
1 TTTGTTTATATATT-TACTTG
* *
6263863 TTTGTTTATTTATTTACTTA
1 TTTGTTTATATATTTACTTG
*
6263883 TTTATTTAT
1 TTTGTTTAT
6263892 TTGTTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTGTTTATATATTTACTTG
Found at i:6272098 original size:19 final size:18
Alignment explanation
Indices: 6272074--6272121 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
6272064 TATTTTGCTT
6272074 AAAAAAAAGATGC-AAAAAG
1 AAAAAAAA-A-GCAAAAAAG
6272093 AAAAAAAAAGCAAAAAAAG
1 AAAAAAAAAGC-AAAAAAG
6272112 AAAAAAAAAG
1 AAAAAAAAAG
6272122 AGATGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
19 24 0.89
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGCAAAAAAG
Found at i:6272100 original size:10 final size:10
Alignment explanation
Indices: 6272087--6272122 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
6272077 AAAAAGATGC
6272087 AAAAAGAAAA
1 AAAAAGAAAA
*
6272097 AAAAAG-CAA
1 AAAAAGAAAA
6272106 AAAAAGAAAA
1 AAAAAGAAAA
6272116 AAAAAGA
1 AAAAAGA
6272123 GATGATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:6273349 original size:34 final size:35
Alignment explanation
Indices: 6273310--6273384 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
6273300 TGACTTACAG
* * *
6273310 TTAATCCCGAT-ATCTTTATTTTTTAAATCGCAGT
1 TTAATCCCAATCAACTTTATATTTTAAATCGCAGT
* * *
6273344 TTAATCCCAATCAACTTTATATTTTGACTCGCGGT
1 TTAATCCCAATCAACTTTATATTTTAAATCGCAGT
6273379 TTAATC
1 TTAATC
6273385 TTGGGTTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (35 bp):
TTAATCCCAATCAACTTTATATTTTAAATCGCAGT
Found at i:6273483 original size:33 final size:33
Alignment explanation
Indices: 6273391--6273485 Score: 120
Period size: 34 Copynumber: 2.9 Consensus size: 33
6273381 AATCTTGGGT
* * **
6273391 TCTTTTT-TTTTTGACTTGTAGTTCAATCCTGA
1 TCTTTTTATATTTGACTTGTGGTTCAATCCCAA
* *
6273423 TCTTTTTATTATTCGACTTGTGATTCAATCCCAA
1 TCTTTTTA-TATTTGACTTGTGGTTCAATCCCAA
6273457 TCTTTTTATATTTGACTTGTGGTTCAATC
1 TCTTTTTATATTTGACTTGTGGTTCAATC
6273486 TAAGTTGTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 7 0.13
33 19 0.36
34 27 0.51
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.53
Consensus pattern (33 bp):
TCTTTTTATATTTGACTTGTGGTTCAATCCCAA
Found at i:6273676 original size:101 final size:103
Alignment explanation
Indices: 6273564--6273798 Score: 288
Period size: 101 Copynumber: 2.3 Consensus size: 103
6273554 GTTTAATCCT
**
6273564 GATC-TCTTTATTTTTTGACTTGTGGTTCAATCCCAGT-TA-TTATTTTTTTGACTCATGATTTA
1 GATCATCTTTATTTTTTGACTTGTGGTTCAATCCCAGTCTATTTA-TTTTTTGACTCACAATTTA
*
6273626 ATCATGATCTCTTTATTTTTTGACTTACGGTTTAATTTC
65 ATCATGATCTCTTTATTTTTTGACTTACGGTTCAATTTC
* * * *
6273665 -AGTC-T-TTT-TATTTTGACTTGTGGTTCAATCTCAGTCGTCTTTATTTTTTGACTCGCAATTT
1 GA-TCATCTTTATTTTTTGACTTGTGGTTCAATCCCAGTC-TATTTATTTTTTGACTCACAATTT
* *
6273726 AATCTTGATCTCTTTATTTTTTGACTTGCGGTTCAATTTC
64 AATCATGATCTCTTTATTTTTTGACTTACGGTTCAATTTC
*
6273766 GATCATCTTTATTTTTTGA-TTCATGGTTCAATC
1 GATCATCTTTATTTTTTGACTT-GTGGTTCAATC
6273799 TTATCTCTTT
Statistics
Matches: 114, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
99 25 0.22
100 4 0.04
101 58 0.51
102 5 0.04
103 5 0.04
104 17 0.15
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.53
Consensus pattern (103 bp):
GATCATCTTTATTTTTTGACTTGTGGTTCAATCCCAGTCTATTTATTTTTTGACTCACAATTTAA
TCATGATCTCTTTATTTTTTGACTTACGGTTCAATTTC
Found at i:6273679 original size:32 final size:32
Alignment explanation
Indices: 6273635--6273711 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
6273625 AATCATGATC
* *
6273635 TCTTTATT-TTTTGACTTACGGTTTAATTTCAG
1 TCTTT-TTATTTTGACTTACGGTTCAATCTCAG
**
6273667 TCTTTTTATTTTGACTTGTGGTTCAATCTCAG
1 TCTTTTTATTTTGACTTACGGTTCAATCTCAG
*
6273699 TCGTCTTTATTTT
1 TC-TTTTTATTTT
6273712 TTGACTCGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 2 0.05
32 27 0.71
33 9 0.24
ACGTcount: A:0.16, C:0.14, G:0.13, T:0.57
Consensus pattern (32 bp):
TCTTTTTATTTTGACTTACGGTTCAATCTCAG
Found at i:6273706 original size:67 final size:66
Alignment explanation
Indices: 6273631--6273923 Score: 220
Period size: 69 Copynumber: 4.3 Consensus size: 66
6273621 ATTTAATCAT
*
6273631 GATC-TCTTTATTTTTTGACTTACGGTTTAAT-TTCAGTCTTTTTATTTTGACTTGTGGTTCAAT
1 GATCGTCTTTATTTTTTGACTTACGGTTTAATCTT-A-TCTTTTTATTTTGACTTGCGGTTCAAT
6273694 CTC
64 CTC
** ** *
6273697 -AGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATCTCTTTATTTTTTGACTTGCGGTTCA
1 GA-TCGTCTTTATTTTTTGACTTACGGTTTAATCTT-ATCT-TTT-TATTTTGACTTGCGGTTCA
*
6273761 ATTTC
62 ATCTC
* * * * * * * *
6273766 GATCATCTTTATTTTTTGA-TTCATGGTTCAATCTTATCTCTTTATTTCTAAATTGCAGTTTAAT
1 GATCGTCTTTATTTTTTGACTT-ACGGTTTAATCTTATCTTTTTATTT-TGACTTGCGGTTCAAT
6273830 CTC
64 CTC
* * * * * *
6273833 GATCGTCTTTATTTTTTGAC-T-CGTAATTTATTCTTGATATTGTTATTTTCTGACTTGAGATTC
1 GATCGTCTTTATTTTTTGACTTACG--GTTTAATCTT-ATCTTTTTA-TTT-TGACTTGCGGTTC
6273896 AATCTC
61 AATCTC
* *
6273902 AATCGTCATTATTTTTTGACTT
1 GATCGTCTTTATTTTTTGACTT
6273924 GTTATTTAAT
Statistics
Matches: 175, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
65 2 0.01
66 6 0.03
67 68 0.39
68 17 0.10
69 80 0.46
70 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (66 bp):
GATCGTCTTTATTTTTTGACTTACGGTTTAATCTTATCTTTTTATTTTGACTTGCGGTTCAATCT
C
Found at i:6273777 original size:69 final size:69
Alignment explanation
Indices: 6273671--6273982 Score: 314
Period size: 69 Copynumber: 4.6 Consensus size: 69
6273661 TTTCAGTCTT
* *
6273671 TTTA-TTT-TGACTTGTGGTTCAATCTC-AGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTG
1 TTTATTTTCTGACTTGCGGTTCAATCTCGA-TCGTCTTTATTTTTTGACTCGTAATTTAATCTTG
6273733 ATCTC
65 ATCTC
* * * * * ** *
6273738 TTTATTTTTTGACTTGCGGTTCAATTTCGATCATCTTTATTTTTTGATTCATGGTTCAATCTT-A
1 TTTATTTTCTGACTTGCGGTTCAATCTCGATCGTCTTTATTTTTTGACTCGTAATTTAATCTTGA
6273802 TCTC
66 TCTC
* * * * *
6273806 TTTA-TTTCTAAATTGCAGTTTAATCTCGATCGTCTTTATTTTTTGACTCGTAATTTATTCTTGA
1 TTTATTTTCTGACTTGCGGTTCAATCTCGATCGTCTTTATTTTTTGACTCGTAATTTAATCTTGA
*
6273870 TAT-
66 TCTC
* * * * * * *
6273873 TGTTATTTTCTGACTTGAGATTCAATCTCAATCGTCATTATTTTTTGACTTGTTATTTAATCTCG
1 T-TTATTTTCTGACTTGCGGTTCAATCTCGATCGTCTTTATTTTTTGACTCGTAATTTAATCTTG
6273938 ATCTC
65 ATCTC
** * *
6273943 TTTATTTTCTGACTCACGGTTCAATCCCGAT-GTCATTATT
1 TTTATTTTCTGACTTGCGGTTCAATCTCGATCGTCTTTATT
6273983 CACTGAATCG
Statistics
Matches: 196, Mismatches: 42, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
67 50 0.26
68 27 0.14
69 117 0.60
70 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (69 bp):
TTTATTTTCTGACTTGCGGTTCAATCTCGATCGTCTTTATTTTTTGACTCGTAATTTAATCTTGA
TCTC
Found at i:6273782 original size:136 final size:136
Alignment explanation
Indices: 6273631--6273923 Score: 337
Period size: 136 Copynumber: 2.2 Consensus size: 136
6273621 ATTTAATCAT
* * * * **
6273631 GATCTCTTTATTTTTTGACTT-ACGGTTTAAT-TTCAGTCTTTTTATTT-TGACTTGTGGTTCAA
1 GATCTCTTTATTTTTTGACTTCACGGTTCAATCTT-A-TCTCTTTATTTCTAAATTGCAGTTCAA
* * *
6273693 TCTC-AGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATCTCT-TTATTTTTTGACTTGCG
64 TCTCGA-TCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATAT-TGTTATTTTCTGACTTGAG
* *
6273756 GTTCAATTTC
127 ATTCAATCTC
* *
6273766 GATCATCTTTATTTTTTGA-TTCATGGTTCAATCTTATCTCTTTATTTCTAAATTGCAGTTTAAT
1 GATC-TCTTTATTTTTTGACTTCACGGTTCAATCTTATCTCTTTATTTCTAAATTGCAGTTCAAT
* *
6273830 CTCGATCGTCTTTATTTTTTGACTCGTAATTTATTCTTGATATTGTTATTTTCTGACTTGAGATT
65 CTCGATCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATATTGTTATTTTCTGACTTGAGATT
6273895 CAATCTC
130 CAATCTC
* *
6273902 AATCGTCATTATTTTTTGACTT
1 GATC-TCTTTATTTTTTGACTT
6273924 GTTATTTAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
135 17 0.13
136 111 0.83
137 5 0.04
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (136 bp):
GATCTCTTTATTTTTTGACTTCACGGTTCAATCTTATCTCTTTATTTCTAAATTGCAGTTCAATC
TCGATCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATATTGTTATTTTCTGACTTGAGATTC
AATCTC
Found at i:6273828 original size:101 final size:101
Alignment explanation
Indices: 6273621--6273853 Score: 269
Period size: 101 Copynumber: 2.3 Consensus size: 101
6273611 TTGACTCATG
* * *
6273621 ATTTAATCATGATCTCTTTATTTTTTGACTTACGGTTTAATTTCAGTCTTTTTATTTTGACTTGT
1 ATTTAATCTTGATCTCTTTATTTTTTGACTTACGGTTCAATTTCAGTCTTTTTATTTTGACTTAT
* * *
6273686 GGTTCAATCTCAGTCGTCTTTATTTTTTGACTCGCA
66 GGTTCAATCTCAGTCGTCTTTATTTTCTAAATCGCA
* *
6273722 ATTTAATCTTGATCTCTTTATTTTTTGACTTGCGGTTCAATTTC-GATCATCTTTATTTTTTGA-
1 ATTTAATCTTGATCTCTTTATTTTTTGACTTACGGTTCAATTTCAG-TC-T-TTT-TATTTTGAC
* *
6273785 TTCATGGTTCAATCTTA-TC-TCTTTA-TTTCTAAATTGCA
62 TT-ATGGTTCAATCTCAGTCGTCTTTATTTTCTAAATCGCA
* *
6273823 GTTTAATCTCGATCGTCTTTATTTTTTGACT
1 ATTTAATCTTGATC-TCTTTATTTTTTGACT
6273854 CGTAATTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
100 1 0.01
101 64 0.56
102 23 0.20
103 7 0.06
104 19 0.17
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (101 bp):
ATTTAATCTTGATCTCTTTATTTTTTGACTTACGGTTCAATTTCAGTCTTTTTATTTTGACTTAT
GGTTCAATCTCAGTCGTCTTTATTTTCTAAATCGCA
Found at i:6273935 original size:136 final size:137
Alignment explanation
Indices: 6273691--6273949 Score: 328
Period size: 136 Copynumber: 1.9 Consensus size: 137
6273681 CTTGTGGTTC
* * *
6273691 AATCTCAGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATCTCTTTATTTTTTGACTTGCG
1 AATCTCAGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATATCTTTATTTTCTGACTTGAG
* * * * * *
6273756 GTTCAATTTCGATCATCTTTATTTTTTGATTCATGGTTCAATCT-TATCTCTTTATTTCTAAATT
66 ATTCAATCTCAATCATCATTATTTTTTGATTCATGATTCAATCTCGATCTCTTTATTTCTAAATT
6273820 GCAGTTT
131 GCAGTTT
* *
6273827 AATCTC-GATCGTCTTTATTTTTTGACTCGTAATTTATTCTTGATAT-TGTTATTTTCTGACTTG
1 AATCTCAG-TCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATATCT-TTATTTTCTGACTTG
* * * *
6273890 AGATTCAATCTCAATCGTCATTATTTTTTGACTT-GTTATTTAATCTCGATCTCTTTATTT
64 AGATTCAATCTCAATCATCATTATTTTTTGA-TTCATGATTCAATCTCGATCTCTTTATTT
6273950 TCTGACTCAC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
135 2 0.02
136 88 0.85
137 14 0.13
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (137 bp):
AATCTCAGTCGTCTTTATTTTTTGACTCGCAATTTAATCTTGATATCTTTATTTTCTGACTTGAG
ATTCAATCTCAATCATCATTATTTTTTGATTCATGATTCAATCTCGATCTCTTTATTTCTAAATT
GCAGTTT
Found at i:6274240 original size:3 final size:3
Alignment explanation
Indices: 6274218--6274311 Score: 52
