Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 11 of 153
Found at i:3621181 original size:6 final size:6
Alignment explanation
Indices: 3621170--3621198 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3621160 CTCTCTCCTG
3621170 TCCAGC TCCAGC TCCAGC TCCAGC TCCAG
1 TCCAGC TCCAGC TCCAGC TCCAGC TCCAG
3621199 GAGCAGTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (6 bp):
TCCAGC
Found at i:3628757 original size:104 final size:104
Alignment explanation
Indices: 3628629--3628816 Score: 274
Period size: 104 Copynumber: 1.8 Consensus size: 104
3628619 GACAATTGAC
* *
3628629 CATTACTTATTGGTCGACTTTATGGCTCTTT-GCCCTCCAAGGGTGAACCGTCCTCAAGCGTA-A
1 CATTACTTATTGCTCGACTTTATGGCT-TTTCACCCTCCAAGGGTGAACCGTCCTCAAGCGTATA
*
3628692 TCCTGAACAATTGCCTACAAGTGTAATTCCAGACGATGGTT
65 TCC-GAACAATTGCCCACAAGTGTAATTCCAGACGATGGTT
* *
3628733 CATTACTTATTGCT-GAACTTTATGGCTTTTCACCCTCTAAGGGTGAACCGTCCTCAAGCGTATT
1 CATTACTTATTGCTCG-ACTTTATGGCTTTTCACCCTCCAAGGGTGAACCGTCCTCAAGCGTATA
*
3628797 TCCGAACGATTGCCCACAAG
65 TCCGAACAATTGCCCACAAG
3628817 CATAATCTCG
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
103 4 0.05
104 68 0.91
105 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (104 bp):
CATTACTTATTGCTCGACTTTATGGCTTTTCACCCTCCAAGGGTGAACCGTCCTCAAGCGTATAT
CCGAACAATTGCCCACAAGTGTAATTCCAGACGATGGTT
Found at i:3628840 original size:104 final size:104
Alignment explanation
Indices: 3628629--3628859 Score: 236
Period size: 104 Copynumber: 2.2 Consensus size: 104
3628619 GACAATTGAC
* *
3628629 CATTACTTATTGGTCG-ACTTTATGGCTCTTTGCCCTCCAAGGGTGAACCGTCCTCAAGCGTAAT
1 CATTACTTATTGCT-GAACTTTATGGCTCTTTACCCTCCAAGGGTGAACCGTCCTCAAGCGTAAT
* ** * ****
3628693 CCTGAACAATTGCCTACAAGTGTAATTCCAGACGATGGTT
65 CCTGAACAATTGCCCACAAGCATAATTCCAGACAACAACT
* *
3628733 CATTACTTATTGCTGAACTTTATGGCT-TTTCACCCTCTAAGGGTGAACCGTCCTCAAGCGTATT
1 CATTACTTATTGCTGAACTTTATGGCTCTTT-ACCCTCCAAGGGTGAACCGTCCTCAAGCGTA-A
* *
3628797 TCC-GAACGATTGCCCACAAGCATAATCTCGA-ACAACAACT
64 TCCTGAACAATTGCCCACAAGCATAAT-TCCAGACAACAACT
* * * *
3628837 CATTAATTGTTGCTCAATTTTAT
1 CATTACTTATTGCTGAACTTTAT
3628860 AACTCTCACA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
103 4 0.04
104 95 0.90
105 6 0.06
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (104 bp):
CATTACTTATTGCTGAACTTTATGGCTCTTTACCCTCCAAGGGTGAACCGTCCTCAAGCGTAATC
CTGAACAATTGCCCACAAGCATAATTCCAGACAACAACT
Found at i:3637414 original size:3 final size:3
Alignment explanation
Indices: 3637408--3637449 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
3637398 ATCATCATTG
3637408 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
3637450 CTCAAAGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:3639923 original size:7 final size:7
Alignment explanation
Indices: 3639911--3639960 Score: 84
Period size: 7 Copynumber: 7.1 Consensus size: 7
3639901 TAATTTGATG
3639911 AAATTTA
1 AAATTTA
3639918 AAATTTA
1 AAATTTA
3639925 AAATTTA
1 AAATTTA
3639932 AAATTTA
1 AAATTTA
3639939 AAATTTA
1 AAATTTA
3639946 AAA-TTA
1 AAATTTA
3639952 AAATCTTA
1 AAAT-TTA
3639960 A
1 A
3639961 TATTCGTGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.15
7 31 0.76
8 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:3644166 original size:85 final size:85
Alignment explanation
Indices: 3644023--3644196 Score: 287
Period size: 85 Copynumber: 2.0 Consensus size: 85
3644013 GAAGAAAAAG
* *
3644023 GATAGGTATGAAAAAAATCTAGGGTCTCCTTTTAAGTGAAGGACGAGAATAATCACAATTAACAA
1 GATAGGCATGAAAAAAATCTAGGGTCTCCTTTTAAGTGAAGGACGAAAATAATCACAATTAACAA
*
3644088 GGTGC-CCTTACTGCTTTGCA
66 GGT-CACCTTACTGCATTGCA
* *
3644108 GATAGGCATGAAAAAAATCTAGGGTTTCCTTTTAAGTGAAGGATGAAAATAATCACAATTAACAA
1 GATAGGCATGAAAAAAATCTAGGGTCTCCTTTTAAGTGAAGGACGAAAATAATCACAATTAACAA
3644173 GGTCACCTTACTGCATTGCA
66 GGTCACCTTACTGCATTGCA
3644193 GATA
1 GATA
3644197 ACCTTTTTGA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 1 0.01
85 82 0.99
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (85 bp):
GATAGGCATGAAAAAAATCTAGGGTCTCCTTTTAAGTGAAGGACGAAAATAATCACAATTAACAA
GGTCACCTTACTGCATTGCA
Found at i:3646862 original size:59 final size:61
Alignment explanation
Indices: 3646765--3646952 Score: 238
Period size: 67 Copynumber: 3.0 Consensus size: 61
3646755 CAGCTCCAAT
* *
3646765 ATTAC-CAAAACATTACAAAAGCTGTAATAATTTGTGTAATTGGTTAATGTTTTGT-A-TA
1 ATTACACAAAACATTACAAAAGTTGTAATAATTTGTGTAATTGGGTAATGTTTTGTGAGTA
*
3646823 ATTACACAAAACATTACGAAAGTTGTAATAATTTGTGTAATTGGGTAATGCTTTGTGTGATTGCG
1 ATTACACAAAACATTACAAAAGTTGTAATAATTTGTGTAATTGGGTAATG-TTT-TGTGA----G
3646888 TA
60 TA
* *
3646890 ATTACACAATACATTACAAAAGTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTA
1 ATTACACAAAACATTACAAAAGTTGTAATAATTTGTGTAATTGGGTAA-TGTTTTGTG-AGTA
3646953 GAAGCTTATG
Statistics
Matches: 113, Mismatches: 6, Indels: 17
0.83 0.04 0.12
Matches are distributed among these distances:
58 5 0.04
59 41 0.36
60 3 0.03
61 3 0.03
62 1 0.01
63 3 0.03
66 4 0.04
67 51 0.45
68 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (61 bp):
ATTACACAAAACATTACAAAAGTTGTAATAATTTGTGTAATTGGGTAATGTTTTGTGAGTA
Found at i:3646877 original size:20 final size:20
Alignment explanation
Indices: 3646854--3646891 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3646844 GTTGTAATAA
*
3646854 TTTGTGTAATTGGGTAATGC
1 TTTGTGTAATTGCGTAATGC
*
3646874 TTTGTGTGATTGCGTAAT
1 TTTGTGTAATTGCGTAAT
3646892 TACACAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.29, T:0.47
Consensus pattern (20 bp):
TTTGTGTAATTGCGTAATGC
Found at i:3647104 original size:110 final size:110
Alignment explanation
Indices: 3646911--3647227 Score: 634
Period size: 110 Copynumber: 2.9 Consensus size: 110
3646901 CATTACAAAA
3646911 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
1 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
3646976 AGAAGCTCACCCTAAAAGTTCTCGCAACATTGCAAAAGTTGTAAT
66 AGAAGCTCACCCTAAAAGTTCTCGCAACATTGCAAAAGTTGTAAT
3647021 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
1 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
3647086 AGAAGCTCACCCTAAAAGTTCTCGCAACATTGCAAAAGTTGTAAT
66 AGAAGCTCACCCTAAAAGTTCTCGCAACATTGCAAAAGTTGTAAT
3647131 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
1 GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
3647196 AGAAGCTCACCCTAAAAGTTCTCGCAACATTG
66 AGAAGCTCACCCTAAAAGTTCTCGCAACATTG
3647228 TGCAAGGGAT
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 207 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (110 bp):
GTTGTAATAATTTGTATAATTGGGTAATTGTTTTGTGTAGTAGAAGCTTATGGAAAGCTTATTTT
AGAAGCTCACCCTAAAAGTTCTCGCAACATTGCAAAAGTTGTAAT
Found at i:3666694 original size:20 final size:19
Alignment explanation
Indices: 3666656--3666695 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3666646 ATATTCACCT
* *
3666656 TAAAATGTGAAATCAAATA
1 TAAAATGTCAAAACAAATA
3666675 TAAAATGTCAAACACAAATA
1 TAAAATGTCAAA-ACAAATA
3666695 T
1 T
3666696 TATAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.25
Consensus pattern (19 bp):
TAAAATGTCAAAACAAATA
Found at i:3672433 original size:12 final size:13
Alignment explanation
Indices: 3672395--3672436 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 13
3672385 TATTCTTTTA
3672395 TTTTTAAAATAC-
1 TTTTTAAAATACT
3672407 -TTTTAAAATACT
1 TTTTTAAAATACT
3672419 TTTTTAAAAT--T
1 TTTTTAAAATACT
3672430 TTTTTAA
1 TTTTTAA
3672437 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 19 0.68
13 9 0.32
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTTAAAATACT
Found at i:3672461 original size:29 final size:30
Alignment explanation
Indices: 3672407--3672500 Score: 122
Period size: 30 Copynumber: 3.1 Consensus size: 30
3672397 TTTAAAATAC
3672407 TTTTAAAATACTTTTTTAAAATTTTTTTAA
1 TTTTAAAATACTTTTTTAAAATTTTTTTAA
*
3672437 TTTTAAAATACTTTTTT-TAATTTTTTTAA
1 TTTTAAAATACTTTTTTAAAATTTTTTTAA
*
3672466 TTTT-AAAT-TTTTTTTAAAATACTTTTTTTAA
1 TTTTAAAATACTTTTTT-AAA-A-TTTTTTTAA
3672497 TTTT
1 TTTT
3672501 TATTTTAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
27 6 0.11
28 4 0.07
29 16 0.28
30 18 0.32
31 13 0.23
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTAAAATTTTTTTAA
Found at i:3672462 original size:40 final size:38
Alignment explanation
Indices: 3672377--3672501 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 38
3672367 CCGAATAATA