Period size: 3 Copynumber: 32.3 Consensus size: 3
6274208 AATTATTAAT
* * * * * *
6274218 TAA TTA TAA TAG TAAA TAA TAA TAA TAA TAA TAT TAT TAT TAA TGA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
6274264 TAA TAT TGG TTA -AA TAA TAA -AA TAA TAA -AA TAA -AA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6274308 TAA T
1 TAA T
6274312 TATATATTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
2 7 0.10
3 61 0.87
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6274267 original size:40 final size:42
Alignment explanation
Indices: 6274209--6274291 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 42
6274199 TTATATTAAA
*
6274209 ATTATTAATTAATTATAATA-G-TAAATAATAATAATAATAAT
1 ATTATTAATTAATGATAATATGTTAAATAATAA-AATAATAAT
6274250 ATTATT-ATTAATGATAATATTGGTTAAATAATAAAATAATAA
1 ATTATTAATTAATGATAATA-T-GTTAAATAATAAAATAATAA
6274292 AATAAAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 12 0.32
41 6 0.16
43 9 0.24
44 10 0.27
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (42 bp):
ATTATTAATTAATGATAATATGTTAAATAATAAAATAATAAT
Found at i:6274297 original size:13 final size:13
Alignment explanation
Indices: 6274279--6274306 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6274269 TTGGTTAAAT
6274279 AATAAAATAATAA
1 AATAAAATAATAA
6274292 AATAAAATAATAA
1 AATAAAATAATAA
6274305 AA
1 AA
6274307 ATAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAATAATAA
Found at i:6275940 original size:31 final size:30
Alignment explanation
Indices: 6275901--6275963 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
6275891 CAAACCCTAC
* *
6275901 AATTAAACTTTAAATCCTCTAAATCC-TAAA
1 AATTAAACTCTAAACCCTCTAAA-CCTTAAA
6275931 AATTGAAACTCTAAACCCTCTAAACCTTAAA
1 AATT-AAACTCTAAACCCTCTAAACCTTAAA
6275962 AA
1 AA
6275964 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.29
Consensus pattern (30 bp):
AATTAAACTCTAAACCCTCTAAACCTTAAA
Found at i:6276077 original size:15 final size:14
Alignment explanation
Indices: 6275979--6276106 Score: 60
Period size: 14 Copynumber: 8.8 Consensus size: 14
6275969 TAAATTGTCT
*
6275979 AAACCCTAAAATGA
1 AAACCCTAAAATCA
*
6275993 AAACCC-CAAATCA
1 AAACCCTAAAATCA
*
6276006 TAATCCCTAAAATCA
1 -AAACCCTAAAATCA
* * **
6276021 AAATCTTAAACCCCTA
1 AAACCCTAAA-ATC-A
6276037 AAACCCTAAAATCA
1 AAACCCTAAAATCA
** *
6276051 TGACCTTAAAAATCGA
1 AAACCCT-AAAATC-A
* *
6276067 AAACCCTAAAACCTT
1 AAACCCTAAAATC-A
** *
6276082 AAACCCTTGAATTA
1 AAACCCTAAAATCA
6276096 AAACCCTAAAA
1 AAACCCTAAAA
6276107 CACCAAACCC
Statistics
Matches: 79, Mismatches: 29, Indels: 12
0.66 0.24 0.10
Matches are distributed among these distances:
13 5 0.06
14 32 0.41
15 28 0.35
16 14 0.18
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:6278276 original size:16 final size:16
Alignment explanation
Indices: 6278255--6278298 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
6278245 AAAGTACTAT
6278255 TAAGATATAAAAGTGA
1 TAAGATATAAAAGTGA
*
6278271 TAAGATATAAAAATGA
1 TAAGATATAAAAGTGA
*
6278287 TATGA-ATAAAAG
1 TAAGATATAAAAG
6278299 ACACGAAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TAAGATATAAAAGTGA
Found at i:6278491 original size:281 final size:280
Alignment explanation
Indices: 6277989--6278542 Score: 1099
Period size: 281 Copynumber: 2.0 Consensus size: 280
6277979 ATGATACAAC
6277989 GATAAGATATAAAAATGATATGAATAAAAGACACGAAGACAACACGGCTTAAAATAAAAAAAAAC
1 GATAAGATATAAAAATGATATGAATAAAAGACACGAAGACAACACGGCTTAAAATAAAAAAAAAC
6278054 CATAAATAAGTTTAATAAAATAAAAAAAATTATATTTTATATTTTTGTGTCGACACGAATTGTGA
66 CATAAATAAGTTTAATAAAATAAAAAAAATTATATTTTATATTTTTGTGTCGACACGAATTGTGA
6278119 CACATGATTTTTGTGTAAAACACGATACAAATACAATATTTTACATGACTCGATGACATGAATTG
131 CACATGATTTTTGTGTAAAACACGATACAAATACAATATTTTACATGACTCGATGACATGAATTG
6278184 CTAGATCTACTTTTCATGATGATGAATGTGCTTGACATGACCATGGGTGCATGAGTGGTGTAAAG
196 CTAGATCTACTTTTCATGATGATGAATGTGCTTGACATGACCATGGGTGCATGAGTGGTGTAAAG
6278249 TACTATTAAGATATAAAAGT
261 TACTATTAAGATATAAAAGT
6278269 GATAAGATATAAAAATGATATGAATAAAAGACACGAAGACAACACGGCTTAAAATAAAAAAAAAA
1 GATAAGATATAAAAATGATATGAATAAAAGACACGAAGACAACACGGCTTAAAAT-AAAAAAAAA
6278334 CCATAAATAAGTTTAATAAAATAAAAAAAATTATATTTTATATTTTTGTGTCGACACGAATTGTG
65 CCATAAATAAGTTTAATAAAATAAAAAAAATTATATTTTATATTTTTGTGTCGACACGAATTGTG
6278399 ACACATGATTTTTGTGTAAAACACGATACAAATACAATATTTTACATGACTCGATGACATGAATT
130 ACACATGATTTTTGTGTAAAACACGATACAAATACAATATTTTACATGACTCGATGACATGAATT
6278464 GCTAGATCTACTTTTCATGATGATGAATGTGCTTGACATGACCATGGGTGCATGAGTGGTGTAAA
195 GCTAGATCTACTTTTCATGATGATGAATGTGCTTGACATGACCATGGGTGCATGAGTGGTGTAAA
6278529 GTACTATTAAGATA
260 GTACTATTAAGATA
6278543 CAGAAATGCT
Statistics
Matches: 273, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
280 55 0.20
281 218 0.80
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (280 bp):
GATAAGATATAAAAATGATATGAATAAAAGACACGAAGACAACACGGCTTAAAATAAAAAAAAAC
CATAAATAAGTTTAATAAAATAAAAAAAATTATATTTTATATTTTTGTGTCGACACGAATTGTGA
CACATGATTTTTGTGTAAAACACGATACAAATACAATATTTTACATGACTCGATGACATGAATTG
CTAGATCTACTTTTCATGATGATGAATGTGCTTGACATGACCATGGGTGCATGAGTGGTGTAAAG
TACTATTAAGATATAAAAGT
Found at i:6279119 original size:21 final size:20
Alignment explanation
Indices: 6279095--6279141 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
6279085 TTTTTGTCTA
6279095 TTTTTATCTATTTT-TTTATTC
1 TTTTTAT-T-TTTTATTTATTC
6279116 TTTTTATTTTTTCATTTATTC
1 TTTTTATTTTTT-ATTTATTC
6279137 TTTTT
1 TTTTT
6279142 CTACCTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 19 0.79
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTTTTTATTTATTC
Found at i:6279636 original size:25 final size:25
Alignment explanation
Indices: 6279589--6279636 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
6279579 TTAAGAAAAT
*
6279589 CATTTTTTGTTTGGTTTTTTTTTCA
1 CATTTTTTGTTTGGTTTTCTTTTCA
6279614 CATTTTTT-TTTGGTTTTGCTTTT
1 CATTTTTTGTTTGGTTTT-CTTTT
6279637 TTTCTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.06, C:0.08, G:0.12, T:0.73
Consensus pattern (25 bp):
CATTTTTTGTTTGGTTTTCTTTTCA
Found at i:6280331 original size:41 final size:40
Alignment explanation
Indices: 6280235--6280344 Score: 100
Period size: 41 Copynumber: 2.7 Consensus size: 40
6280225 AAAGTTAGTG
** *
6280235 GCATTTAT-TATATAAATGCCACTAAA-AAAAAATTTAGCG
1 GCATTTATATATA-AAATGCCACTAAATTTAAAATTTAGCA
** *
6280274 GCATTTGGAGTTTAAAATGCCACTAAATTTAAAATTTAGCA
1 GCATTTATA-TATAAAATGCCACTAAATTTAAAATTTAGCA
*
6280315 GCATTTATATAATAAAAACGCCAC-AAATTT
1 GCATTTATAT-AT-AAAATGCCACTAAATTT
6280345 TTTTTTCAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
39 6 0.11
40 14 0.25
41 27 0.48
42 9 0.16
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (40 bp):
GCATTTATATATAAAATGCCACTAAATTTAAAATTTAGCA
Found at i:6284738 original size:161 final size:161
Alignment explanation
Indices: 6284332--6284883 Score: 682
Period size: 161 Copynumber: 3.4 Consensus size: 161
6284322 ATGGCACATC
* ** * *
6284332 ATCGTTAAAAGGTAAAAATGTAAATTTATTGTTATTGTTCTATTTTAACAATTTTGATAGCTTAA
1 ATCGTTAAAAGGCAAAAATACAAATTTATTGTTATTATTCTATTTTAACAGTTTTGATAGCTTAA
* * * ** * *
6284397 ATACATGATACTAAACTTGTCTAAATGATTGAACTTAGTTTCCACGGTTCATATGTGTAAAAAAG
66 ATACATGATACTAAACTTGTCCAAATGATTGAACTTGGTTTACACAATTGATATGTGTGAAAAAG
* * **
6284462 TTATCGTTTACGTCTATTT-TGGCATTTTT-T
131 TTATCGTTTACGTTTGTTTAAAGC-TTTTTGT
* * * * * *
6284492 ATGCCGTTAAAAGGTAAAAATACAAATTTACTATTATTGTTTTATTTTAACAGTTTCGATAGCTT
1 AT--CGTTAAAAGGCAAAAATACAAATTTATTGTTATTATTCTATTTTAACAGTTTTGATAGCTT
* ** *
6284557 AAATACATGATACAAAACTTGTCCAAATGATTGAACTTGGTTTTTACTATTGATATGTGTGAAAA
64 AAATACATGATACTAAACTTGTCCAAATGATTGAACTTGGTTTACACAATTGATATGTGTGAAAA
6284622 AGTTA-CTGTTTACGTTTGTTTAAAGCTTTTTGT
129 AGTTATC-GTTTACGTTTGTTTAAAGCTTTTTGT
* * *
6284655 ATCGTTAAAAGGCAAAAATATAAAATTATTGTTATTATTCTGTTTTAACAGTTTTGATAGCTTAA
1 ATCGTTAAAAGGCAAAAATACAAATTTATTGTTATTATTCTATTTTAACAGTTTTGATAGCTTAA
* *
6284720 ATACATCATACTAAACTTGTCCAAATGATTGAATTTGGTTTACACAATTGATATGTGTGAAAAAG
66 ATACATGATACTAAACTTGTCCAAATGATTGAACTTGGTTTACACAATTGATATGTGTGAAAAAG
*
6284785 TTATCGTTTAGGGTTTGTTTAGAA-C-TTTTGT
131 TTATCGTTTA-CGTTTGTTTA-AAGCTTTTTGT
* * * * *
6284816 ACCGTTAAAAGGCAACAATACAAATTTATTGTTATTATTCTATTTTAATAGTTTGGATAGCTTCA
1 ATCGTTAAAAGGCAAAAATACAAATTTATTGTTATTATTCTATTTTAACAGTTTTGATAGCTTAA
6284881 ATA
66 ATA
6284884 ATATGTGTTT
Statistics
Matches: 340, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
160 2 0.01
161 188 0.55
162 143 0.42
163 7 0.02
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (161 bp):
ATCGTTAAAAGGCAAAAATACAAATTTATTGTTATTATTCTATTTTAACAGTTTTGATAGCTTAA
ATACATGATACTAAACTTGTCCAAATGATTGAACTTGGTTTACACAATTGATATGTGTGAAAAAG
TTATCGTTTACGTTTGTTTAAAGCTTTTTGT
Found at i:6286563 original size:3 final size:3
Alignment explanation
Indices: 6286546--6286616 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
6286536 TGCAATTTTT
* * * * * * *
6286546 TTA TTT TTA TT- TTA TTA TTA TTA TTG TTG TTG TTG TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6286593 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
6286617 GAAAAATGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6286883 original size:17 final size:18
Alignment explanation
Indices: 6286837--6286883 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
6286827 TTGGTCACCT
*
6286837 ATTAAAACTTAAATTTTA
1 ATTAAAACTTAAATATTA
*
6286855 A-TAAAATTTTAAA-ATTA
1 ATTAAAA-CTTAAATATTA
6286872 ATTAAAACTTAA
1 ATTAAAACTTAA
6286884 TCAAAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAAACTTAAATATTA
Found at i:6288646 original size:18 final size:18
Alignment explanation
Indices: 6288623--6288665 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
6288613 ACAATTCGGG
6288623 GCTCGATACTCGGTTCGA
1 GCTCGATACTCGGTTCGA
6288641 GCTCGATACTCGGTTCGA
1 GCTCGATACTCGGTTCGA
6288659 GCTCGAT
1 GCTCGAT
6288666 CGAATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (18 bp):
GCTCGATACTCGGTTCGA
Found at i:6290532 original size:13 final size:13
Alignment explanation
Indices: 6290514--6290538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6290504 TCATCTTTGA
6290514 AGATTTCATTTAG
1 AGATTTCATTTAG
6290527 AGATTTCATTTA
1 AGATTTCATTTA
6290539 CTTTTATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
AGATTTCATTTAG
Found at i:6297374 original size:14 final size:14
Alignment explanation
Indices: 6297351--6297381 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6297341 TTTTTCATGT
*
6297351 AAATATTAAGATTA
1 AAATAATAAGATTA
6297365 AAATAATAAGATTA
1 AAATAATAAGATTA
6297379 AAA
1 AAA
6297382 AAATTAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATAATAAGATTA
Found at i:6297508 original size:35 final size:35
Alignment explanation
Indices: 6297457--6297524 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
6297447 ATTAAAATGC
* *
6297457 TTATAAATTTTGATTTGAAAAAATAAAATATAATA
1 TTATAAACTTTAATTTGAAAAAATAAAATATAATA
*
6297492 TTATAAACTTTAATTTGAAAAAATAAAGTATAA
1 TTATAAACTTTAATTTGAAAAAATAAAATATAA
6297525 AAAACAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (35 bp):
TTATAAACTTTAATTTGAAAAAATAAAATATAATA
Found at i:6300672 original size:30 final size:30
Alignment explanation
Indices: 6300636--6300695 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6300626 TTTCGTGTTT
6300636 ATCATTCTAATTTTTTATACAAATTTACCA
1 ATCATTCTAATTTTTTATACAAATTTACCA
6300666 ATCATTCTAATTTTTTATACAAATTTACCA
1 ATCATTCTAATTTTTTATACAAATTTACCA
6300696 CTCTATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (30 bp):
ATCATTCTAATTTTTTATACAAATTTACCA
Found at i:6300721 original size:30 final size:30
Alignment explanation
Indices: 6300636--6300711 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
6300626 TTTCGTGTTT
*
6300636 ATCATTCTAATTTTTTATACAAATTTACCA
1 ATCATTATAATTTTTTATACAAATTTACCA
*
6300666 ATCATTCTAATTTTTTATACAAATTTACCA
1 ATCATTATAATTTTTTATACAAATTTACCA
*
6300696 CTCTATTAT-ATTTTTT
1 ATC-ATTATAATTTTTT
6300712 GATGCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 39 0.91
31 4 0.09
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (30 bp):
ATCATTATAATTTTTTATACAAATTTACCA
Found at i:6301401 original size:26 final size:27
Alignment explanation
Indices: 6301354--6301429 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 27
6301344 AATTTTGATT
* *
6301354 TTTTATATTTTTATTCACAAAAAATT-CTC
1 TTTTAT-TTTTTATT--TAAAAAATTACTA
*
6301383 TTTTATTTTTTATTT-AAAAATTATTA
1 TTTTATTTTTTATTTAAAAAATTACTA
*
6301409 TTTTA-TTTTTATCTAAAAAAT
1 TTTTATTTTTTATTTAAAAAAT
6301430 AAATTGAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 15 0.37
26 12 0.29
28 8 0.20
29 6 0.15
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTATTTTTTATTTAAAAAATTACTA
Found at i:6303594 original size:20 final size:20
Alignment explanation
Indices: 6303565--6303605 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6303555 TTATTTTTTA
* * *
6303565 TTTTATTTAAATTAATTAAT
1 TTTTAATTAAACTAACTAAT
6303585 TTTTAATTAAACTAACTAAT
1 TTTTAATTAAACTAACTAAT
6303605 T
1 T
6303606 AATTTTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAATTAAACTAACTAAT
Found at i:6303719 original size:26 final size:25
Alignment explanation
Indices: 6303683--6303734 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
6303673 AGCTTAACTC
*
6303683 AAATTGAATTCAAC-CATATGAATTTT
1 AAATTAAATTCAACTCAT-T-AATTTT
6303709 AAATTAAATTCAACTCATTAATTTT
1 AAATTAAATTCAACTCATTAATTTT
6303734 A
1 A
6303735 TCCATGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 7 0.29
26 14 0.58
27 3 0.12
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATTAAATTCAACTCATTAATTTT
Found at i:6305016 original size:20 final size:20
Alignment explanation
Indices: 6304991--6305035 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6304981 TAAATTGATC
*
6304991 ATTTGCATATTTTAGTTTGT
1 ATTTGCATATTTTAATTTGT
6305011 ATTTGCATATTTTAATTTGT
1 ATTTGCATATTTTAATTTGT
*
6305031 GTTTG
1 ATTTG
6305036 TATCATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (20 bp):
ATTTGCATATTTTAATTTGT
Found at i:6306590 original size:10 final size:11
Alignment explanation
Indices: 6306575--6306599 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6306565 CTTTTCTTAC
6306575 ATTTTTTATTA
1 ATTTTTTATTA
6306586 ATTTTTTATTA
1 ATTTTTTATTA
6306597 ATT
1 ATT
6306600 AATTTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:6307761 original size:12 final size:12
Alignment explanation
Indices: 6307744--6307768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6307734 TTTTTTTTTA
6307744 ATTATTAATATT
1 ATTATTAATATT
6307756 ATTATTAATATT
1 ATTATTAATATT
6307768 A
1 A
6307769 AACTGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:6308754 original size:6 final size:6
Alignment explanation
Indices: 6308730--6308768 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
6308720 CCTCTATACG
6308730 ATATAA ATTATATA ATATAA ATATAA ATATAA ATATAA A
1 ATATAA A-TATA-A ATATAA ATATAA ATATAA ATATAA A
6308769 ATACAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 21 0.68
7 8 0.26
8 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:6310520 original size:13 final size:14
Alignment explanation
Indices: 6310491--6310532 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
6310481 TTACTCAAAC
6310491 TTTCTTGATTCTTT
1 TTTCTTGATTCTTT
*
6310505 TTTCTTG-TTTTTT
1 TTTCTTGATTCTTT
* *
6310518 TTTTTTTATTCTTT
1 TTTCTTGATTCTTT
6310532 T
1 T
6310533 GGTAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (14 bp):
TTTCTTGATTCTTT
Found at i:6311488 original size:33 final size:34
Alignment explanation
Indices: 6311423--6311492 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
6311413 TCCTTACTTT
* * *
6311423 AACCTTTTAATTATGAGTAATGATAAAATGTCAA
1 AACCATTTAATAATGAGCAATGATAAAATGTCAA
*
6311457 AACCATTTAATAATGAGCAGTG-TAAAATGTCAA
1 AACCATTTAATAATGAGCAATGATAAAATGTCAA
6311490 AAC
1 AAC
6311493 TTTTAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (34 bp):
AACCATTTAATAATGAGCAATGATAAAATGTCAA
Found at i:6314534 original size:27 final size:25
Alignment explanation
Indices: 6314474--6314534 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
6314464 TTAAACTTAA
6314474 TAAAAAAAATACAATTACTAATTGT
1 TAAAAAAAATACAATTACTAATTGT
* * *
6314499 TAAATAAAAATAACATATTTCTATTTTT
1 TAAA-AAAAAT-ACA-ATTACTAATTGT
6314527 TAAAAAAA
1 TAAAAAAA
6314535 TTAGTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.13
26 6 0.20
27 7 0.23
28 13 0.43
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (25 bp):
TAAAAAAAATACAATTACTAATTGT
Found at i:6318412 original size:2 final size:2
Alignment explanation
Indices: 6318400--6318439 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
6318390 CTTCTCCTAC
*
6318400 TA TA CA TA TA TA TA TA TA TA T- TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6318440 ATGAGATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6323557 original size:17 final size:17
Alignment explanation
Indices: 6323525--6323556 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6323515 ATTTGTATTT
6323525 TATTATTATTATTTTTA
1 TATTATTATTATTTTTA
6323542 TATTATTATT-TTTTT
1 TATTATTATTATTTTT
6323557 TTTATCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTATTATTATTTTTA
Found at i:6323561 original size:14 final size:14
Alignment explanation
Indices: 6323520--6323561 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
6323510 CATCAATTTG
*
6323520 TATTTTATTATTAT
1 TATTTTTTTATTAT
*
6323534 TATTTTTATATTAT
1 TATTTTTTTATTAT
*
6323548 TATTTTTTTTTTAT
1 TATTTTTTTATTAT
6323562 CTGATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTTTATTAT
Found at i:6324277 original size:25 final size:25
Alignment explanation
Indices: 6324244--6324299 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
6324234 CGTCAACCGG
* *
6324244 TGACCCAACCCGTGGTTCATGCACT
1 TGACCCAACCCGGGGTTCATGCACC
* *
6324269 TGACTCAACCTGGGGTTCATGCACC
1 TGACCCAACCCGGGGTTCATGCACC
6324294 TGACCC
1 TGACCC
6324300 GACGACCCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.36, G:0.21, T:0.23
Consensus pattern (25 bp):
TGACCCAACCCGGGGTTCATGCACC
Found at i:6325845 original size:17 final size:17
Alignment explanation
Indices: 6325819--6325861 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6325809 TTTTCACTTT
*
6325819 AAAAAAAAATCAAAAAC
1 AAAAACAAATCAAAAAC
* *
6325836 AAAAACAAATCTAAAAT
1 AAAAACAAATCAAAAAC
6325853 AAAAACAAA
1 AAAAACAAA
6325862 AAACTGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAACAAATCAAAAAC
Found at i:6336891 original size:48 final size:48
Alignment explanation
Indices: 6336810--6338152 Score: 879
Period size: 48 Copynumber: 27.6 Consensus size: 48
6336800 AAAATGAATC
* * * *
6336810 TTTAAAGTTATTGAGCCTCTGCTAAGAGAAGCTTTTTCATGATAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * *
6336858 TTTAAAGTTATTGAGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGAT-AAATT
* * *
6336907 TTTAAAGTTGTTG-GCTTCTGCTGAGAGGAACTTTTTCAAGATAAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * * * *
6336953 TTTACAGTTATTGAGCCTCTACTGAGAGTAGCTTTTTGAAGATGAATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * ** * *
6337001 TTTAAAGTTGTTGAGCTTCCGTTTAGATAAGCTTTTCCATGATGATGAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA--A-GATAAATT
* *
6337051 TTTAAAGTTATTGAGCCTCTAG-TTAGAGGAGC-TTTTCTAGGATGATGAA-T
1 TTTAAAGTTGTTGAGCCTCT-GCTTAGAGGAGCTTTTTC-A--A-GATAAATT
* ** * *
6337101 TTCAAAGTTGTCAAGCCTCTGCTTAGAAGAGCTTCTTCCAA-ATAAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTT-TTTCAAGATAA-ATT
* * * *
6337150 TTTAAAGTTGTTGAGCCTCTACTTA-AGAAAGTTTTTTTC-AGATGAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAG-GAG-CTTTTTCAAGATAAATT
* *
6337197 TTTAAAGTTGTTGAGTCTCAGCTTAGAGGAGCCTTTTT-AA-AT---TT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAGATAAATT
* * * * * **
6337241 TTTAAAGTTATTGAACCTCTACTTAGATGAACTTTTTTTAGATAAGATTT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAA-A-TT
* * * * *
6337291 TTTAATGTTGTTAAGTCTCTGCTTAGAGGAGCTTTTCCAA-ATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGAT-AAATT
* * * * * *
6337339 TTTAAAGTTGTTGAGCTTTTACTTAGAGAAGCTTTTCCAGGATAAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAA-ATT
* * *
6337388 TTTAAAG-TATTGAGCCTCTGCTTAGATGAGCTTTTTCAGGATGATGAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA--A-GATAAATT
* * * * * *
6337437 TTTAAAATTATTGAGCCTTTGCTGAAAGGAGCTTTTTCAAAATAAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* *
6337484 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAGGATGATGAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCA--A-GATAAATT
* * * * *