* **
3672377 AATTTTTTT-ATTCTTTTATTTTTAAAATAC-TTTTAA
1 AATTTTTTTAATTTTTTTATTTTTAAAATACTTTTTTT
*
3672413 AATACTTTTTTAAAATTTTTTTAATTTTAAAATACTTTTTTT
1 AAT--TTTTTT--AATTTTTTTATTTTTAAAATACTTTTTTT
3672455 AATTTTTTTAATTTTAAATTT-TTTTTAAAATACTTTTTTT
1 AATTTTTTTAATTTT---TTTATTTTTAAAATACTTTTTTT
3672495 AATTTTT
1 AATTTTT
3672502 ATTTTAATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
36 3 0.04
38 12 0.16
40 31 0.41
41 22 0.29
42 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (38 bp):
AATTTTTTTAATTTTTTTATTTTTAAAATACTTTTTTT
Found at i:3672470 original size:70 final size:71
Alignment explanation
Indices: 3672379--3672516 Score: 190
Period size: 70 Copynumber: 2.0 Consensus size: 71
3672369 GAATAATAAA
*
3672379 TTTTTTTATTCTTTTATTTTTAAAATACTTTTAAAATAC-TTTTTTAAAATTT-TTTTAATTTTA
1 TTTTTTTATTCTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAATTTATTTTAATTTTA
3672442 AAATAC
66 AAATAC
* * ** **
3672448 TTTTTTTAATTTTTTTAATTTTAAATTTTTTTTAAAATACTTTTTTTAATTTTTATTTTAATTTT
1 TTTTTTT-ATTCTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAATTTATTTTAATTTT
3672513 AAAA
65 AAAA
3672517 ATAAAATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
69 7 0.12
70 27 0.46
71 11 0.19
72 14 0.24
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (71 bp):
TTTTTTTATTCTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAATTTATTTTAATTTTA
AAATAC
Found at i:3672729 original size:22 final size:22
Alignment explanation
Indices: 3672704--3672753 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3672694 CCGTTTTTTC
*
3672704 ATTATTTTGTTA-TCATTTCGTT
1 ATTATTTTGCTACT-ATTTCGTT
* *
3672726 ATTATATTGCTACTATTTTGTT
1 ATTATTTTGCTACTATTTCGTT
3672748 ATTATT
1 ATTATT
3672754 GTTCGGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (22 bp):
ATTATTTTGCTACTATTTCGTT
Found at i:3674137 original size:67 final size:66
Alignment explanation
Indices: 3674014--3674139 Score: 148
Period size: 67 Copynumber: 1.9 Consensus size: 66
3674004 TAATACGAGT
* * * * *
3674014 TTAAGTATATTTAAATTTAAATTCTTTTAAGTATTGCAACAATAATAGTTTCAATTAAGCTAAGA
1 TTAAGTATATTCAAATTCAAATTCTTTTAAGTATTGCAACAACAACAATTTCAATTAAGCTAAGA
3674079 C
66 C
* *
3674080 TTAAGTGATATTCAAATTCACATTCTTTTGAA-TATTGCAATAACAACAATGTT-AATTAAG
1 TTAAGT-ATATTCAAATTCAAATTCTTTT-AAGTATTGCAACAACAACAAT-TTCAATTAAG
3674140 TTGAGATTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 6 0.12
67 40 0.80
68 4 0.08
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (66 bp):
TTAAGTATATTCAAATTCAAATTCTTTTAAGTATTGCAACAACAACAATTTCAATTAAGCTAAGA
C
Found at i:3675839 original size:2 final size:2
Alignment explanation
Indices: 3675832--3675858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3675822 CACAAGACTT
3675832 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
3675859 TCCTAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3676051 original size:15 final size:14
Alignment explanation
Indices: 3676026--3676072 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
3676016 TATAATATCA
3676026 ATTTAATTTTTAAT
1 ATTTAATTTTTAAT
*
3676040 ATTTATATTTTTATT
1 ATTTA-ATTTTTAAT
*
3676055 AATTTACTTTTTAAT
1 -ATTTAATTTTTAAT
3676070 ATT
1 ATT
3676073 ATATATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.29
15 15 0.54
16 5 0.18
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTAATTTTTAAT
Found at i:3677601 original size:13 final size:13
Alignment explanation
Indices: 3677583--3677634 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
3677573 CGGCTGATTG
3677583 TTAATTTGATTAA
1 TTAATTTGATTAA
* *
3677596 TTAATTTTATTTA
1 TTAATTTGATTAA
*
3677609 TTGATTTGATTAA
1 TTAATTTGATTAA
* *
3677622 TTGATTTTATTAA
1 TTAATTTGATTAA
3677635 CGATTTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAATTTGATTAA
Found at i:3692026 original size:19 final size:19
Alignment explanation
Indices: 3691997--3692033 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3691987 TGGGCTGATG
3691997 TTAATTTGGGCTTAGGGTTA
1 TTAATTTGGGCTT-GGGTTA
3692017 TTAA-TTGGGCTTGGGTT
1 TTAATTTGGGCTTGGGTT
3692034 GTTGTTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.46
Consensus pattern (19 bp):
TTAATTTGGGCTTGGGTTA
Found at i:3692042 original size:18 final size:19
Alignment explanation
Indices: 3692000--3692045 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
3691990 GCTGATGTTA
3692000 ATTTGGGCTTAGGGTTATT
1 ATTTGGGCTTAGGGTTATT
* *
3692019 AATTGGGCTT-GGGTTGTT
1 ATTTGGGCTTAGGGTTATT
*
3692037 GTTTGGGCT
1 ATTTGGGCT
3692046 GGTGTAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.11, C:0.07, G:0.37, T:0.46
Consensus pattern (19 bp):
ATTTGGGCTTAGGGTTATT
Found at i:3693953 original size:20 final size:21
Alignment explanation
Indices: 3693928--3693969 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3693918 GTCATCGTCC
*
3693928 GCTTTTCTTTTTCTTTT-TTT
1 GCTTTTCTATTTCTTTTCTTT
*
3693948 GCTTTTCTATTTGTTTTCTTT
1 GCTTTTCTATTTCTTTTCTTT
3693969 G
1 G
3693970 TTTCCGGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.14, G:0.10, T:0.74
Consensus pattern (21 bp):
GCTTTTCTATTTCTTTTCTTT
Found at i:3702216 original size:16 final size:16
Alignment explanation
Indices: 3702197--3702229 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3702187 GTTTTAGAGC
3702197 TATAAATATGTCAACA
1 TATAAATATGTCAACA
3702213 TATAAATATGTCAACA
1 TATAAATATGTCAACA
3702229 T
1 T
3702230 CGAAATTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (16 bp):
TATAAATATGTCAACA
Found at i:3702235 original size:16 final size:16
Alignment explanation
Indices: 3702200--3702235 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3702190 TTAGAGCTAT
*
3702200 AAATATGTCAACATAT
1 AAATATGTCAACATAG
*
3702216 AAATATGTCAACATCG
1 AAATATGTCAACATAG
3702232 AAAT
1 AAAT
3702236 TCAGTAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (16 bp):
AAATATGTCAACATAG
Found at i:3704006 original size:2 final size:2
Alignment explanation
Indices: 3703995--3704024 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3703985 AAGCTGGTTT
3703995 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3704025 TAAATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3706038 original size:29 final size:30
Alignment explanation
Indices: 3705979--3706036 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3705969 TCCGAGCCTT
*
3705979 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
3706009 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
3706037 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:3706266 original size:13 final size:13
Alignment explanation
Indices: 3706248--3706279 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3706238 TTTCCAGCAA
3706248 TTATGAATTTATT
1 TTATGAATTTATT
3706261 TTATGAATTTATT
1 TTATGAATTTATT
*
3706274 TGATGA
1 TTATGA
3706280 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3706504 original size:50 final size:50
Alignment explanation
Indices: 3706374--3706616 Score: 317
Period size: 51 Copynumber: 4.7 Consensus size: 50
3706364 ATTTGGGTAA
* *
3706374 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-----ATCACG
* * * *
3706430 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGCCATGGGCACCGA-GACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
*
3706480 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
3706530 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
3706581 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
3706617 TTTGGCATGT
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 49 0.28
51 84 0.48
55 2 0.01
56 38 0.22
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3706517 original size:26 final size:26
Alignment explanation
Indices: 3706488--3706616 Score: 72
Period size: 26 Copynumber: 5.0 Consensus size: 26
3706478 CGAGAGGTCC
3706488 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
3706514 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
3706539 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
3706565 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
3706590 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
3706616 C
1 C
3706617 TTTGGCATGT
Statistics
Matches: 69, Mismatches: 24, Indels: 20
0.61 0.21 0.18
Matches are distributed among these distances:
24 4 0.06
25 30 0.43
26 31 0.45
27 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (26 bp):
CATGTAAGACCATGTCTGGGACATGG
Found at i:3706524 original size:25 final size:25
Alignment explanation
Indices: 3706496--3706576 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
3706486 CCCATGTAAG
3706496 ACCATGTCTGGGACATGGCATGGGC
1 ACCATGTCTGGGACATGGCATGGGC
** * ** *
3706521 ACCATCAC-GAGAACATCCCATGTAAG-
1 ACCATGTCTG-GGACATGGCATG--GGC
3706547 ACCATGTCTGGGACATGGCATGGGC
1 ACCATGTCTGGGACATGGCATGGGC
3706572 ACCAT
1 ACCAT
3706577 CACGAGAACA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 2 0.05
25 20 0.51
26 15 0.38
27 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (25 bp):
ACCATGTCTGGGACATGGCATGGGC
Found at i:3706593 original size:25 final size:25
Alignment explanation
Indices: 3706514--3706593 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
3706504 TGGGACATGG
3706514 CATGGGCACCATCACGAGAACATCC
1 CATGGGCACCATCACGAGAACATCC
* ** * **
3706539 CATGTAAG-ACCATGTCTG-GGACATGG
1 CATG--GGCACCATCAC-GAGAACATCC
3706565 CATGGGCACCATCACGAGAACATCC
1 CATGGGCACCATCACGAGAACATCC
3706590 CATG
1 CATG
3706594 TAAGACCATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
26 15 0.39
27 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (25 bp):
CATGGGCACCATCACGAGAACATCC
Found at i:3708093 original size:45 final size:44
Alignment explanation
Indices: 3708043--3708226 Score: 278
Period size: 45 Copynumber: 4.1 Consensus size: 44
3708033 TAACGGTAGT
* * *
3708043 AGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACATTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAAC
*
3708088 GGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCG-TAACAGTAAC
*
3708133 AGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAAC
*
3708178 AGTAACAGTATTCGACACATAAAGTGCCGAATCAGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAACAGTAAC
3708223 AGTA
1 AGTA
3708227 GTCGGCACAT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
44 1 0.01
45 126 0.98
46 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (44 bp):
AGTAACAGTATTCGACACACAAAGTGCCGAATCGTAACAGTAAC
Found at i:3708132 original size:39 final size:42
Alignment explanation
Indices: 3708043--3708248 Score: 195
Period size: 45 Copynumber: 4.8 Consensus size: 42
3708033 TAACGGTAGT
* * * *
3708043 AGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACATTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATC-G-GA-AGTAAC
* *
3708088 GGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCG--GA-AGTAAC
*
3708133 AGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCGG--A-AGTAAC
*
3708178 AGTAACAGTATTCGACACATAAAGTGCCGAATC---AGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCGGAAGTAAC
* * * *
3708217 AGTAACAGTAGTCGGCACA-TAAGTGCCTAATC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATC
3708249 AGTAAGCCGG
Statistics
Matches: 145, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
38 11 0.08
39 23 0.16
44 1 0.01
45 110 0.76
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (42 bp):
AGTAACAGTATTCGACACACAAAGTGCCGAATCGGAAGTAAC
Found at i:3712175 original size:9 final size:9
Alignment explanation
Indices: 3712158--3712202 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
3712148 TTTTTTCTCC
3712158 AAAACCCTA
1 AAAACCCTA
*
3712167 AAAATCCTA
1 AAAACCCTA
3712176 AAAACCCT-
1 AAAACCCTA
3712184 AAAACCCT-
1 AAAACCCTA
3712192 -AAACCCTA
1 AAAACCCTA
3712200 AAA
1 AAA
3712203 TCCAAAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 7 0.22
8 8 0.25
9 17 0.53
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAACCCTA
Found at i:3712178 original size:8 final size:8
Alignment explanation
Indices: 3712158--3712211 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 8
3712148 TTTTTTCTCC
3712158 AAAACCCT
1 AAAACCCT
*
3712166 AAAAATCCT
1 -AAAACCCT
3712175 AAAAACCCT
1 -AAAACCCT
3712184 AAAACCCT
1 AAAACCCT
3712192 -AAACCCT
1 AAAACCCT
*
3712199 AAAATCC-
1 AAAACCCT
3712206 AAAACC
1 AAAACC
3712212 TACAAGTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
7 12 0.30
8 13 0.32
9 15 0.38
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAACCCT
Found at i:3720826 original size:2 final size:2
Alignment explanation
Indices: 3720819--3720874 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
3720809 CCCGCAAGAC
*
3720819 AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3720861 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
3720875 GGAGGACCTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3730066 original size:20 final size:20
Alignment explanation
Indices: 3730038--3730077 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3730028 ATCTAAATGA
*
3730038 CAATACAATTACTTAACTTT
1 CAATACAATCACTTAACTTT
*
3730058 CAATTCAATCACTTAACTTT
1 CAATACAATCACTTAACTTT
3730078 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
CAATACAATCACTTAACTTT
Found at i:3740375 original size:34 final size:35
Alignment explanation
Indices: 3740317--3740383 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
3740307 CAAACACCAG
* * *
3740317 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
3740352 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
3740384 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:3743671 original size:15 final size:16
Alignment explanation
Indices: 3743653--3743684 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3743643 TTAATTAATA
3743653 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
3743668 TAATTTAATAATATTT
1 TAATTTAATAATATTT
3743684 T
1 T
3743685 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:3743675 original size:25 final size:26
Alignment explanation
Indices: 3743640--3743692 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
3743630 TATTATCTTA
3743640 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
3743664 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
3743691 AT
1 AT
3743693 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:3746588 original size:27 final size:27
Alignment explanation
Indices: 3746554--3746648 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
3746544 TCCTGCTGCC
*
3746554 GCTGAAGTTCCAACTGCCGTTGATGCT
1 GCTGAAGCTCCAACTGCCGTTGATGCT
* * *
3746581 GCTGAAGTTCCAACTG-C--TGCTGCC
1 GCTGAAGCTCCAACTGCCGTTGATGCT
* *
3746605 GCTGAAGCTCCAACAGACGTTGATGCT
1 GCTGAAGCTCCAACTGCCGTTGATGCT
3746632 GCTGAAGCTCCAACTGC
1 GCTGAAGCTCCAACTGC
3746649 TGCTGCCGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
24 19 0.33
25 1 0.02
26 1 0.02
27 36 0.63
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.24
Consensus pattern (27 bp):
GCTGAAGCTCCAACTGCCGTTGATGCT
Found at i:3746626 original size:51 final size:50
Alignment explanation
Indices: 3746546--3746750 Score: 238
Period size: 48 Copynumber: 4.1 Consensus size: 50
3746536 GACGAAGCTC
* *
3746546 CTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG-CGTTGATGCTGCTGAAGCTCCAACTG
*
3746597 CTGCTGCCGCTGAAGCTCCAACAGACGTTGATGCTGCTGAAGCTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG-CGTTGATGCTGCTGAAGCTCCAACTG
* * * * * *
3746648 CTGCTGCCGCTGATGCTCCAATTGC--TGCTGCCGCTGATGCTCAAACTG
1 CTGCTGCCGCTGAAGCTCCAACTGCGTTGATGCTGCTGAAGCTCCAACTG
* * * *
3746696 CTGCTGCCGCTGATGCTCCAACTGC--TGCTGCCGCTGATGCTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTGCGTTGATGCTGCTGAAGCTCCAACTG
*
3746744 ATGCTGC
1 CTGCTGC
3746751 TGCCGTTGTA
Statistics
Matches: 140, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
48 71 0.51
50 1 0.01
51 68 0.49
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (50 bp):
CTGCTGCCGCTGAAGCTCCAACTGCGTTGATGCTGCTGAAGCTCCAACTG
Found at i:3746665 original size:24 final size:24
Alignment explanation
Indices: 3746650--3746750 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
3746640 TCCAACTGCT
*
3746650 GCTGCCGCTGATGCTCCAATTGCT
1 GCTGCCGCTGATGCTCCAACTGCT
*
3746674 GCTGCCGCTGATGCTCAAACTGCT
1 GCTGCCGCTGATGCTCCAACTGCT
3746698 GCTGCCGCTGATGCTCCAACTGCT
1 GCTGCCGCTGATGCTCCAACTGCT
*
3746722 GCTGCCGCTGATGCTCCAACTGAT
1 GCTGCCGCTGATGCTCCAACTGCT
3746746 GCTGC
1 GCTGC
3746751 TGCCGTTGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.14, C:0.35, G:0.26, T:0.26
Consensus pattern (24 bp):
GCTGCCGCTGATGCTCCAACTGCT
Found at i:3746688 original size:12 final size:12
Alignment explanation
Indices: 3746644--3746750 Score: 60