6337534 TTTAAAATTATTGAGCCTCTGCTGAAAGGAGCTTTTTCAAAATAAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * * *
6337581 TTTAAAGTTG-T--GTCTTTACTTAGAGAAAC-TTTTCTAAGATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC-AAGAT-AAATT
* * * * * *
6337627 TTTAAAGTTGTTGAGCTTCTGATGAGAAGAACTTTTTTCAAGATGAGATTTT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAGAT-A-A-ATT
* * * * * *
6337679 TTTAAAATCGTTAAACCTCTACTAAGAGGAGCCTTTTTCAAGATAAGATTTTT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAGATAA-A---TT
* * * *
6337732 TTTAAAGTTGTTGAGCCTCTACTGAAATGAGCTTTTTCAAGATAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * * * *
6337780 TTTAAAATTATTGAACCTCTG-TTGATATGAGCCTTTTTCAAAATAATTTTT
1 TTTAAAGTTGTTGAGCCTCTGCTT-AGAGGAG-CTTTTTCAAGATAA--ATT
* * * * *
6337831 TTTAAAGTTGTTGAGCCTATACTAAGATGAGTTTTTTCAAGATAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * * *
6337879 TTAAAAGTTATTGTGCCTTTGCTTAGATGAGTTTTTTCAAGATGAAATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGAT-AAATT
* * * ** * *
6337928 TTTAAAGTTGTTGAGCTTTTGCTGAGA-GAAATTTTTTAAAATAAA-T
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
* * * * *
6337974 TTTAAAATTGTTGTGCCTCTACTTAGATGAGCTTTTTCAAGATGAGATT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGAT-AAATT
* * *
6338023 TTTAAAGTTGTTGAGCATCTGCTAAGAAGAGCCTTTTTCAAGATGAAATTTT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAGAT-AAA--TT
* * * * *
6338075 TTTAAAGTCGTTGAACCTCTGTTTAGAGGAGCTTTTTCAAGATGAAGT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
*
6338123 TTTAAAGATGTTGAGCCTCTGCTTAGAGGA
1 TTTAAAGTTGTTGAGCCTCTGCTTAGAGGA
6338153 ACCTTTTTAA
Statistics
Matches: 1010, Mismatches: 223, Indels: 124
0.74 0.16 0.09
Matches are distributed among these distances:
43 11 0.01
44 41 0.04
45 4 0.00
46 48 0.05
47 129 0.13
48 263 0.26
49 151 0.15
50 201 0.20
51 56 0.06
52 79 0.08
53 27 0.03
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (48 bp):
TTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATAAATT
Found at i:6337277 original size:91 final size:92
Alignment explanation
Indices: 6337148--6337326 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 92
6337138 CCAAATAAGA
* * * *
6337148 TTTTTAAAGTTGTTGAGCCTCTACTTAAGAAAGTTTTTTTCAGAT-GA-ATTTTAAAGTTGTTGA
1 TTTTTAAAGTTATTGAACCTCTACTTAAGAAAGCTTTTTTCAGATAGATATTTTAAAGTTGTTAA
6337211 GTCTCAGCTTAGAGGAGCCTTTTTAAAT
66 GTCTCAGCTTAGAGGAG-CTTTTTAAAT
* * *
6337239 TTTTTAAAGTTATTGAACCTCTACTT-AGATGAA-CTTTTTTTAGATAAGATTTTTTAATGTTGT
1 TTTTTAAAGTTATTGAACCTCTACTTAAGA--AAGCTTTTTTCAGAT-AGATATTTTAAAGTTGT
*
6337302 TAAGTCTCTGCTTAGAGGAGCTTTT
63 TAAGTCTCAGCTTAGAGGAGCTTTT
6337327 CCAAATGAGA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
90 3 0.04
91 34 0.45
92 2 0.03
93 7 0.09
94 29 0.39
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (92 bp):
TTTTTAAAGTTATTGAACCTCTACTTAAGAAAGCTTTTTTCAGATAGATATTTTAAAGTTGTTAA
GTCTCAGCTTAGAGGAGCTTTTTAAAT
Found at i:6337413 original size:190 final size:189
Alignment explanation
Indices: 6337050--6337423 Score: 445
Period size: 190 Copynumber: 2.0 Consensus size: 189
6337040 TGATGATGAA
* * * *
6337050 TTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGCTTTTCTAGGATGATGAATTTCAAAGTTGTCAA
1 TTTTAAAGTTATTGAACCTCTACTTAGAGGAACTTTTCTAGGATGAAGAATTTCAAAGTTGTCAA
6337115 GCCTCTGCTTAGAAGAGCTTCTTCCAAATAAGATTTTTAAAGTTGTTGAGCCTCTACTTAAGAAA
66 GCCTCTGCTTAGAAGAGCTTCTTCCAAATAAGATTTTTAAAGTTGTTGAGCCTCTACTTAAGAAA
* * * *
6337180 GTTTTTTTCAGATGAATTTTAAAGTTGTTGAGTCTCAGCTTAGAGGAGCCTTTTTAAATT
131 GTCTTTTCCAGATGAATTTTAAAGTTATTGAGCCTCAGCTTAGAGGAG-CTTTTTAAATT
* * * * * *
6337240 TTTTAAAGTTATTGAACCTCTACTTAGATGAACTTTTTTTA-GAT-AAGATTTTTTAATGTTGTT
1 TTTTAAAGTTATTGAACCTCTACTTAGAGGAAC-TTTTCTAGGATGAAGA-ATTTCAAAGTTGTC
* * * * *
6337303 AAGTCTCTGCTTAGAGGAGCTT-TTCCAAATGAGATTTTTAAAGTTGTTGAGCTTTTACTT-AGA
64 AAGCCTCTGCTTAGAAGAGCTTCTTCCAAATAAGATTTTTAAAGTTGTTGAGCCTCTACTTAAGA
* * *
6337366 GAAG-CTTTTCCAGGATAAGATTTTTAAAG-TATTGAGCCTCTGCTTAGATGAGCTTTTT
129 -AAGTCTTTTCCA-GAT--GAATTTTAAAGTTATTGAGCCTCAGCTTAGAGGAGCTTTTT
6337424 CAGGATGATG
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
188 9 0.06
189 50 0.32
190 81 0.52
191 16 0.10
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (189 bp):
TTTTAAAGTTATTGAACCTCTACTTAGAGGAACTTTTCTAGGATGAAGAATTTCAAAGTTGTCAA
GCCTCTGCTTAGAAGAGCTTCTTCCAAATAAGATTTTTAAAGTTGTTGAGCCTCTACTTAAGAAA
GTCTTTTCCAGATGAATTTTAAAGTTATTGAGCCTCAGCTTAGAGGAGCTTTTTAAATT
Found at i:6337509 original size:97 final size:97
Alignment explanation
Indices: 6336810--6338145 Score: 840
Period size: 97 Copynumber: 13.8 Consensus size: 97
6336800 AAAATGAATC
* * * * *
6336810 TTTAAAGTTATTGAGCCTCTGCTAAGA-GAAGCTTTTTCATGAT-A-AATTTTTAAAGTTATTGA
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGA
* * * *
6336872 GCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGATT
65 GCCTCTGCTGAAAGGAGCTTTTTCAAGAT-A-AAT
* * * * * * *
6336907 TTTAAAGTTGTTG-GCTTCTGCTGAGAGGAACTTTTTCAAGAT-A--AATTTTACAGTTATTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
* * * * *
6336968 CCTCTACTGAGAGTAGCTTTTTGAAGATGAATT
66 CCTCTGCTGAAAGGAGCTTTTTCAAGAT-AAAT
* * * * * * * *
6337001 TTTAAAGTTGTTGAGCTTCCGTTTAGATAAGCTTTTCCATGATGATGAATTTTAAAGTTATTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
* * *
6337066 CCTCTAG-TTAGAGGAGC-TTTTCTAGGATGATGAAT
66 CCTCT-GCTGAAAGGAGCTTTTTC-A--A-GATAAAT
* ** * * *
6337101 TTCAAAGTTGTCAAGCCTCTGCTTAGAAGAGCTTCTTCCAA-AT-AAGATTTTTAAAGTTGTTGA
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTT-TTTCAAGATGATGATTTTTAAAGTTGTTGA
* * * * *
6337164 GCCTCTACT-TAAGAAAGTTTTTTTC-AGATGAAT
65 GCCTCTGCTGAAAG-GAG-CTTTTTCAAGATAAAT
* * * *
6337197 TTTAAAGTTGTTGAGTCTCAGCTTAGAGGAGCCTTTTT--A-A--AT--TTTTTAAAGTTATTGA
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAG-CTTTTTCAAGATGATGATTTTTAAAGTTGTTGA
* * * * * * **
6337255 ACCTCTACTTAGATGAACTTTTTTTAGATAAGATTT
65 GCCTCTGCTGAAAGGAGCTTTTTCAAGATAA-A--T
* * * * *
6337291 TTTAATGTTGTTAAGTCTCTGCTTAGAGGAGCTTTTCCAA-ATGA-GATTTTTAAAGTTGTTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
* * * * * * * *
6337354 CTTTTACTTAGAGAAGCTTTTCCAGGATAAGATT
66 CCTCTGCTGAAAGGAGCTTTTTCAAGATAA-A-T
* * * * *
6337388 TTTAAAG-TATTGAGCCTCTGCTTAGATGAGCTTTTTCAGGATGATGAATTTTAAAATTATTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
* *
6337452 CCTTTGCTGAAAGGAGCTTTTTCAAAATAAAT
66 CCTCTGCTGAAAGGAGCTTTTTCAAGATAAAT
* * * *
6337484 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAGGATGATGAATTTTAAAATTATTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
*
6337549 CCTCTGCTGAAAGGAGCTTTTTCAAAATAAAT
66 CCTCTGCTGAAAGGAGCTTTTTCAAGATAAAT
* * * *
6337581 TTTAAAGTTG-T--GTCTTTACTTAGA-GAAAC-TTTTCTAAGATGA-GATTTTTAAAGTTGTTG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCTTTTTC-AAGATGATGATTTTTAAAGTTGTTG
* * * *
6337640 AGCTTCTGATGAGAA-GAACTTTTTTCAAGATGAGATTTT
64 AGCCTCTGCTGA-AAGGAGC-TTTTTCAAGAT-A-A--AT
* * * * * * * **
6337679 TTTAAAATCGTTAAACCTCTACTAAGAGGAGCCTTTTTCAAGATAAGATTTTTTTTAAAGTTGTT
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAG-CTTTTTCAAGAT--GATGATTTTTAAAGTTGTT
* *
6337744 GAGCCTCTACTGAAATGAGCTTTTTCAAGATAAATT
63 GAGCCTCTGCTGAAAGGAGCTTTTTCAAGATAAA-T
* * * * * * **
6337780 TTTAAAATTATTGAACCTCTG-TTGATATGAGCCTTTTTCAAAATAATTTTTTTTAAAGTTGTTG
1 TTTAAAGTTGTTGAGCCTCTGCTT-AGATGAG-CTTTTTCAAGATGATGATTTTTAAAGTTGTTG
* * * *
6337844 AGCCTATACT-AAGATGAGTTTTTTCAAGATAAAT
64 AGCCTCTGCTGAA-AGGAGCTTTTTCAAGATAAAT
* * * * *
6337878 TTTAAAAGTTATTGTGCCTTTGCTTAGATGAGTTTTTTCAAGATGA-AATTTTTAAAGTTGTTGA
1 TTT-AAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGA
* * * ** * *
6337942 GCTTTTGCTGAGA-GAAATTTTTTAAAATAAAT
65 GCCTCTGCTGAAAGGAGCTTTTTCAAGATAAAT
* * *
6337974 TTTAAAATTGTTGTGCCTCTACTTAGATGAGCTTTTTCAAGATGA-GATTTTTAAAGTTGTTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
* *
6338038 CATCTGCT-AAGAAGAGCCTTTTTCAAGATGAAATTTT
66 CCTCTGCTGAA-AGGAG-CTTTTTCAAGAT-AAA---T
* * * * * *
6338075 TTTAAAGTCGTTGAACCTCTGTTTAGAGGAGCTTTTTCAAGATGA--AGTTTTAAAGATGTTGAG
1 TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
6338138 CCTCTGCT
66 CCTCTGCT
6338146 TAGAGGAACC
Statistics
Matches: 1002, Mismatches: 176, Indels: 119
0.77 0.14 0.09
Matches are distributed among these distances:
90 5 0.00
91 29 0.03
92 2 0.00
93 39 0.04
94 78 0.08
95 127 0.13
96 115 0.11
97 164 0.16
98 139 0.14
99 94 0.09
100 57 0.06
101 97 0.10
102 8 0.01
103 6 0.01
104 15 0.01
105 27 0.03
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (97 bp):
TTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATGATGATTTTTAAAGTTGTTGAG
CCTCTGCTGAAAGGAGCTTTTTCAAGATAAAT
Found at i:6337716 original size:52 final size:50
Alignment explanation
Indices: 6337660--6337782 Score: 140
Period size: 53 Copynumber: 2.4 Consensus size: 50
6337650 GAGAAGAACT
6337660 TTTTTCAAGATGAGATTTTTTTAAAATCGTTAAACCTCTACT-AAGAGGAGCC
1 TTTTTCAAGAT-AGATTTTTTTAAAATCGTTAAACCTCTACTGAA-AGGAG-C
* * * * *
6337712 TTTTTCAAGATAAGATTTTTTTTAAAGTTGTTGAGCCTCTACTGAAATGAGC
1 TTTTTCAAGAT-AGA-TTTTTTTAAAATCGTTAAACCTCTACTGAAAGGAGC
*
6337764 TTTTTCAAGATAAATTTTT
1 TTTTTCAAGATAGATTTTT
6337783 AAAATTATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 5 0.08
51 2 0.03
52 26 0.42
53 27 0.44
54 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (50 bp):
TTTTTCAAGATAGATTTTTTTAAAATCGTTAAACCTCTACTGAAAGGAGC
Found at i:6338193 original size:44 final size:44
Alignment explanation
Indices: 6338133--6338319 Score: 137
Period size: 44 Copynumber: 4.2 Consensus size: 44
6338123 TTTAAAGATG
* * *
6338133 TTGAGCCTCTGCTTAGAGGAACCTTTTTAAATTTTTAAAAGTTA
1 TTGAACCTCTACTTAGAGGAACCTTTTTAAATTTTCAAAAGTTA
* *** * **
6338177 TTGAACCTCTATTTAGAGGAGGTTTTTTAAATTTTCAACAGTCG
1 TTGAACCTCTACTTAGAGGAACCTTTTTAAATTTTCAAAAGTTA
* * * *
6338221 TTGAGA-TTCTGCTTAGAGGAACCTCTTTAAATTTTTAAAAGTTA
1 TTGA-ACCTCTACTTAGAGGAACCTTTTTAAATTTTCAAAAGTTA
* * * * * *
6338265 CT-AAGCCTCTACTCAGA-TAAGCTTTTTAAAATTTCAAAAATGTA
1 TTGAA-CCTCTACTTAGAGGAACCTTTTTAAATTTTCAAAAGT-TA
6338309 GTTGAACCTCT
1 -TTGAACCTCT
6338320 GTTTAGGGAA
Statistics
Matches: 105, Mismatches: 32, Indels: 11
0.71 0.22 0.07
Matches are distributed among these distances:
42 1 0.01
43 19 0.18
44 76 0.72
45 7 0.07
46 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (44 bp):
TTGAACCTCTACTTAGAGGAACCTTTTTAAATTTTCAAAAGTTA
Found at i:6338497 original size:19 final size:20
Alignment explanation
Indices: 6338470--6338523 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
6338460 ATATTTATTA
*
6338470 TTATATTTTTTCTTTTTTT-
1 TTATTTTTTTTCTTTTTTTC
6338489 TTATTTTTTTTCTTTTTTTCC
1 TTATTTTTTTTCTTTTTTT-C
6338510 TTA-TTTTTTTCTTT
1 TTATTTTTTTTCTTT
6338524 ATCTGATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 18 0.56
20 11 0.34
21 3 0.09
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.83
Consensus pattern (20 bp):
TTATTTTTTTTCTTTTTTTC
Found at i:6342895 original size:27 final size:28
Alignment explanation
Indices: 6342865--6342917 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
6342855 TAGGCTGAGA
6342865 AAAATA-TTTTT-TGTTTTTATTTTTTAG
1 AAAATAGTTTTTAT-TTTTTATTTTTTAG
6342892 AAAATAGTTTTTATTTTTTATTTTTT
1 AAAATAGTTTTTATTTTTTATTTTTT
6342918 GTTTTCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.25
28 17 0.71
29 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (28 bp):
AAAATAGTTTTTATTTTTTATTTTTTAG
Found at i:6343941 original size:34 final size:34
Alignment explanation
Indices: 6343903--6343993 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 34
6343893 ACAAACGCTA
*
6343903 CTATATTAGCGGCATTTGTATCTAAAAAATGTCT
1 CTATATTAGCGGCATTTGTATCTAAAAAATGTCG
** * *
6343937 CTATATTAGTAGCTTTTGTATCTAGAAAATGTCG
1 CTATATTAGCGGCATTTGTATCTAAAAAATGTCG
* **
6343971 CTATTTTAGCGGCGCTTGTATCT
1 CTATATTAGCGGCATTTGTATCT
6343994 TTAAAACGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (34 bp):
CTATATTAGCGGCATTTGTATCTAAAAAATGTCG
Found at i:6352166 original size:186 final size:184
Alignment explanation
Indices: 6351896--6352745 Score: 969
Period size: 187 Copynumber: 4.6 Consensus size: 184
6351886 TTGAAAAAAT
* * * * ** * * *
6351896 TTATTGAAGGCGTCTTCTAGTGTAAAACGCCTTCAATATTTTACTATTCAAAATTTAAGACGGTT
1 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGATGGTT
* * * *
6351961 ATTGAAGTCATTTATTCTAGAAAAATGCCTTCACTAATTTTTTTTAATTTATGTACATAATTATT
66 AGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTTAAATTT-TGTACATAATTATT
* * *
6352026 GAAGGCATTTTTTAGAACAAACGCTTTCAATAATTTCATTTTAAAAATTTTTTGGA
130 AAAGGTATTTTTTAGAACAAACGCTTT-AATAATTTCATTTTAAAAATTTTTGGGA
* * * * * * * ** *
6352082 TTATTAAAGACATCTTCTACTGAAAAATACCTTCAATATACTAGAACTCAAATTTTAAAATGGTT
1 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGATGGTT
* ** *
6352147 AGTAAATGG-GTTTATTCTAGAAAAATATCTTCAATAATTTCTTTTAAATTTTGTACATAATTAT
66 AGTGAA-GGCGTTTATTCTAGAAAAATGCCTTCACTAATTT-TTTTAAATTTTGTACATAATTAT
* *
6352211 TAAAGGTATTTTTGAAGAACATACAC-CTTTAATAATTTTC-TTTTAAAAAATTTTGGGA
129 TAAAGGTATTTTT-TAGAACA-A-ACGCTTTAATAA-TTTCATTTTAAAAATTTTTGGGA
* * * *
6352269 TTATTAAATGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGATGGTT
1 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGATGGTT
* * **
6352334 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACCAATTCCATTT-AATTTATGTACATAATTAT
66 AGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT-TTTTTAAATTT-TGTACATAATTAT
6352398 TAAAGGTATTTTTTTAGAACAAACGCCTTTAATAATTTCATTTTAAAAATTTTTGGGA
129 TAAAGGTA-TTTTTTAGAACAAACG-CTTTAATAATTTCATTTTAAAAATTTTTGGGA
* *
6352456 TTATTAAAGGCGTTTTCTAGTGAAAAATGTC-TTCAATATTCCACTA-TACAAATTTTAAGATGA
1 TTATTAAAGGCGTCTTCTAGTGAAAAATG-CATTCAATATTCCACTACT-CAAATTTTAAGATGG
* * * * * *
6352519 TTAGTGAAGGCTTTTATTCCA-AAAAGGTACCTTCAATAATGCTTTTTAAATTTTGTACATAATT
64 TTAGTGAAGGCGTTTATTCTAGAAAA-ATGCCTTCACTAAT-TTTTTTAAATTTTGTACATAATT
* * * * *
6352583 ATTGAAGGTATTTTTTA-AGATAAACGCCTTCAATAATTTCTTTTTAAAAATTTTTAGGA
127 ATTAAAGGTATTTTTTAGA-ACAAACG-CTTTAATAATTTCATTTTAAAAATTTTTGGGA
* *
6352642 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGACGGTC
1 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGATGGTT
* *
6352707 AGTGAAGGCGTTTATTCCAGAAAAATGCCATCACTAATT
66 AGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT
6352746 CATTATAATT
Statistics
Matches: 561, Mismatches: 81, Indels: 45
0.82 0.12 0.07
Matches are distributed among these distances:
185 4 0.01
186 250 0.45
187 285 0.51
188 20 0.04
189 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (184 bp):
TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGATGGTT
AGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTTAAATTTTGTACATAATTATTA
AAGGTATTTTTTAGAACAAACGCTTTAATAATTTCATTTTAAAAATTTTTGGGA
Found at i:6352363 original size:373 final size:373
Alignment explanation
Indices: 6351896--6352756 Score: 1119
Period size: 373 Copynumber: 2.3 Consensus size: 373
6351886 TTGAAAAAAT
* * * * * * * * *
6351896 TTATTGAAGGCGTCTTCTAGTGTAAAACGCCTTCAATATTTTACTATTCAAAATTTAAGACGGTT
1 TTATTAAAGGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGACGGTT
* * ***
6351961 ATTGAAGTCATTTATTCTAGAAAAATGCCTTCACTAATTTTTTTTAATTTATGTACATAATTATT
66 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATT
* *
6352026 GAAGGCA-TTTTTTAGAACAAACG-CTTTCAATAATTTCATTTTAAAAATTTTTTGGATTATTAA
131 AAAGGCATTTTTTTAGAACAAACGCCTTT-AATAATTTCATTTTAAAAATTTTTGGGATTATTAA
* * *
6352089 AGACATCTTCTACTGAAAAATACCTTCAATATACTAGAACT-CAAATTTTAAAATGGTTAGTAAA
195 AGACATCTTCTACTGAAAAATACCTTCAATATACCACAA-TACAAATTTTAAAATGATTAGTAAA
* * *
6352153 TGG-GTTTATTCTAGAAAA-ATATCTTCAATAAT-TTCTTTTAAATTTTGTACATAATTATTAAA
259 -GGCGTTTATTCCA-AAAAGATACCTTCAATAATGCT-TTTTAAATTTTGTACATAATTATTAAA
* *
6352215 GGTATTTTTGAAGA-ACATACACCTTTAATAATTT-TCTTTTAAAAAATTTTGGGA
321 GGTATTTTTGAAGATA-A-ACACCTTCAATAATTTCT-TTTTAAAAAATTTTAGGA
* *
6352269 TTATTAAATGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGATGGTT
1 TTATTAAAGGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGACGGTT
*
6352334 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACCAATTCCATTTAATTTATGTACATAATTATT
66 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATT
*
6352399 AAAGGTATTTTTTTAGAACAAACGCCTTTAATAATTTCATTTTAAAAATTTTTGGGATTATTAAA
131 AAAGGCATTTTTTTAGAACAAACGCCTTTAATAATTTCATTTTAAAAATTTTTGGGATTATTAAA
* * * * ** * * * *
6352464 GGCGTTTTCTAGTGAAAAATGTCTTCAATATTCCACTATACAAATTTTAAGATGATTAGTGAAGG
196 GACATCTTCTACTGAAAAATACCTTCAATATACCACAATACAAATTTTAAAATGATTAGTAAAGG
* * *
6352529 CTTTTATTCCAAAAAGGTACCTTCAATAATGCTTTTTAAATTTTGTACATAATTATTGAAGGTAT
261 CGTTTATTCCAAAAAGATACCTTCAATAATGCTTTTTAAATTTTGTACATAATTATTAAAGGTAT
* * *
6352594 TTTTTAAGATAAACGCCTTCAATAATTTCTTTTTAAAAATTTTTAGGA
326 TTTTGAAGATAAACACCTTCAATAATTTCTTTTTAAAAAATTTTAGGA
* * * *
6352642 TTATTAAAGGCGTCTTCTAGTGAAAAATGCATTCAATATTCCACTACTCAAATTTTAAGACGGTC
1 TTATTAAAGGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGACGGTT
* * *
6352707 AGTGAAGGCGTTTATTCCAGAAAAATGCCATCACTAATT-CATTATAATTT
66 AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCATT-TAATTT
6352757 TTTAAGGCAT
Statistics
Matches: 425, Mismatches: 54, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
372 4 0.01
373 255 0.60
374 160 0.38
375 6 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (373 bp):
TTATTAAAGGCGTCTTCCAATGAAAAATGCATTCAATATTTCACTACTCAAATTTTAAGACGGTT
AGTGAAGGCATTTATTCTAGAAAAATGCCTTCACTAATTCCATTTAATTTATGTACATAATTATT
AAAGGCATTTTTTTAGAACAAACGCCTTTAATAATTTCATTTTAAAAATTTTTGGGATTATTAAA
GACATCTTCTACTGAAAAATACCTTCAATATACCACAATACAAATTTTAAAATGATTAGTAAAGG
CGTTTATTCCAAAAAGATACCTTCAATAATGCTTTTTAAATTTTGTACATAATTATTAAAGGTAT
TTTTGAAGATAAACACCTTCAATAATTTCTTTTTAAAAAATTTTAGGA
Found at i:6353893 original size:57 final size:58
Alignment explanation
Indices: 6353827--6353984 Score: 248
Period size: 59 Copynumber: 2.7 Consensus size: 58
6353817 TTTTTTGTAG
*
6353827 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTAAAATTTCATTTTCAA
* **
6353884 GGAAAATTGATACCTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAAAATTTC-ATTTTCAA
6353943 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
6353985 TTTGAAATTT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
56 7 0.08
57 38 0.41
59 47 0.51
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAAAATTTCATTTTCAA
Found at i:6354123 original size:24 final size:24
Alignment explanation
Indices: 6354096--6354141 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6354086 ATAAAATAAA
*
6354096 CAAATAAACAAAGAAAAAAAAATT
1 CAAAGAAACAAAGAAAAAAAAATT
*
6354120 CAAAGAAAGAAAGAAAAAAAAA
1 CAAAGAAACAAAGAAAAAAAAA
6354142 AAAAAAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (24 bp):
CAAAGAAACAAAGAAAAAAAAATT
Found at i:6354497 original size:19 final size:20
Alignment explanation
Indices: 6354454--6354499 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
6354444 GAACACAGGT
*
6354454 GTCGGATTCTGGAAAATGTC
1 GTCGGAATCTGGAAAATGTC
* *
6354474 ATCGGAATCTGG-AAATTTC
1 GTCGGAATCTGGAAAATGTC
6354493 GTCGGAA
1 GTCGGAA
6354500 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
GTCGGAATCTGGAAAATGTC
Found at i:6355136 original size:16 final size:16
Alignment explanation
Indices: 6355117--6355221 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
6355107 TATTAGTAAT
6355117 AATACATAAATAATAA
1 AATACATAAATAATAA
*
6355133 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
6355151 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
6355168 AATATATACAT-ATATT
1 AATACATAAATAATA-A
6355184 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
6355197 AATA-ATAAATAATAC
1 AATACATAAATAATAA
6355212 AATACATAAA
1 AATACATAAA
6355222 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:6355183 original size:35 final size:34
Alignment explanation
Indices: 6355098--6355212 Score: 92
Period size: 35 Copynumber: 3.3 Consensus size: 34
6355088 AAAAAGATAT
* * * *
6355098 ATATATACATATTAGTAATAATACATAAATAATAA
1 ATATATACATA-TATTAACAAAAAATAAATAATAA
*
6355133 A-ATACACATAAATATTAACAAAAAATAAATAAATAA
1 ATATATACAT--ATATTAACAAAAAATAAAT-AATAA
*
6355169 ATATATACATATATTAATACATAATAAT-AATAATAA
1 ATATATACATATATT-A-ACA-AAAAATAAATAATAA
6355205 ATA-ATACA
1 ATATATACA
6355213 ATACATAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
34 7 0.11
35 25 0.38
36 16 0.24
37 13 0.20
38 5 0.08
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (34 bp):
ATATATACATATATTAACAAAAAATAAATAATAA
Found at i:6355426 original size:1 final size:1
Alignment explanation
Indices: 6355422--6355515 Score: 98
Period size: 1 Copynumber: 94.0 Consensus size: 1
6355412 CATTTTTTGG
* * * * * * * *