Period size: 12 Copynumber: 8.9 Consensus size: 12
3746634 TGAAGCTCCA
*
3746644 ACTGCTGCTGCC
1 ACTGATGCTGCC
*
3746656 GCTGATGCT-CC
1 ACTGATGCTGCC
* *
3746667 AATTGCTGCTGCC
1 -ACTGATGCTGCC
* *
3746680 GCTGATGCT-CAA
1 ACTGATGCTGC-C
*
3746692 ACTGCTGCTGCC
1 ACTGATGCTGCC
*
3746704 GCTGATGCT-CC
1 ACTGATGCTGCC
*
3746715 AACTGCTGCTGCC
1 -ACTGATGCTGCC
*
3746728 GCTGATGCT-CC
1 ACTGATGCTGCC
3746739 AACTGATGCTGC
1 -ACTGATGCTGC
3746751 TGCCGTTGTA
Statistics
Matches: 68, Mismatches: 19, Indels: 15
0.67 0.19 0.15
Matches are distributed among these distances:
11 7 0.10
12 55 0.81
13 6 0.09
ACGTcount: A:0.14, C:0.35, G:0.25, T:0.26
Consensus pattern (12 bp):
ACTGATGCTGCC
Found at i:3746776 original size:27 final size:27
Alignment explanation
Indices: 3746546--3746779 Score: 167
Period size: 24 Copynumber: 9.2 Consensus size: 27
3746536 GACGAAGCTC
* * *
3746546 CTGCTGCCGCTGAAGTTCCAACTGCCG
1 CTGCTGCCGCTGATGCTCCAACTGACG
* * * * *
3746573 TTGATGCTGCTGAAGTTCCAACT---G
1 CTGCTGCCGCTGATGCTCCAACTGACG
* *
3746597 CTGCTGCCGCTGAAGCTCCAACAGACG
1 CTGCTGCCGCTGATGCTCCAACTGACG
* * * *
3746624 TTGATGCTGCTGAAGCTCCAACT---G
1 CTGCTGCCGCTGATGCTCCAACTGACG
*
3746648 CTGCTGCCGCTGATGCTCCAA-T--TG
1 CTGCTGCCGCTGATGCTCCAACTGACG
*
3746672 CTGCTGCCGCTGATGCTCAAACT---G
1 CTGCTGCCGCTGATGCTCCAACTGACG
3746696 CTGCTGCCGCTGATGCTCCAACT---G
1 CTGCTGCCGCTGATGCTCCAACTGACG
*
3746720 CTGCTGCCGCTGATGCTCCAACTGATG
1 CTGCTGCCGCTGATGCTCCAACTGACG
* * *
3746747 CTGCTGCCGTTG-TAGTTCCAACTGCCG
1 CTGCTGCCGCTGAT-GCTCCAACTGACG
3746774 CTGCTG
1 CTGCTG
3746780 TTCAACTTGA
Statistics
Matches: 176, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
23 1 0.01
24 105 0.60
25 1 0.01
26 1 0.01
27 68 0.39
ACGTcount: A:0.16, C:0.32, G:0.26, T:0.26
Consensus pattern (27 bp):
CTGCTGCCGCTGATGCTCCAACTGACG
Found at i:3757849 original size:27 final size:26
Alignment explanation
Indices: 3757784--3757868 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 26
3757774 CATATCTATC
* * * *
3757784 CATATAAACATTTCGTACAATCACTT
1 CATATAATCATTTCATATAATCAATT
3757810 CATAT-ATCTATTTTCATATAATCAATT
1 CATATAATC-A-TTTCATATAATCAATT
*
3757837 CATATAATCATTTCATATACTC-ATT
1 CATATAATCATTTCATATAATCAATT
*
3757862 TATATAA
1 CATATAA
3757869 CTATTTTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 11 0.22
26 17 0.34
27 19 0.38
28 3 0.06
ACGTcount: A:0.39, C:0.18, G:0.01, T:0.42
Consensus pattern (26 bp):
CATATAATCATTTCATATAATCAATT
Found at i:3757916 original size:26 final size:26
Alignment explanation
Indices: 3757882--3757953 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
3757872 TTTTGTATAC
*
3757882 CCATCTCATATTACAATTTCGTAG-AA
1 CCATTTCATATTACAATTTCG-AGTAA
* * * *
3757908 TCATTTCATATAACCATTTTGAGTAA
1 CCATTTCATATTACAATTTCGAGTAA
*
3757934 CCATTTCATTTTACACATTT
1 CCATTTCATATTACA-ATTT
3757954 AACATGTATT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.83
27 4 0.11
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.42
Consensus pattern (26 bp):
CCATTTCATATTACAATTTCGAGTAA
Found at i:3757925 original size:13 final size:13
Alignment explanation
Indices: 3757784--3757926 Score: 74
Period size: 13 Copynumber: 11.0 Consensus size: 13
3757774 CATATCTATC
*
3757784 CATATAAACATTT
1 CATATAACCATTT
* * * *
3757797 CGTACAATCACTT
1 CATATAACCATTT
* *
3757810 CATATATCTATTTT
1 CATATAACCA-TTT
* *
3757824 CATATAATCAATT
1 CATATAACCATTT
*
3757837 CATATAATCATTT
1 CATATAACCATTT
3757850 CATAT-ACTCATTT
1 CATATAAC-CATTT
*
3757863 -ATATAACTATTT
1 CATATAACCATTT
** * *
3757875 TGTATACCCATCT
1 CATATAACCATTT
* *
3757888 CATATTACAATTT
1 CATATAACCATTT
* * *
3757901 CGTAGAATCATTT
1 CATATAACCATTT
3757914 CATATAACCATTT
1 CATATAACCATTT
3757927 TGAGTAACCA
Statistics
Matches: 91, Mismatches: 35, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
12 9 0.10
13 73 0.80
14 9 0.10
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:3759713 original size:19 final size:21
Alignment explanation
Indices: 3759659--3759718 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
3759649 TGGGTGAATT
*
3759659 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACAAGCTTCTGTTC
* *
3759680 AGCTCTTATAAGCTTCTGTTT
1 AGCTCTTACAAGCTTCTGTTC
3759701 AGCT-TT-CAAGCTTCTGTT
1 AGCTCTTACAAGCTTCTGTT
3759719 GGCATATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
AGCTCTTACAAGCTTCTGTTC
Found at i:3761248 original size:17 final size:18
Alignment explanation
Indices: 3761222--3761267 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3761212 TTTTCAACAT
*
3761222 AATCATAATTTAG-CCAA
1 AATCACAATTTAGTCCAA
*
3761239 TATCACAATTTAGTCCAA
1 AATCACAATTTAGTCCAA
3761257 AATCACCAATT
1 AATCA-CAATT
3761268 GTCATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 8 0.33
19 5 0.21
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (18 bp):
AATCACAATTTAGTCCAA
Found at i:3763227 original size:31 final size:31
Alignment explanation
Indices: 3763189--3763247 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3763179 GGCCTATTTT
3763189 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
3763220 TATTTTAAAAATATTTTAAAATTAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAA
3763248 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:3763229 original size:11 final size:11
Alignment explanation
Indices: 3763189--3763282 Score: 69
Period size: 11 Copynumber: 8.9 Consensus size: 11
3763179 GGCCTATTTT
3763189 TATTTT-AAAA
1 TATTTTAAAAA
3763199 -ATTTTAAAAA
1 TATTTTAAAAA
**
3763209 -ATTAAAAAAA
1 TATTTTAAAAA
3763219 GTATTTTAAAAA
1 -TATTTTAAAAA
3763231 TATTTT--AAA
1 TATTTTAAAAA
3763240 -A--TTAAAAA
1 TATTTTAAAAA
*
3763248 TTTTTTAAAAAAA
1 TATTTT--AAAAA
3763261 GTATTTTAAAAA
1 -TATTTTAAAAA
3763273 TATTTTAAAA
1 TATTTTAAAA
3763283 TTAAAAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 21
0.71 0.06 0.22
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 8 0.12
10 12 0.18
11 18 0.27
12 13 0.19
13 5 0.07
14 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:3763235 original size:42 final size:40
Alignment explanation
Indices: 3763189--3763332 Score: 191
Period size: 40 Copynumber: 3.5 Consensus size: 40
3763179 GGCCTATTTT
3763189 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTTAAAAAATTAAAAAAAGTATTTTAAAAA
*
3763231 TATTTTAAAA-TTAAAAATTTTTTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAA---ATTAAAAAAAGTATTTTAAAAA
* * *
3763273 TATTTTAAAATTAAAAAAATTAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTTAAAAA
*
3763313 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTTAAAAAAT
3763333 AAATATATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
39 7 0.08
40 39 0.42
41 4 0.04
42 37 0.40
43 6 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:3763289 original size:17 final size:17
Alignment explanation
Indices: 3763224--3763257 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3763214 AAAAAGTATT
3763224 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
3763241 TTAAAAATTTTTTAAAA
1 TTAAAAATATTTTAAAA
3763258 AAAGTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:3766547 original size:24 final size:24
Alignment explanation
Indices: 3766520--3766598 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
3766510 TCCTGCTGCC
3766520 GCTGAAGTTCCAACTGCCGTTGATGCT
1 GCTGAAGTTCCAACTGCCGTTGA---T
* * **
3766547 GCTGAAGTTCCAACTGCTGCTGCC
1 GCTGAAGTTCCAACTGCCGTTGAT
* * *
3766571 GCTGAAGCTCCAACAGACGTTGAT
1 GCTGAAGTTCCAACTGCCGTTGAT
3766595 GCTG
1 GCTG
3766599 CTGAAGTCTT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 21 0.51
27 20 0.49
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (24 bp):
GCTGAAGTTCCAACTGCCGTTGAT
Found at i:3766554 original size:27 final size:26
Alignment explanation
Indices: 3766520--3766605 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
3766510 TCCTGCTGCC
3766520 GCTGAAGTTCCAACTGCCGTTGATGCT
1 GCTGAAGTTCCAACTG-CGTTGATGCT
* *
3766547 GCTGAAGTTCCAACTGC--TGCTGCC
1 GCTGAAGTTCCAACTGCGTTGATGCT
* *
3766571 GCTGAAGCTCCAACAGACGTTGATGCT
1 GCTGAAGTTCCAACTG-CGTTGATGCT
3766598 GCTGAAGT
1 GCTGAAGT
3766606 CTTTGCTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 19 0.39
25 1 0.02
26 1 0.02
27 28 0.57
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (26 bp):
GCTGAAGTTCCAACTGCGTTGATGCT
Found at i:3766910 original size:364 final size:364