6355422 TTTTTTTGTTTTTTTGTTTTTTTATTTTTTTATTTTTTTGTTTTTTGTTTTTTTTTATTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
6355487 TTTTTGTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6355516 ACCAAAGCTC
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.89
Consensus pattern (1 bp):
T
Found at i:6355427 original size:8 final size:8
Alignment explanation
Indices: 6355414--6355514 Score: 120
Period size: 8 Copynumber: 12.9 Consensus size: 8
6355404 AACATTGTCA
*
6355414 TTTTTTGG
1 TTTTTTTG
6355422 TTTTTTTG
1 TTTTTTTG
6355430 TTTTTTTG
1 TTTTTTTG
*
6355438 TTTTTTTA
1 TTTTTTTG
*
6355446 TTTTTTTA
1 TTTTTTTG
6355454 TTTTTTTG
1 TTTTTTTG
6355462 -TTTTTTG
1 TTTTTTTG
6355469 TTTTTTT-
1 TTTTTTTG
*
6355476 TTATTTTTA
1 TT-TTTTTG
6355485 TTTTTTTG
1 TTTTTTTG
6355493 TTTTTTT-
1 TTTTTTTG
6355500 TTGTTTTT-
1 TT-TTTTTG
6355508 TTTTTTT
1 TTTTTTT
6355515 TACCAAAGCT
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
7 16 0.19
8 67 0.79
9 2 0.02
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:6355458 original size:31 final size:31
Alignment explanation
Indices: 6355422--6355516 Score: 147
Period size: 31 Copynumber: 3.0 Consensus size: 31
6355412 CATTTTTTGG
6355422 TTTTTTTGTTTTTTTGTTTTTTTATTTTTTTA
1 TTTTTTTGTTTTTTTGTTTTTTT-TTTTTTTA
6355454 TTTTTTTG-TTTTTTGTTTTTTTTTATTTTTA
1 TTTTTTTGTTTTTTTGTTTTTTTTT-TTTTTA
*
6355485 TTTTTTTGTTTTTTTTTGTTTTTTTTTTTTTA
1 TTTTTTTGTTTTTTTGT-TTTTTTTTTTTTTA
6355517 CCAAAGCTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
30 2 0.03
31 28 0.47
32 21 0.36
33 8 0.14
ACGTcount: A:0.05, C:0.00, G:0.06, T:0.88
Consensus pattern (31 bp):
TTTTTTTGTTTTTTTGTTTTTTTTTTTTTTA
Found at i:6355618 original size:42 final size:41
Alignment explanation
Indices: 6355522--6355898 Score: 525
Period size: 42 Copynumber: 9.1 Consensus size: 41
6355512 TTTTACCAAA
* * *
6355522 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
6355565 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
*
6355607 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
6355648 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
6355690 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
6355730 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
6355772 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
*
6355812 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
*
6355854 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAA-T
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATT
6355893 GCTCCT
1 GCTCCT
6355899 AGACAATCAT
Statistics
Matches: 309, Mismatches: 14, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
39 7 0.02
40 78 0.25
41 66 0.21
42 126 0.41
43 28 0.09
44 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:6355735 original size:82 final size:82
Alignment explanation
Indices: 6355522--6355898 Score: 600
Period size: 82 Copynumber: 4.6 Consensus size: 82
6355512 TTTTACCAAA
*
6355522 GCTCCTCTAAACAGAGGCTCAACG-ACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGG--CAACGAACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACC
6355586 ACGACTTTTGG-AAAGTAAATT
62 ACGAC-TTTGGAAAAGTAAATT
* * *
6355607 GCTCCTCTAAACAGAGGC-ACCATGACTTTGGAAAGTAAATTGCTCCTCTAAACAAAGGCACCAC
1 GCTCCTCTAAACAGAGGCAACGA--ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6355671 GACTTTGGAAAAATAAATT
64 GACTTTGGAAAAGTAAATT
*
6355690 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
6355755 CTTTGGAAAAGTAAATT
66 CTTTGGAAAAGTAAATT
6355772 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
6355837 CTTTTGAAAAGTAAATT
66 CTTTGGAAAAGTAAATT
6355854 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAA-TGCTCCT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCT
6355899 AGACAATCAT
Statistics
Matches: 275, Mismatches: 12, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
81 7 0.03
82 180 0.65
83 59 0.21
84 6 0.02
85 23 0.08
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGGAAAAGTAAATT
Found at i:6357126 original size:8 final size:8
Alignment explanation
Indices: 6357113--6357194 Score: 73
Period size: 8 Copynumber: 10.6 Consensus size: 8
6357103 TTTGGATCTT
6357113 TTTTTTCA
1 TTTTTTCA
6357121 TTTTTTCA
1 TTTTTTCA
6357129 TTTTTTCA
1 TTTTTTCA
*
6357137 TTTTCTCA
1 TTTTTTCA
6357145 TTTTTTC-
1 TTTTTTCA
**
6357152 CCTTTT--
1 TTTTTTCA
*
6357158 TTTTTTCT
1 TTTTTTCA
*
6357166 TTTTTTCC
1 TTTTTTCA
6357174 TTTTTCTC-
1 TTTTT-TCA
*
6357182 TTTTCTCA
1 TTTTTTCA
6357190 TTTTT
1 TTTTT
6357195 CATCCATTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
6 4 0.07
7 6 0.10
8 49 0.80
9 2 0.03
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:6360447 original size:57 final size:56
Alignment explanation
Indices: 6360375--6360776 Score: 495
Period size: 57 Copynumber: 6.9 Consensus size: 56
6360365 ATGATTTTTT
*
6360375 TTTTTTAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAATTTA
1 TTTTTAAGG-AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT-GAAATTTA
* *
6360433 TTTTTAAGGAAAATTGATACCTTCAACTTTTTCCTAAAAATATTTTTTGCAAATTTCGA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTG-AAATTT--A
* *
6360492 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATA--TTTTTT-GAAATTTA
*
6360551 TTTTTCTTTTAAGGAAAATTGATACTTTCAGC-TTTTCCCTAAAAATATTTTTTGGAAATTTA
1 ----T-TTTTAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTT-GAAATTTA
*
6360613 TTCTTAAGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTTGAAATTTA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA---TTTTTTGAAATTTA
* * *
6360672 TTTCTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTA
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTG-AAATTTA
*
6360729 TTTCTAAGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTT
1 TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTT
6360777 TTTGAAATTT
Statistics
Matches: 308, Mismatches: 18, Indels: 37
0.85 0.05 0.10
Matches are distributed among these distances:
56 14 0.05
57 128 0.42
58 9 0.03
59 79 0.26
60 12 0.04
61 12 0.04
62 16 0.05
63 7 0.02
64 31 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (56 bp):
TTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTA
Found at i:6360518 original size:116 final size:115
Alignment explanation
Indices: 6360385--6360786 Score: 551
Period size: 116 Copynumber: 3.4 Consensus size: 115
6360375 TTTTTTAGGA
6360385 AAAATTGATACTTTCAACTTTTTCCC-AAAAATA-TTTTTTAGAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTAGAAATTTATTTTTAAGGAAAATT
* * *
6360448 GATACCTTCAACTTTTTCCTAAAAATATTTTTTGCAAATTTCGATTTTCAAGG
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTT--ATTTTCAAGG
* *
6360501 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTAGAAATTTA----T-TTTTAAGGA
* *
6360566 AAATTGATACTTTCAGCTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTT-AAGG
60 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATT-TTCAAGG
* * *
6360622 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTAGAAATTTATTTTTAAGGAAAATT
*
6360687 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTA-TTTCTAAGG
65 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTC-AAGG
*
6360738 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTAGAAATTT
6360787 TTTATTTTTA
Statistics
Matches: 263, Mismatches: 12, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
114 2 0.01
115 8 0.03
116 129 0.49
117 1 0.00
118 14 0.05
121 55 0.21
122 3 0.01
123 51 0.19
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTCAAGG
Found at i:6360687 original size:180 final size:172
Alignment explanation
Indices: 6360385--6360776 Score: 576
Period size: 180 Copynumber: 2.2 Consensus size: 172
6360375 TTTTTTAGGA
*
6360385 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTAGAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTAGAAATTTATTCTTAAGGAAAATTG
*
6360449 ATACCTTCAACTTTTTCCTAAAAATATTTTTTGCAAATTTCGATTTTCAAGGAAAATTGATACTT
65 ATACCTTCAACTTTTCCCTAAAAATATTTTTTGCAAATTTC-ATTTTCAAGGAAAATTGATACTT
*
6360514 TCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
129 TCAACTTTTCCCCAAAAATA--TTTTTTGAAAATTTA--TTTC---TAAGG
* *
6360565 AAAATTGATACTTTCAGCTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTATTCTTAAGGAAAATTGA
* *
6360630 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTG-AAATTT-A-TTTCTGAGGAAAATTGATAC
66 TACCTTCAACTTTTCCCTAAAAATA---TTTTTTGCAAATTTCATTTTC-AAGGAAAATTGATAC
6360692 TTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
127 TTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
6360738 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
6360777 TTTGAAATTT
Statistics
Matches: 199, Mismatches: 8, Indels: 17
0.89 0.04 0.08
Matches are distributed among these distances:
173 43 0.22
176 4 0.02
178 14 0.07
179 11 0.06
180 114 0.57
182 6 0.03
183 7 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (172 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAATTTATTCTTAAGGAAAATTGA
TACCTTCAACTTTTCCCTAAAAATATTTTTTGCAAATTTCATTTTCAAGGAAAATTGATACTTTC
AACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
Found at i:6360832 original size:10 final size:10
Alignment explanation
Indices: 6360805--6360843 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
6360795 TATTTAAAGA
6360805 AAAT-AAAAT
1 AAATAAAAAT
*
6360814 AATAAAAAAAT
1 AA-ATAAAAAT
6360825 AAATAAAAAT
1 AAATAAAAAT
6360835 AAATAAAAA
1 AAATAAAAA
6360844 GAATATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 2 0.08
10 17 0.65
11 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:6360918 original size:27 final size:25
Alignment explanation
Indices: 6360866--6360942 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 25
6360856 AACCTAATCT
* *
6360866 AATAAATAAA-AAATAAAATAAACA
1 AATAAACAAAGAAATAAAAAAAACA
6360890 AATAAACAAAGAAATAAAAAAAATTCA
1 AATAAACAAAGAAATAAAAAAAA--CA
* *
6360917 AAGAAAGAAAGAAA-AAAAAAAA-A
1 AATAAACAAAGAAATAAAAAAAACA
6360940 AAT
1 AAT
6360943 CTGGAGCGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.07
24 9 0.20
25 11 0.24
26 8 0.18
27 14 0.31
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (25 bp):
AATAAACAAAGAAATAAAAAAAACA
Found at i:6361011 original size:8 final size:8
Alignment explanation
Indices: 6360998--6361024 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6360988 CTCGGGGGGA