Alignment explanation
Indices: 3766241--3766968 Score: 1411
Period size: 364 Copynumber: 2.0 Consensus size: 364
3766231 CTCTGGTTAA
3766241 TCTTTGCTTGGATGATCTGCTCCAGTGATGGATCCAGGTGCCTTGATGCTTGAGAATTATTCTGC
1 TCTTTGCTTGGATGATCTGCTCCAGTGATGGATCCAGGTGCCTTGATGCTTGAGAATTATTCTGC
3766306 AATTCACTTAGAAGATGCCTTTGTAACTGAACCTGATCAAGTTGGATGTCTCTAGCAGCATCAAA
66 AATTCACTTAGAAGATGCCTTTGTAACTGAACCTGATCAAGTTGGATGTCTCTAGCAGCATCAAA
**
3766371 TACATCCTGACCATAGCCAGGATCAGAAATCTGATGCTGGAGCAATTGATCAAGAAGAATCTGTT
131 TACATCCTGACCATAGCCAGGATCAGAAATCTGATGCTCAAGCAATTGATCAAGAAGAATCTGTT
3766436 GAGCTTGAGAATTCTGCTGCTGTAGATGTTGTTGTTGCAACTGCTGCAACAGTTCAATTTGGTGG
196 GAGCTTGAGAATTCTGCTGCTGTAGATGTTGTTGTTGCAACTGCTGCAACAGTTCAATTTGGTGG
3766501 TGACGAAGCTCCTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTGCTG
261 TGACGAAGCTCCTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTGCTG
3766566 CTGCCGCTGAAGCTCCAACAGACGTTGATGCTGCTGAAG
326 CTGCCGCTGAAGCTCCAACAGACGTTGATGCTGCTGAAG
3766605 TCTTTGCTTGGATGATCTGCTCCAGTGATGGATCCAGGTGCCTTGATGCTTGAGAATTATTCTGC
1 TCTTTGCTTGGATGATCTGCTCCAGTGATGGATCCAGGTGCCTTGATGCTTGAGAATTATTCTGC
* *
3766670 AATTCACTTAGAAGATGCCTTTGTAATTGAACCTGATCGAGTTGGATGTCTCTAGCAGCATCAAA
66 AATTCACTTAGAAGATGCCTTTGTAACTGAACCTGATCAAGTTGGATGTCTCTAGCAGCATCAAA
3766735 TACATCCTGACCATAGCCAGGATCAGAAATCTGATGCTCAAGCAATTGATCAAGAAGAATCTGTT
131 TACATCCTGACCATAGCCAGGATCAGAAATCTGATGCTCAAGCAATTGATCAAGAAGAATCTGTT
3766800 GAGCTTGAGAATTCTGCTGCTGTAGATGTTGTTGTTGCAACTGCTGCAACAGTTCAATTTGGTGG
196 GAGCTTGAGAATTCTGCTGCTGTAGATGTTGTTGTTGCAACTGCTGCAACAGTTCAATTTGGTGG
3766865 TGACGAAGCTCCTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTGCTG
261 TGACGAAGCTCCTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTGCTG
*
3766930 CTGCCGCTGAAGCTCCAACAGACGTTGCTGCTGCTGAAG
326 CTGCCGCTGAAGCTCCAACAGACGTTGATGCTGCTGAAG
3766969 CTCCAACTGC
Statistics
Matches: 359, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
364 359 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (364 bp):
TCTTTGCTTGGATGATCTGCTCCAGTGATGGATCCAGGTGCCTTGATGCTTGAGAATTATTCTGC
AATTCACTTAGAAGATGCCTTTGTAACTGAACCTGATCAAGTTGGATGTCTCTAGCAGCATCAAA
TACATCCTGACCATAGCCAGGATCAGAAATCTGATGCTCAAGCAATTGATCAAGAAGAATCTGTT
GAGCTTGAGAATTCTGCTGCTGTAGATGTTGTTGTTGCAACTGCTGCAACAGTTCAATTTGGTGG
TGACGAAGCTCCTGCTGCCGCTGAAGTTCCAACTGCCGTTGATGCTGCTGAAGTTCCAACTGCTG
CTGCCGCTGAAGCTCCAACAGACGTTGATGCTGCTGAAG
Found at i:3766946 original size:24 final size:24
Alignment explanation
Indices: 3766876--3767107 Score: 257
Period size: 24 Copynumber: 9.3 Consensus size: 24
3766866 GACGAAGCTC
*
3766876 CTGCTGCCGCTGAAGTTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG
* * *
3766900 CCGTTGATGCTGCTGAAGTTCCAACTG
1 -C--TGCTGCCGCTGAAGCTCCAACTG
*
3766927 CTGCTGCCGCTGAAGCTCCAACAG
1 CTGCTGCCGCTGAAGCTCCAACTG
*
3766951 ACGTTGCTGCTGCTGAAGCTCCAACTG
1 -C--TGCTGCCGCTGAAGCTCCAACTG
*
3766978 CTGCTGCCGCTGATGCTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG
*
3767002 CTGCTGCCGCTGATGCTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG
*
3767026 CTGCTGCCGCTGATGCTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG
*
3767050 CTGCTGCCTCTGAAGCTCCAACTGATG
1 CTGCTGCCGCTGAAGCTCCAAC---TG
* * *
3767077 CTGCTGCCGTTGTAGTTCCAACTG
1 CTGCTGCCGCTGAAGCTCCAACTG
*
3767101 CCGCTGC
1 CTGCTGC
3767108 TGTTCAAATT
Statistics
Matches: 182, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
24 116 0.64
25 2 0.01
26 2 0.01
27 62 0.34
ACGTcount: A:0.16, C:0.34, G:0.25, T:0.25
Consensus pattern (24 bp):
CTGCTGCCGCTGAAGCTCCAACTG
Found at i:3767006 original size:12 final size:12
Alignment explanation
Indices: 3766968--3767054 Score: 72
Period size: 12 Copynumber: 7.2 Consensus size: 12
3766958 TGCTGCTGAA
3766968 GCTCCAACTGCT
1 GCTCCAACTGCT
* *
3766980 GCTGCC-GCTGAT
1 GCT-CCAACTGCT
3766992 GCTCCAACTGCT
1 GCTCCAACTGCT
* *
3767004 GCTGCC-GCTGAT
1 GCT-CCAACTGCT
3767016 GCTCCAACTGCT
1 GCTCCAACTGCT
* *
3767028 GCTGCC-GCTGAT
1 GCT-CCAACTGCT
3767040 GCTCCAACTGCT
1 GCTCCAACTGCT
3767052 GCT
1 GCT
3767055 GCCTCTGAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.13, C:0.38, G:0.24, T:0.25
Consensus pattern (12 bp):
GCTCCAACTGCT
Found at i:3777768 original size:130 final size:130
Alignment explanation
Indices: 3777535--3777794 Score: 511
Period size: 130 Copynumber: 2.0 Consensus size: 130
3777525 AACATTATCA
3777535 CTGAAACTGTTTTACTTCACATGATGTATTTTTCCCTGGATACCTTGATGTGAACCAGATGGCAT
1 CTGAAACTGTTTTACTTCACATGATGTATTTTTCCCTGGATACCTTGATGTGAACCAGATGGCAT
*
3777600 AATGTATTTTTGCTGAATATAGTACTCATGCTGAAGACGGTATGGATTTTAACTTTCTCCTTGTT
66 AATGTATTTTTGCTGAATATAGTACTCATGCTGAAGACGGCATGGATTTTAACTTTCTCCTTGTT
3777665 CTGAAACTGTTTTACTTCACATGATGTATTTTTCCCTGGATACCTTGATGTGAACCAGATGGCAT
1 CTGAAACTGTTTTACTTCACATGATGTATTTTTCCCTGGATACCTTGATGTGAACCAGATGGCAT
3777730 AATGTATTTTTGCTGAATATAGTACTCATGCTGAAGACGGCATGGATTTTAACTTTCTCCTTGTT
66 AATGTATTTTTGCTGAATATAGTACTCATGCTGAAGACGGCATGGATTTTAACTTTCTCCTTGTT
3777795 AAATATGCTC
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (130 bp):
CTGAAACTGTTTTACTTCACATGATGTATTTTTCCCTGGATACCTTGATGTGAACCAGATGGCAT
AATGTATTTTTGCTGAATATAGTACTCATGCTGAAGACGGCATGGATTTTAACTTTCTCCTTGTT
Found at i:3779615 original size:27 final size:27
Alignment explanation
Indices: 3779579--3779639 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
3779569 TTAGATTTGA
3779579 GAGCATGTGGCAAAGAGAGTAAATTTT
1 GAGCATGTGGCAAAGAGAGTAAATTTT
*
3779606 GAGCATGTGGCAAAGAGAGTAATTTTT
1 GAGCATGTGGCAAAGAGAGTAAATTTT
3779633 GAGCATG
1 GAGCATG
3779640 CATAGTGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (27 bp):
GAGCATGTGGCAAAGAGAGTAAATTTT
Found at i:3780379 original size:15 final size:16
Alignment explanation
Indices: 3780333--3780379 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3780323 AATTCAATCA
*
3780333 AATATTCATTTGTTTTT
1 AATA-TCATTTGTTATT
* *
3780350 AATATAATTTTTTATT
1 AATATCATTTGTTATT
3780366 AATA-CATTTGTTAT
1 AATATCATTTGTTAT
3780380 ACAAAACTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
AATATCATTTGTTATT
Found at i:3781661 original size:16 final size:16
Alignment explanation
Indices: 3781640--3781671 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3781630 TATTTTTTTA
3781640 ATTTATTGTATTATTT
1 ATTTATTGTATTATTT
*
3781656 ATTTATTTTATTATTT
1 ATTTATTGTATTATTT
3781672 TTCACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTATTGTATTATTT
Found at i:3784020 original size:16 final size:16
Alignment explanation
Indices: 3783987--3784020 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3783977 CACAGATGTT
* *
3783987 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3784003 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3784019 AA
1 AA
3784021 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3786847 original size:21 final size:21
Alignment explanation
Indices: 3786821--3786861 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3786811 AGACGAGCAA
* *
3786821 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3786842 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3786862 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3788800 original size:16 final size:16
Alignment explanation
Indices: 3788767--3788800 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3788757 GGAGATTGTT
* *
3788767 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3788783 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3788799 AA
1 AA
3788801 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3792463 original size:33 final size:32
Alignment explanation
Indices: 3792391--3792503 Score: 84
Period size: 33 Copynumber: 3.4 Consensus size: 32
3792381 TATAGTCCAA
* ** *
3792391 CTATGGTCTTACA-CATGCATTGCCATGGCCCTG
1 CTATGGTCTTACATCA-G-AATGCCATAACCCAG
* ** *
3792424 CCATGGTCTTACATTTGTAGTGCCATAACCCAG
1 CTATGGTCTTACATCAG-AATGCCATAACCCAG
* * *
3792457 TTATGGTCTTATCATCAGAATGTCATAGCCCAG
1 CTATGGTCTTA-CATCAGAATGCCATAACCCAG
3792490 CTATGGTCTTACAT
1 CTATGGTCTTACAT
3792504 ATATATATAC
Statistics
Matches: 62, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
32 3 0.05
33 55 0.89
34 4 0.06
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (32 bp):
CTATGGTCTTACATCAGAATGCCATAACCCAG
Found at i:3792552 original size:102 final size:100
Alignment explanation
Indices: 3792443--3792634 Score: 289