6360998 GCGGCTTG
1 GCGGCTTG
6361006 GCGGCTTG
1 GCGGCTTG
6361014 GCGGCTTG
1 GCGGCTTG
6361022 GCG
1 GCG
6361025 TGGCTCGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.52, T:0.22
Consensus pattern (8 bp):
GCGGCTTG
Found at i:6361302 original size:19 final size:20
Alignment explanation
Indices: 6361263--6361307 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
6361253 AACACCGATG
*
6361263 CCGGATTCTGGAAAATGTCA
1 CCGGAATCTGGAAAATGTCA
*
6361283 CCGGAATCTGG-AAATTTCA
1 CCGGAATCTGGAAAATGTCA
6361302 CCGGAA
1 CCGGAA
6361308 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
CCGGAATCTGGAAAATGTCA
Found at i:6361898 original size:67 final size:65
Alignment explanation
Indices: 6361814--6361995 Score: 158
Period size: 67 Copynumber: 2.7 Consensus size: 65
6361804 ATTATAGGAT
* *
6361814 AAATAAAATAATAAAAAAAAA-ATATATCAGATATATAATTAGATA-AGTAAAAATACAAAAATG
1 AAATAAAAAAATAAAAAAAAAGATATAT-AGATATAT-A-TACATATAGTAAAAATACAAAAAT-
6361877 AATA
62 AATA
* * *
6361881 AAATAAAAAAGAT-AAAAAAAAGATATATATATATATATACATATTAGTAATAATACATAAATAA
1 AAATAAAAAA-ATAAAAAAAAAGATATATAGATATATATACATA-TAGTAAAAATACAAAAATAA
6361945 TA
64 TA
* *
6361947 AAATACACATAAATATTAACAAAAAAAAATAAATA-A-ATATATACATATA
1 AAATA-A-A-AAA-A-TAA-AAAAAAAGATATATAGATATATATACATATA
6361996 TTAATACATA
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
65 5 0.05
66 10 0.10
67 40 0.41
68 9 0.09
69 6 0.06
70 12 0.12
71 2 0.02
72 13 0.13
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (65 bp):
AAATAAAAAAATAAAAAAAAAGATATATAGATATATATACATATAGTAAAAATACAAAAATAATA
Found at i:6362327 original size:24 final size:23
Alignment explanation
Indices: 6362270--6362330 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
6362260 TGTATAATAT
6362270 TGGTATACTGAATTCTATGTTGAA
1 TGGTATACTGAA-TCTATGTTGAA
* *
6362294 TCGTACACTGAATCGTATGTTGAA
1 TGGTATACTGAATC-TATGTTGAA
*
6362318 TGGTTTACTGAAT
1 TGGTATACTGAAT
6362331 GATTTACTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (23 bp):
TGGTATACTGAATCTATGTTGAA
Found at i:6362329 original size:12 final size:12
Alignment explanation
Indices: 6362314--6362366 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
6362304 AATCGTATGT
6362314 TGAATGGTTTAC
1 TGAATGGTTTAC
*
6362326 TGAATGATTTAC
1 TGAATGGTTTAC
6362338 TGAATAGTGTTT-C
1 TGAAT-G-GTTTAC
*
6362351 TGAATGGTTTGC
1 TGAATGGTTTAC
6362363 TGAA
1 TGAA
6362367 AGATGTGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 4 0.11
12 22 0.61
13 7 0.19
14 3 0.08
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.42
Consensus pattern (12 bp):
TGAATGGTTTAC
Found at i:6367160 original size:23 final size:23
Alignment explanation
Indices: 6367130--6367177 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6367120 TATATAGACG
* *
6367130 AATATGTTCATAAATGATAAACA
1 AATATGTTAATAAATAATAAACA
*
6367153 AATATGTTAATGAATAATAAACA
1 AATATGTTAATAAATAATAAACA
6367176 AA
1 AA
6367178 CCATTACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATATGTTAATAAATAATAAACA
Found at i:6368690 original size:15 final size:15
Alignment explanation
Indices: 6368664--6368802 Score: 118
Period size: 15 Copynumber: 9.1 Consensus size: 15
6368654 GTTTCAAGGC
6368664 TTTAAGGCTTT-GGGT
1 TTTAAGG-TTTAGGGT
* * *
6368679 TTTAAAGTTTTGGAT
1 TTTAAGGTTTAGGGT
*
6368694 TTTAAGGTTTCAAGGT
1 TTTAAGGTTT-AGGGT
6368710 TTTAAGGTTTAGGGT
1 TTTAAGGTTTAGGGT
* *
6368725 TTTAAGGTTTCAAGAT
1 TTTAAGGTTT-AGGGT
* *
6368741 TTTAAAGTTTCAAGGT
1 TTTAAGGTTT-AGGGT
**
6368757 TTTAAGGTTTAGTAT
1 TTTAAGGTTTAGGGT
*
6368772 TTTAAGGTTTAGTGT
1 TTTAAGGTTTAGGGT
**
6368787 TTTGGGGTTTAGGGT
1 TTTAAGGTTTAGGGT
6368802 T
1 T
6368803 GAGGTTTTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
14 3 0.03
15 61 0.60
16 38 0.37
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTAGGGT
Found at i:6368711 original size:31 final size:31
Alignment explanation
Indices: 6368676--6368766 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 31
6368666 TAAGGCTTTG
*
6368676 GGTTTTAAAGTTTTGGATTTTAAGGTTTCAA
1 GGTTTTAAAGTTTAGGATTTTAAGGTTTCAA
* *
6368707 GGTTTTAAGGTTTAGGGTTTTAAGGTTTCAA
1 GGTTTTAAAGTTTAGGATTTTAAGGTTTCAA
*
6368738 GATTTTAAAGTTTCAAGG-TTTTAAGGTTT
1 GGTTTTAAAGTTT--AGGATTTTAAGGTTT
6368767 AGTATTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 39 0.74
32 11 0.21
33 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.47
Consensus pattern (31 bp):
GGTTTTAAAGTTTAGGATTTTAAGGTTTCAA
Found at i:6368714 original size:16 final size:16
Alignment explanation
Indices: 6368693--6368766 Score: 114
Period size: 16 Copynumber: 4.7 Consensus size: 16
6368683 AAGTTTTGGA
6368693 TTTTAAGGTTTCAAGG
1 TTTTAAGGTTTCAAGG
*
6368709 TTTTAAGGTTT-AGGG
1 TTTTAAGGTTTCAAGG
*
6368724 TTTTAAGGTTTCAAGA
1 TTTTAAGGTTTCAAGG
*
6368740 TTTTAAAGTTTCAAGG
1 TTTTAAGGTTTCAAGG
6368756 TTTTAAGGTTT
1 TTTTAAGGTTT
6368767 AGTATTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
15 14 0.27
16 37 0.73
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (16 bp):
TTTTAAGGTTTCAAGG
Found at i:6368725 original size:7 final size:7
Alignment explanation
Indices: 6368694--6368767 Score: 58
Period size: 8 Copynumber: 9.6 Consensus size: 7
6368684 AGTTTTGGAT
6368694 TTTAAGG
1 TTTAAGG
6368701 TTTCAAGG
1 TTT-AAGG
6368709 TTTTAAGG
1 -TTTAAGG
*
6368717 TTTAGGG
1 TTTAAGG
6368724 TTTTAAGG
1 -TTTAAGG
*
6368732 TTTCAAGAT
1 TTT-AAG-G
*
6368741 TTTAAAG
1 TTTAAGG
6368748 TTTCAAGG
1 TTT-AAGG
6368756 TTTTAAGG
1 -TTTAAGG
6368764 TTTA
1 TTTA
6368768 GTATTTTAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 19 0.35
8 26 0.48
9 9 0.17
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:6368774 original size:31 final size:30
Alignment explanation
Indices: 6368647--6368782 Score: 107
Period size: 31 Copynumber: 4.4 Consensus size: 30
6368637 TATGATCTTG
* * * *
6368647 TTTTAGAGTTTCAAGGCTTTAAGGCTTT-GGG
1 TTTTAAAGTTT-AAGGTTTTAAGG-TTTAAGA
* *
6368678 TTTTAAAGTTT-TGGATTTTAAGGTTTCAAGG
1 TTTTAAAGTTTAAGG-TTTTAAGGTTT-AAGA
* *
6368709 TTTTAAGGTTTAGGGTTTTAAGGTTTCAAGA
1 TTTTAAAGTTTAAGGTTTTAAGGTTT-AAGA
6368740 TTTTAAAGTTTCAAGGTTTTAAGGTTT-AGTA
1 TTTTAAAGTTT-AAGGTTTTAAGGTTTAAG-A
*
6368771 TTTTAAGGTTTA
1 TTTTAAAGTTTA
6368783 GTGTTTTGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.06
30 10 0.11
31 58 0.65
32 16 0.18
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (30 bp):
TTTTAAAGTTTAAGGTTTTAAGGTTTAAGA
Found at i:6372066 original size:13 final size:13
Alignment explanation
Indices: 6372048--6372100 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
6372038 AAAAAAGGAG
6372048 ATTTTATTAAAAA
1 ATTTTATTAAAAA
**
6372061 ATTTTATTAATTA
1 ATTTTATTAAAAA
* *
6372074 A-TGTAATAAAAA
1 ATTTTATTAAAAA
*
6372086 ATATTATTAAAAA
1 ATTTTATTAAAAA
6372099 AT
1 AT
6372101 CATAAATTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTTTATTAAAAA
Found at i:6384329 original size:22 final size:22
Alignment explanation
Indices: 6384299--6384342 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6384289 GGTTTCAAGA
*
6384299 TTTTGGAGTTTAGAGGGTTTAG
1 TTTTAGAGTTTAGAGGGTTTAG
6384321 TTTTAGAGTTTAGAGGGTTTAG
1 TTTTAGAGTTTAGAGGGTTTAG
6384343 GGTTTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.45
Consensus pattern (22 bp):
TTTTAGAGTTTAGAGGGTTTAG
Found at i:6384357 original size:14 final size:14
Alignment explanation
Indices: 6384338--6384440 Score: 77
Period size: 14 Copynumber: 7.2 Consensus size: 14
6384328 GTTTAGAGGG
6384338 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
**
6384352 TTTAGGG-TTTGGG
1 TTTAGGGTTTTGAT
*
6384365 TTTAGGATTTT-AGT
1 TTTAGGGTTTTGA-T
*
6384379 TTTAGGGTTTGGAGAGT
1 TTTAGGGTTT--TGA-T
6384396 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
6384410 TTTAGAG-TTTAAT
1 TTTAGGGTTTTGAT
*
6384423 GTTTAGAGTTTTGAT
1 -TTTAGGGTTTTGAT
6384438 TTT
1 TTT
6384441 CAAGTTTAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
13 15 0.21
14 36 0.51
15 7 0.10
17 13 0.18
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:6384433 original size:28 final size:28
Alignment explanation
Indices: 6384396--6384449 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
6384386 TTTGGAGAGT
*
6384396 TTTAGGGTTTTGATTTT-AGAGTTTAATG
1 TTTAGAGTTTTGATTTTCA-AGTTTAATG
6384424 TTTAGAGTTTTGATTTTCAAGTTTAA
1 TTTAGAGTTTTGATTTTCAAGTTTAA
6384450 AGGGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (28 bp):
TTTAGAGTTTTGATTTTCAAGTTTAATG
Found at i:6384458 original size:58 final size:57
Alignment explanation
Indices: 6384316--6384464 Score: 169
Period size: 58 Copynumber: 2.6 Consensus size: 57
6384306 GTTTAGAGGG
* *
6384316 TTTAGTTTTAGAGTTTAGAGGGTTTAGGGTTTTGATTTTAGGGTTTGGGTTTAGGAT
1 TTTAGTTTTAGAGTTTAGAGGGTTTAGGGTTTTGATTTTAGAGTTTAGGTTTAGGAT
* * * *
6384373 TTTAGTTTTAGGGTTTGGAGAGTTTTAGGGTTTTGATTTTAGAGTTTAATGTTTA-GAGT
1 TTTAGTTTTAGAGTTTAGAG-GGTTTAGGGTTTTGATTTTAGAGTTT-AGGTTTAGGA-T
*
6384432 TTT-GATTTTCA-AGTTTAAAGGGTTTAGGGTTTT
1 TTTAG-TTTT-AGAGTTTAGAGGGTTTAGGGTTTT
6384465 AGTTTTAACG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
57 18 0.23
58 39 0.51
59 19 0.25
60 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (57 bp):
TTTAGTTTTAGAGTTTAGAGGGTTTAGGGTTTTGATTTTAGAGTTTAGGTTTAGGAT
Found at i:6384832 original size:14 final size:14
Alignment explanation
Indices: 6384813--6384843 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6384803 TATTCTACTT
6384813 TTTTATTATTATTA
1 TTTTATTATTATTA
*
6384827 TTTTATTTTTATTA
1 TTTTATTATTATTA
6384841 TTT
1 TTT
6384844 AAAAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:6384887 original size:3 final size:3
Alignment explanation
Indices: 6384879--6384926 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
6384869 ATCATTTTTC
*
6384879 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACTT AATT ATT GTT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT ATT
6384925 AT
1 AT
6384927 AATTTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 4 0.10
5 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6385715 original size:12 final size:12
Alignment explanation
Indices: 6385698--6385723 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6385688 TTATGTGCTA
6385698 TTTTTTTGTTTT
1 TTTTTTTGTTTT
6385710 TTTTTTTGTTTT
1 TTTTTTTGTTTT
6385722 TT
1 TT