Period size: 102 Copynumber: 1.9 Consensus size: 100
3792433 TACATTTGTA
* *
3792443 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATGGTCTTACATATAT
1 GTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACAT-T-T
3792508 ATATAC-TGT-CATGGTCCAACCATGGTCAACGTTCAAG
64 A-A-ACATGTCCATGGTCCAACCATGGTCAACGTTCAAG
* *
3792545 GTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
*
3792610 ACATTTCCATGGTCCAACCATGGTC
66 ACATGTCCATGGTCCAACCATGGTC
3792635 TTATCCGTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
98 2 0.02
99 3 0.04
100 20 0.24
101 1 0.01
102 57 0.69
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (100 bp):
GTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
ACATGTCCATGGTCCAACCATGGTCAACGTTCAAG
Found at i:3792610 original size:33 final size:33
Alignment explanation
Indices: 3792411--3792610 Score: 100
Period size: 33 Copynumber: 6.0 Consensus size: 33
3792401 ACACATGCAT
* * * ** *
3792411 TGCCATGGCCCTGCCATGGTCTTACATTTGTAG
1 TGCCATAGCCCAGCTATGGTCTTACATTTAAAA
* * * *
3792444 TGCCATAACCCAGTTATGGTCTTATCA-TCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATTTAAAA
* *
3792477 TGTCATAGCCCAGCTATGGTCTTACATATATATATAC
1 TGCCATAGCCCAGCTATGGTCTTACAT-T-TA-A-AA
* * * * * * * * **
3792514 TGTCATGGTCCAACCATGGTC-AACGTTCAAGG
1 TGCCATAGCCCAGCTATGGTCTTACATTTAAAA
* * *
3792546 TGCCATAACCCAGTTATGGTCTTTTCA-TTAAAA
1 TGCCATAGCCCAGCTATGGTC-TTACATTTAAAA
3792579 TGCCATAGCCCAGCTATGGTCTTACATTTAAA
1 TGCCATAGCCCAGCTATGGTCTTACATTTAAA
3792611 CATTTCCATG
Statistics
Matches: 118, Mismatches: 40, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
32 20 0.17
33 70 0.59
34 5 0.04
35 2 0.02
36 3 0.03
37 18 0.15
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACATTTAAAA
Found at i:3803397 original size:22 final size:23
Alignment explanation
Indices: 3803369--3803413 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3803359 ATGCAATCTT
*
3803369 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
*
3803391 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
3803414 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:3803423 original size:22 final size:23
Alignment explanation
Indices: 3803379--3803423 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3803369 AGATATGATA
* *
3803379 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
3803402 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
3803424 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:3803609 original size:19 final size:21
Alignment explanation
Indices: 3803585--3803623 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
3803575 ACTGTTTTCT
*
3803585 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
3803604 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
3803624 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:3803986 original size:51 final size:52
Alignment explanation
Indices: 3803876--3803987 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
3803866 TTCCACGTTT
**
3803876 TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATATTTTA
1 TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
* * * * *
3803927 TATGTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTATTTTA
1 TATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATATTTTA
3803978 TATATATATA
1 TATATATATA
3803988 AGTTTTATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.55
52 23 0.45
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (52 bp):
TATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATATTTTA
Found at i:3808671 original size:25 final size:25
Alignment explanation
Indices: 3808641--3808688 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3808631 AAGATTACTT
3808641 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
3808666 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
3808689 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:3810083 original size:29 final size:29
Alignment explanation
Indices: 3810051--3810129 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
3810041 TTAACAGCAC
*
3810051 TAACAGCAAAATCAAAATCAGAACACCAT
1 TAACAGCAAAATCAAAATCAAAACACCAT
3810080 TAACAGCAAAATCAAAATCAAAACACCAT
1 TAACAGCAAAATCAAAATCAAAACACCAT
3810109 TAACAGCAAAAATCAAAATCA
1 TAACAGC-AAAATCAAAATCA
3810130 CAACCAACAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 35 0.73
30 13 0.27
ACGTcount: A:0.58, C:0.23, G:0.05, T:0.14
Consensus pattern (29 bp):
TAACAGCAAAATCAAAATCAAAACACCAT
Found at i:3810144 original size:24 final size:23
Alignment explanation
Indices: 3810090--3810144 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
3810080 TAACAGCAAA
* **
3810090 ATCAAAATCAAAACACCATTAAC
1 ATCAAAATCAAAACACAACCAAC
*
3810113 AGCAAAAATCAAAATCACAACCAAC
1 ATC-AAAATCAAAA-CACAACCAAC
3810138 ATCAAAA
1 ATCAAAA
3810145 AGCAAAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.60, C:0.25, G:0.02, T:0.13
Consensus pattern (23 bp):
ATCAAAATCAAAACACAACCAAC
Found at i:3810144 original size:25 final size:24
Alignment explanation
Indices: 3810093--3810151 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
3810083 CAGCAAAATC
* **
3810093 AAAATCAAAACACCATTAACAGCA
1 AAAATCAAAACACAACCAACAGCA
*
3810117 AAAATCAAAATCACAACCAACATCA
1 AAAATCAAAA-CACAACCAACAGCA
*
3810142 AAAAGCAAAA
1 AAAATCAAAA
3810152 AAGGGAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.63, C:0.24, G:0.03, T:0.10
Consensus pattern (24 bp):
AAAATCAAAACACAACCAACAGCA
Found at i:3811648 original size:30 final size:30
Alignment explanation
Indices: 3811614--3811671 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
3811604 TATATTTGTT
*
3811614 GAGTAATTTTATCTCGTATCTTATTAATGA
1 GAGTAATTTAATCTCGTATCTTATTAATGA
3811644 GAGTAATTTAATCTCGTATCTTATTAAT
1 GAGTAATTTAATCTCGTATCTTATTAAT
3811672 AATGGGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (30 bp):
GAGTAATTTAATCTCGTATCTTATTAATGA
Found at i:3823162 original size:26 final size:26
Alignment explanation
Indices: 3823121--3823184 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
3823111 TAATTAAATT
*
3823121 TAAATCTTATTT-ATTATAATAAAAA
1 TAAATATTATTTAATTATAATAAAAA
* * *
3823146 TAAATATTATTTAATTATTATGAAGA
1 TAAATATTATTTAATTATAATAAAAA
*
3823172 TAAATAATATTTA
1 TAAATATTATTTA
3823185 TCTTAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 11 0.33
26 22 0.67
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
TAAATATTATTTAATTATAATAAAAA
Found at i:3823584 original size:31 final size:33
Alignment explanation
Indices: 3823519--3823589 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
3823509 ATTCTAAATT
* *
3823519 ATTAAAATAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
3823552 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
3823583 ATTAAAT
1 ATTAAAT
3823590 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 13 0.38
32 7 0.21
33 14 0.41
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:3826615 original size:13 final size:13
Alignment explanation
Indices: 3826597--3826650 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
3826587 TTCTTCATTA
3826597 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
3826610 CTTTTGAAAAATG
1 CTTTTGAAAAGTG
* *
3826623 CTATGGAAAAGTG
1 CTTTTGAAAAGTG
*
3826636 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
3826649 CT
1 CT
3826651 GTAACACCCC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:3827360 original size:51 final size:51
Alignment explanation
Indices: 3827292--3827398 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
3827282 ATCACATTTA
* *
3827292 TCACTTGTCACTGATCAGATTAGTGTAGCTAAAGCTACCACTCATCACTTG
1 TCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTCATCACTTG
* * *
3827343 TCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTATCACTTATTACTTG
1 TCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTCATCACTTG
3827394 TCACT
1 TCACT
3827399 AGACCTGTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTCATCACTTG
Found at i:3843328 original size:14 final size:14
Alignment explanation
Indices: 3843309--3843337 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3843299 TACAATATAT
3843309 ATAAGAATTATACG
1 ATAAGAATTATACG
3843323 ATAAGAATTATACG
1 ATAAGAATTATACG
3843337 A
1 A
3843338 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:3847551 original size:14 final size:14
Alignment explanation
Indices: 3847534--3847579 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
3847524 ACCGAACTCA
* *
3847534 AAACCCTAAATCTT
1 AAACACTAAATCCT
* *
3847548 AAACATTAAACCCT
1 AAACACTAAATCCT
3847562 AAACACTAAATCCT
1 AAACACTAAATCCT
3847576 AAAC
1 AAAC
3847580 TATGAACTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACACTAAATCCT
Found at i:3858547 original size:81 final size:81
Alignment explanation
Indices: 3858407--3858567 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 81
3858397 CTAAACTGAG
*
3858407 TGAATTAGAAAATAACATGATATAGTTAATGCATGATATGTGATATGAATATAGAATGAACCATG
1 TGAAGTAGAAAATAACATGATATAGTTAATGCATGATATGTGATATGAATATAGAATGAACCATG
3858472 CTATGTGATATTGGGA
66 CTATGTGATATTGGGA
** * *
3858488 TGAAGTAGAAAATAGTATGATGTAGTTGATGCATGATATGTGATATGAATATAGAATGAACCATG
1 TGAAGTAGAAAATAACATGATATAGTTAATGCATGATATGTGATATGAATATAGAATGAACCATG
3858553 CTATGTGATATTGGG
66 CTATGTGATATTGGG
3858568 GATATATGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.32
Consensus pattern (81 bp):
TGAAGTAGAAAATAACATGATATAGTTAATGCATGATATGTGATATGAATATAGAATGAACCATG
CTATGTGATATTGGGA
Found at i:3863014 original size:20 final size:21
Alignment explanation
Indices: 3862976--3863028 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
3862966 ACAGCGGTGA
*
3862976 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
3862997 CGGTGAGATT-GGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
3863017 CGGTGAGATTAG
1 CGGTGAGATTAG
3863029 AAACAATGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:3865261 original size:30 final size:30
Alignment explanation
Indices: 3865215--3865305 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
3865205 ATTTCTTATA
3865215 CCAATATTTCGATACCCATATCTTTGACTTT
1 CCAATATTT-GATACCCATATCTTTGACTTT
3865246 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
3865276 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
3865306 TCATAATATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 51 0.85
31 9 0.15
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:3865270 original size:15 final size:15
Alignment explanation
Indices: 3865212--3865301 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 15
3865202 CAAATTTCTT
* *
3865212 ATACCAATAT-TTCG
1 ATACCCATATCTTTG
3865226 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
3865241 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
3865256 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
3865271 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
3865286 ATACCCATATCTTTG
1 ATACCCATATCTTTG
3865301 A
1 A
3865302 CTTTTCATAA
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
14 17 0.30
15 32 0.56
16 8 0.14
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (15 bp):
ATACCCATATCTTTG
Found at i:3867202 original size:303 final size:302
Alignment explanation
Indices: 3866618--3867222 Score: 1120
Period size: 303 Copynumber: 2.0 Consensus size: 302
3866608 TAAAAACGCA
* * **
3866618 GTCTTCACATCGAGTTGAACTAGTTCAAGATCATATTCGCAACCAAGGCTAGCAAAATTTGAATA
1 GTCTTCACATCAAGCTGAACTAGTTCAAGATCATATTCGCAACCAAGGCTAGCAAAATCCGAATA
*
3866683 GACGAATGCTTCACAACTGGAGAAAACACTTTATTGTAGTCTATTCCTTCTTTCTGAGCGTAACC
66 GACGAATGCTTCACAACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACC
3866748 CTTTGCTACCAATCTAGCCTTGTATCGAACTTTATTTTTACCAGGAAATCCTTCATTATTTGCAT
131 CTTTGCTACCAATCTAGCCTTGTATCGAACTTTATTTTTACCAGGAAATCCTTCATTATTTGCAT
*
3866813 ATACCCATTTGCATCCAATTGCCTTCTTTCCTTTGGGCAGTGTCACCAACTCCCAAGTCCTATTT
196 ATACCCATTTGCATCCAATTGCCTTCTTTCCTTTGGGCAGTCTCACCAACTCCCAAGTCCTATTT
**
3866878 TTATGAAGAGTTTGCATTTCTTCATTCATAGATTGCTTCCAC
261 TTATGAAGAGACTGCATTTCTTCATTCATAGATTGCTTCCAC
3866920 GTCTTCACATCAAGCTGAACTAGTTCAAGATCATATTGCGCAACCAAGGCTAGCAAAATCCGAAT
1 GTCTTCACATCAAGCTGAACTAGTTCAAGATCATATT-CGCAACCAAGGCTAGCAAAATCCGAAT
3866985 AGACGAATGCTTCACAACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAAC
65 AGACGAATGCTTCACAACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAAC
3867050 CCTTTGCTACCAATCTAGCCTTGTATCGAACTTTATTTTTACCAGGAAATCCTTCATTATTTGCA
130 CCTTTGCTACCAATCTAGCCTTGTATCGAACTTTATTTTTACCAGGAAATCCTTCATTATTTGCA
3867115 TATACCCATTTGCATCCAATTGCCTTCTTTCCTTTGGGCAGTCTCACCAACTCCCAAGTCCTATT
195 TATACCCATTTGCATCCAATTGCCTTCTTTCCTTTGGGCAGTCTCACCAACTCCCAAGTCCTATT
*
3867180 TTTATGAAGAGACTGCATTTCTTCATTCATAGCTTGCTTCCAC
260 TTTATGAAGAGACTGCATTTCTTCATTCATAGATTGCTTCCAC
3867223 TTTACACCAT
Statistics
Matches: 293, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
302 35 0.12
303 258 0.88
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (302 bp):
GTCTTCACATCAAGCTGAACTAGTTCAAGATCATATTCGCAACCAAGGCTAGCAAAATCCGAATA
GACGAATGCTTCACAACTGGAGAAAACACTTCATTGTAGTCTATTCCTTCTTTCTGAGCGTAACC
CTTTGCTACCAATCTAGCCTTGTATCGAACTTTATTTTTACCAGGAAATCCTTCATTATTTGCAT
ATACCCATTTGCATCCAATTGCCTTCTTTCCTTTGGGCAGTCTCACCAACTCCCAAGTCCTATTT
TTATGAAGAGACTGCATTTCTTCATTCATAGATTGCTTCCAC
Found at i:3868199 original size:8 final size:8
Alignment explanation
Indices: 3868196--3868221 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3868186 TATATTGTTA
3868196 TATTATAT
1 TATTATAT
3868204 TATTATAT
1 TATTATAT
3868212 TATTATAT
1 TATTATAT
3868220 TA
1 TA
3868222 ATAAAACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:3869203 original size:25 final size:25
Alignment explanation
Indices: 3869169--3869328 Score: 190
Period size: 25 Copynumber: 6.6 Consensus size: 25
3869159 ACTTTAACGC
3869169 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
3869194 GCTCTTTGATTATTGGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
3869219 GCTCTCTGATTATTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
3869244 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
3869269 GCTCTCCG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
*
3869291 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
3869313 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
3869329 TGCATAACAA
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
22 36 0.31
23 2 0.02
24 1 0.01
25 79 0.67
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:3871840 original size:102 final size:102
Alignment explanation
Indices: 3871664--3871869 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 102
3871654 TCCCTCATGA
*
3871664 CAGAGTACTTCTGCTCTTTGACCAAACATAGGCGGATTGTTCCACATGCCTATCTATTGATCTTG
1 CAGAGTACTTCTGCTCTTTGACCAAACATAGGCGAATTGTTCCACATGCCTATCTATTGATCTTG
3871729 GCCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTT
66 GCCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTT
*
3871766 CAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGAATTGTTCCACATGCCTATCTATTGATCTTG
1 CAGAGTACTTCTGCTCTTTGACCAAACATAGGCGAATTGTTCCACATGCCTATCTATTGATCTTG
3871831 GCCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTT
66 GCCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTT
3871868 CA
1 CA
3871870 AGGGTTATAT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.37
Consensus pattern (102 bp):
CAGAGTACTTCTGCTCTTTGACCAAACATAGGCGAATTGTTCCACATGCCTATCTATTGATCTTG
GCCCACTCCTTGTCATCCATCTTGTCAGGTTTTTCTT
Found at i:3872604 original size:30 final size:31
Alignment explanation
Indices: 3872554--3872613 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
3872544 TTTCTTATGC
3872554 CAATATTTCGATACCCATATTTTTAACTTTT
1 CAATATTTCGATACCCATATTTTTAACTTTT
* *
3872585 CAATATTT-GATACCTATATTTTTTACTTT
1 CAATATTTCGATACCCATATTTTTAACTTT
3872614 CCATAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (31 bp):
CAATATTTCGATACCCATATTTTTAACTTTT
Found at i:3884292 original size:26 final size:26
Alignment explanation
Indices: 3884256--3884305 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
3884246 TTCCGTTAAG
* *
3884256 TTCCGTTATCTCCCAACGGTAATCTT
1 TTCCATTATCTCCCAACAGTAATCTT
3884282 TTCCATTATCTCCCAACAGTAATC
1 TTCCATTATCTCCCAACAGTAATC
3884306 CTACGTGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (26 bp):
TTCCATTATCTCCCAACAGTAATCTT
Found at i:3884677 original size:69 final size:69
Alignment explanation
Indices: 3884566--3884700 Score: 225
Period size: 69 Copynumber: 2.0 Consensus size: 69
3884556 GTACTCTTAA
* *
3884566 CTTACAGCCATGGAATTTGCTCTGGATAAGATTGATAAACACTGGGACAATAACAAAAGCCTTAA
1 CTTACAGCCATGGAATTAGCTCTGAATAAGATTGATAAACACTGGGACAATAACAAAAGCCTTAA