6385724 GGATTTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:6386374 original size:12 final size:12
Alignment explanation
Indices: 6386357--6386449 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
6386347 AGGTCAATTT
6386357 TTGTTATTACTA
1 TTGTTATTACTA
*
6386369 TTGTTATT-CTT
1 TTGTTATTACTA
* *
6386380 TTTTAGTATTAATA
1 TTGT--TATTACTA
6386394 TTTGTTATTACTA
1 -TTGTTATTACTA
*
6386407 TGGTT-TTA-TA
1 TTGTTATTACTA
* *
6386417 TTATTATTATTA
1 TTGTTATTACTA
* *
6386429 TTATTATTATTA
1 TTGTTATTACTA
*
6386441 TTATTATTA
1 TTGTTATTA
6386450 TTATAGTATA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.08
11 11 0.17
12 35 0.53
13 11 0.17
14 1 0.02
15 3 0.05
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (12 bp):
TTGTTATTACTA
Found at i:6386423 original size:3 final size:3
Alignment explanation
Indices: 6386415--6386557 Score: 139
Period size: 3 Copynumber: 47.3 Consensus size: 3
6386405 TATGGTTTTA
*
6386415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAG TA- TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * * *
6386462 GTAT CAT TAT AAT ATAG TAT TA- TAT TGT ATGT TGT TGT TAT TGT TAT
1 -TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
6386509 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6386557 T
1 T
6386558 GTTTTTATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
2 6 0.05
3 108 0.89
4 5 0.04
5 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6386428 original size:38 final size:38
Alignment explanation
Indices: 6386356--6386433 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
6386346 AAGGTCAATT
* * *
6386356 TTTGTTATTACTATTGTTATTCTTTTTTAGTATTAATA
1 TTTGTTATTACTATGGTTATTATTTATTAGTATTAATA
* *
6386394 TTTGTTATTACTATGGTT-TTATATTATTATTATTATTA
1 TTTGTTATTACTATGGTTATTAT-TTATTAGTATTAATA
6386432 TT
1 TT
6386434 ATTATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 3 0.09
38 31 0.91
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (38 bp):
TTTGTTATTACTATGGTTATTATTTATTAGTATTAATA
Found at i:6386861 original size:18 final size:19
Alignment explanation
Indices: 6386818--6386863 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
6386808 GGAAAACAAG
*
6386818 GTGGATTTTTGGGAAAATA
1 GTGGATTTTTGGGAAAAGA
*
6386837 GTTGATTTTTGGG-AAAGA
1 GTGGATTTTTGGGAAAAGA
6386855 GTGGATTTT
1 GTGGATTTT
6386864 GGAGACACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (19 bp):
GTGGATTTTTGGGAAAAGA
Found at i:6387507 original size:17 final size:18
Alignment explanation
Indices: 6387468--6387516 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
6387458 TTTCTTTTCC
* *
6387468 ATTTTCATTTTATTTTTTG
1 ATTTTAATTTT-TTTATTG
6387487 ATTTTAATTTTTTTATT-
1 ATTTTAATTTTTTTATTG
6387504 ATTTTAAGTTTTT
1 ATTTTAA-TTTTT
6387517 ATTTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 10 0.37
19 10 0.37
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
ATTTTAATTTTTTTATTG
Found at i:6388008 original size:104 final size:104
Alignment explanation
Indices: 6387799--6388038 Score: 329
Period size: 104 Copynumber: 2.3 Consensus size: 104
6387789 ATTATTTTTT
* * *
6387799 AAATTAAATCCTACCAAACTATT-AGAAAACTTAATGAAATTCACAAAAATTTTTACAAATCTTT
1 AAATTAAGTTCTACCAAACTATTGAG-AGACTTAATGAAATTCACAAAAATTTTTACAAATCTTT
* * * **
6387863 TTACAATAAAATATCACCAAATTATTATGAAATCTTTTTC
65 TAACAATAAAATATCACCAAACTATTAGGAAATCTGCTTC
* *
6387903 AAATTAAGTTCTACAAAACTATTGAGAGACTTAATGAAATTTACAAAAATTTTTACAAATCTTTT
1 AAATTAAGTTCTACCAAACTATTGAGAGACTTAATGAAATTCACAAAAATTTTTACAAATCTTTT
* * *
6387968 AACAATAAAATCTCACCAAACTATTGGGAGATCTGCTTC
66 AACAATAAAATATCACCAAACTATTAGGAAATCTGCTTC
* *
6388007 AAAATAAGTTATACCAAACTATTGAGAGACTT
1 AAATTAAGTTCTACCAAACTATTGAGAGACTT
6388039 TACTAATTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
104 117 0.98
105 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (104 bp):
AAATTAAGTTCTACCAAACTATTGAGAGACTTAATGAAATTCACAAAAATTTTTACAAATCTTTT
AACAATAAAATATCACCAAACTATTAGGAAATCTGCTTC
Found at i:6390582 original size:29 final size:29
Alignment explanation
Indices: 6390544--6390643 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 29
6390534 TTTAGAAGAT
*
6390544 TTTGGATTTAAGTTTTGAGGATTTTAGGG
1 TTTGGTTTTAAGTTTTGAGGATTTTAGGG
* *
6390573 TTTGGTTTTAAGGTATAGAAGG--TTTAGGG
1 TTTGGTTTTAA-GTTTTG-AGGATTTTAGGG
* *
6390602 TTTTGATTTTAGAGTTTT-AAGATTTTAGGG
1 -TTTGGTTTTA-AGTTTTGAGGATTTTAGGG
6390632 TTTCGGTTTTAA
1 TTT-GGTTTTAA
6390644 AAATTGAGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
28 2 0.04
29 21 0.38
30 29 0.52
31 4 0.07
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (29 bp):
TTTGGTTTTAAGTTTTGAGGATTTTAGGG
Found at i:6390730 original size:16 final size:16
Alignment explanation
Indices: 6390711--6390833 Score: 65
Period size: 16 Copynumber: 7.7 Consensus size: 16
6390701 AGTTTAAAGG
*
6390711 TTTGGGATTTTAGATT
1 TTTGGGATTTTGGATT
*
6390727 TTTGGGGGTTTTGGA-T
1 TTT-GGGATTTTGGATT
*
6390743 TTTAGGAGTTTTGGATT
1 TTTGGGA-TTTTGGATT
* * * *
6390760 TAT-AGAGTTTGAATT
1 TTTGGGATTTTGGATT
** *
6390775 TAAGGGATTTTAGATT
1 TTTGGGATTTTGGATT
* *
6390791 TTTAGGAGTTTCGGATT
1 TTTGGGA-TTTTGGATT
6390808 TTAT--GATTTTGGATT
1 TT-TGGGATTTTGGATT
*
6390823 TTTGGGGTTTT
1 TTTGGGATTTT
6390834 AGAAACTTAG
Statistics
Matches: 79, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
14 1 0.01
15 21 0.27
16 35 0.44
17 21 0.27
18 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.52
Consensus pattern (16 bp):
TTTGGGATTTTGGATT
Found at i:6390736 original size:24 final size:25
Alignment explanation
Indices: 6390709--6390756 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
6390699 AGAGTTTAAA
*
6390709 GGTTTGGGATTTTA-GATTTTTGGG
1 GGTTTGGGATTTTAGGAGTTTTGGG
*
6390733 GGTTTTGGATTTTAGGAGTTTTGG
1 GGTTTGGGATTTTAGGAGTTTTGG
6390757 ATTTATAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (25 bp):
GGTTTGGGATTTTAGGAGTTTTGGG
Found at i:6390767 original size:64 final size:61
Alignment explanation
Indices: 6390674--6390823 Score: 178
Period size: 64 Copynumber: 2.4 Consensus size: 61
6390664 AATTTAAGGA
* * * *
6390674 TTTGAATTTTAGAGGTTTGGATTTAAGAGTTTAAAGGTTT-GGGATTTTAGATTTTTGGGGGT
1 TTTGGATTTTAGAGTTTTGGATTTAAGAGTTTAAA--TTTAGGGATTTTAGATTTTTAGGAGT
*
6390736 TTTGGATTTTAGGAGTTTTGGATTTATAGAGTTTGAATTTAAGGGATTTTAGATTTTTAGGAGT
1 TTTGGATTTTA-GAGTTTTGGATTTA-AGAGTTTAAATTT-AGGGATTTTAGATTTTTAGGAGT
*
6390800 TTCGGATTTTATGA-TTTTGGATTT
1 TTTGGATTTTA-GAGTTTTGGATTT
6390824 TTGGGGTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
62 13 0.17
63 23 0.30
64 41 0.53
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (61 bp):
TTTGGATTTTAGAGTTTTGGATTTAAGAGTTTAAATTTAGGGATTTTAGATTTTTAGGAGT
Found at i:6390809 original size:17 final size:17
Alignment explanation
Indices: 6390718--6390825 Score: 77
Period size: 16 Copynumber: 6.7 Consensus size: 17
6390708 AGGTTTGGGA
* * *
6390718 TTTTAGATTTTTGGGGG
1 TTTTGGATTTTTAGGAG
6390735 TTTTGGA-TTTTAGGAG
1 TTTTGGATTTTTAGGAG
*
6390751 TTTTGGATTTATA-GAG
1 TTTTGGATTTTTAGGAG
* *
6390767 -TTT-GAATTTAAGG-G
1 TTTTGGATTTTTAGGAG
*
6390781 ATTTTAGATTTTTAGGAG
1 -TTTTGGATTTTTAGGAG
* *
6390799 TTTCGGA-TTTTATGA-
1 TTTTGGATTTTTAGGAG
6390814 TTTTGGATTTTT
1 TTTTGGATTTTT
6390826 GGGGTTTTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
14 6 0.08
15 10 0.14
16 31 0.44
17 23 0.32
18 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.26, T:0.53
Consensus pattern (17 bp):
TTTTGGATTTTTAGGAG
Found at i:6390834 original size:48 final size:47
Alignment explanation
Indices: 6390716--6390836 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 47
6390706 AAAGGTTTGG
* * *
6390716 GATTTTAGATTTTTGGGGGTTTTGGATTTTAGGAGTTTTGGATTTATA
1 GATTTTGGATTTTT-GGGGTTTTAGATTTTAGGAGTTTCGGATTTATA
* * ** *
6390764 GAGTTTGAATTTAAGGGATTTTAGATTTTTAGGAGTTTCGGATTT-TA
1 GATTTTGGATTTTTGGGGTTTTAGA-TTTTAGGAGTTTCGGATTTATA
6390811 TGATTTTGGATTTTTGGGGTTTTAGA
1 -GATTTTGGATTTTTGGGGTTTTAGA
6390837 AACTTAGGGT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
47 11 0.19
48 47 0.81
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (47 bp):
GATTTTGGATTTTTGGGGTTTTAGATTTTAGGAGTTTCGGATTTATA
Found at i:6391173 original size:3 final size:3
Alignment explanation
Indices: 6391165--6391256 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
6391155 ACGAAAAATA
* * ** * *
6391165 ATT ATT ATT ATT -CT ATT ATT ATT ATT ACTT TTT AAGC ATT TTT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT -ATT ATT ATT ATT
* * *
6391211 ATAT ATT TTT AATT ATT ATCT ATT ATT TTT ATT TTT ATT ATT ATT A
1 AT-T ATT ATT -ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT A
6391257 AAACAATTAA
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
2 1 0.02
3 54 0.83
4 10 0.15
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6391352 original size:17 final size:18
Alignment explanation
Indices: 6391305--6391355 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
6391295 ATCATGTATA
6391305 AATATATAAAAAAAAACTT
1 AATATATAAAAAAAAAC-T
6391324 AA-A-ATAATAAAAATAA-T
1 AATATATAA-AAAAA-AACT
6391341 AATATATAAAAAAAA
1 AATATATAAAAAAAA
6391356 TTAGAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
17 8 0.29
18 12 0.43
19 8 0.29
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AATATATAAAAAAAAACT
Found at i:6392408 original size:17 final size:16
Alignment explanation
Indices: 6392372--6392401 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6392362 TTCTTTTTTT
6392372 TTAATTTTTTAATTAA
1 TTAATTTTTTAATTAA
6392388 TTAA-TTTTTAATTA
1 TTAATTTTTTAATTA
6392402 TAATTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTAATTTTTTAATTAA
Found at i:6392463 original size:17 final size:17
Alignment explanation
Indices: 6392441--6392476 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6392431 TTATTATTAT
*
6392441 TATTATTTAAAAATATA
1 TATTATTAAAAAATATA
*
6392458 TATTATTAAAAAATGTA
1 TATTATTAAAAAATATA
6392475 TA
1 TA
6392477 CCCAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATTATTAAAAAATATA
Found at i:6392465 original size:3 final size:3
Alignment explanation
Indices: 6392414--6392447 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6392404 ATTAAACAAA
6392414 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6392448 TAAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.