3884631 TTGG
66 TTGG
* * *
3884635 CTTACAGCCATGGGATTAGCTCTGAATAAGATTGATTAACACTGGGACAATAACAGAAGCCTTAA
1 CTTACAGCCATGGAATTAGCTCTGAATAAGATTGATAAACACTGGGACAATAACAAAAGCCTTAA
3884700 T
66 T
3884701 CAGCATATGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (69 bp):
CTTACAGCCATGGAATTAGCTCTGAATAAGATTGATAAACACTGGGACAATAACAAAAGCCTTAA
TTGG
Found at i:3885936 original size:19 final size:20
Alignment explanation
Indices: 3885912--3885949 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3885902 TGAAGTTATG
3885912 AAATTAAAA-AAAATATTCC
1 AAATTAAAATAAAATATTCC
*
3885931 AAATTAAAATAAAGTATTC
1 AAATTAAAATAAAATATTC
3885950 AATTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
AAATTAAAATAAAATATTCC
Found at i:3893512 original size:19 final size:20
Alignment explanation
Indices: 3893488--3893526 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3893478 AGTATAAACT
3893488 TATATAAAATTA-AAATTAA
1 TATATAAAATTACAAATTAA
*
3893507 TATATATAATTACAAATTAA
1 TATATAAAATTACAAATTAA
3893527 ACCTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATAAAATTACAAATTAA
Found at i:3894126 original size:17 final size:19
Alignment explanation
Indices: 3894094--3894128 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3894084 TTTTGCTCTG
3894094 TTTGTTGATTCAATGTGTT
1 TTTGTTGATTCAATGTGTT
3894113 TTTGTT-ATTC-ATGTGT
1 TTTGTTGATTCAATGTGT
3894129 CTTCTTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.14, C:0.06, G:0.20, T:0.60
Consensus pattern (19 bp):
TTTGTTGATTCAATGTGTT
Found at i:3906033 original size:14 final size:14
Alignment explanation
Indices: 3906008--3906040 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3905998 TCAAATCAGC
3906008 TTTAAAACT-AAAA
1 TTTAAAACTAAAAA
3906021 TTTAAATACTAAAAA
1 TTTAAA-ACTAAAAA
3906036 TTTAA
1 TTTAA
3906041 CACAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 3 0.17
15 9 0.50
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTAAAACTAAAAA
Found at i:3906173 original size:20 final size:22
Alignment explanation
Indices: 3906141--3906182 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
3906131 AATGTTATTT
3906141 TAACATGAAATTTG-ATTATAA
1 TAACATGAAATTTGAATTATAA
3906162 TAACAT-AAATTTGAATTATAA
1 TAACATGAAATTTGAATTATAA
3906183 AATTATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
TAACATGAAATTTGAATTATAA
Found at i:3907835 original size:21 final size:21
Alignment explanation
Indices: 3907799--3907872 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
3907789 ACAAGTGCTA
* *
3907799 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGGGTTG
* * *
3907820 AACGGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGGGTTG
*
3907841 AACAGAA-CCCATAAGGGTT-
1 AACAGAAGCTCATAAGGGTTG
*
3907860 AAGCTGAAGCTCA
1 AA-CAGAAGCTCA
3907873 AAAGAGCTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 25 0.62
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGGGTTG
Found at i:3907857 original size:41 final size:42
Alignment explanation
Indices: 3907795--3907903 Score: 152
Period size: 41 Copynumber: 2.6 Consensus size: 42
3907785 GCACACAAGT
*
3907795 GCTAAACAGAAACCCATAAGGGTTGAA-CGGAAGCTCATAAGA
1 GCTAAACAGAAACCCATAAGGGTT-AAGCGGAAGCTCAAAAGA
* *
3907837 GCTGAACAG-AACCCATAAGGGTTAAGCTGAAGCTCAAAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAGCGGAAGCTCAAAAGA
3907878 GCTAAACAGAAACCCA-ATAGGGTTAA
1 GCTAAACAGAAACCCATA-AGGGTTAA
3907904 ACTAAAACTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
40 2 0.03
41 36 0.60
42 22 0.37
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTAAGCGGAAGCTCAAAAGA
Found at i:3911601 original size:25 final size:24
Alignment explanation
Indices: 3911556--3911603 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
3911546 TTAATATTAT
*
3911556 ATATTATATATTTATAAGCCCAAC
1 ATATTATATATATATAAGCCCAAC
3911580 ATATTATATTATATATAAGCCCAA
1 ATATTATA-TATATATAAGCCCAA
3911604 TGCATGACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATTATATATATATAAGCCCAAC
Found at i:3915595 original size:23 final size:23
Alignment explanation
Indices: 3915567--3915612 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
3915557 CTTTCAATTT
*
3915567 CTTATTTTAGTAAGTGTTATCTC
1 CTTATTTTACTAAGTGTTATCTC
3915590 CTTATTTTACTAAGTGTTATCTC
1 CTTATTTTACTAAGTGTTATCTC
3915613 GATTGACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (23 bp):
CTTATTTTACTAAGTGTTATCTC
Found at i:3929901 original size:16 final size:16
Alignment explanation
Indices: 3929865--3929895 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3929855 AAATTAATAT
3929865 AAAATAACATAAATTC
1 AAAATAACATAAATTC
*
3929881 AAAATAACTTAAATT
1 AAAATAACATAAATT
3929896 TGAAATGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAACATAAATTC
Found at i:3930118 original size:17 final size:16
Alignment explanation
Indices: 3930081--3930130 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
3930071 AAAATAATAT
*
3930081 AAATTTAAAGTGATCA
1 AAATTTAAAATGATCA
*
3930097 AAATTTAAAATTATCTA
1 AAATTTAAAATGATC-A
*
3930114 AAA-TTATAATGAT-A
1 AAATTTAAAATGATCA
3930128 AAA
1 AAA
3930131 ACATTCAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTAAAATGATCA
Found at i:3937272 original size:13 final size:13
Alignment explanation
Indices: 3937256--3937281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3937246 AATCGGATAT
3937256 AGCAATCTCTTAA
1 AGCAATCTCTTAA
3937269 AGCAATCTCTTAA
1 AGCAATCTCTTAA
3937282 TCCTGTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
AGCAATCTCTTAA
Found at i:3941315 original size:23 final size:22
Alignment explanation
Indices: 3941274--3941329 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
3941264 GAAAGGTATC
* *
3941274 TACAAATCA-AATCTCTAAGAT
1 TACAAATCATATTTTCTAAGAT
3941295 TACGAAATCATATTTTCTAAGAT
1 TAC-AAATCATATTTTCTAAGAT
*
3941318 TACATATCATAT
1 TACAAATCATAT
3941330 CTGCGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 14 0.47
23 13 0.43
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATTTTCTAAGAT
Found at i:3941329 original size:22 final size:23
Alignment explanation
Indices: 3941287--3941329 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3941277 AAATCAAATC
3941287 TCTAAGATTACGAAATCATATTT
1 TCTAAGATTACGAAATCATATTT
*
3941310 TCTAAGATTAC-ATATCATAT
1 TCTAAGATTACGAAATCATAT
3941330 CTGCGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACGAAATCATATTT
Found at i:3946386 original size:22 final size:23
Alignment explanation
Indices: 3946359--3946403 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3946349 AGGTATCTAC
3946359 AAATCA-AATCTCTAAGATTACA
1 AAATCATAATCTCTAAGATTACA
* *
3946381 AAATCATATTTTCTAAGATTACA
1 AAATCATAATCTCTAAGATTACA
3946404 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCATAATCTCTAAGATTACA
Found at i:3946397 original size:23 final size:22
Alignment explanation
Indices: 3946356--3946411 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
3946346 GAAAGGTATC
* *
3946356 TACAAATCA-AATCTCTAAGAT
1 TACAAATCATATTTTCTAAGAT
3946377 TACAAAATCATATTTTCTAAGAT
1 TAC-AAATCATATTTTCTAAGAT
*
3946400 TACATATCATAT
1 TACAAATCATAT
3946412 CTGCGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 14 0.47
23 13 0.43
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (22 bp):
TACAAATCATATTTTCTAAGAT
Found at i:3946411 original size:22 final size:23
Alignment explanation
Indices: 3946369--3946411 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3946359 AAATCAAATC
3946369 TCTAAGATTACAAAATCATATTT
1 TCTAAGATTACAAAATCATATTT
*
3946392 TCTAAGATTAC-ATATCATAT
1 TCTAAGATTACAAAATCATAT
3946412 CTGCGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATTT
Found at i:3959862 original size:16 final size:15
Alignment explanation
Indices: 3959807--3959863 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
3959797 AAAAGATATT
* *
3959807 TTTTAAATCAATAGA
1 TTTTAATTCAATTGA
* *
3959822 TTTTAACTCAATTAA
1 TTTTAATTCAATTGA
*
3959837 TTTAATATTCAATTTGA
1 TTTTA-ATTCAA-TTGA
3959854 TTTTAATTCA
1 TTTTAATTCA
3959864 GTGTTTTAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 16 0.48
16 10 0.30
17 7 0.21
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (15 bp):
TTTTAATTCAATTGA
Found at i:3961751 original size:21 final size:20
Alignment explanation
Indices: 3961700--3961751 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
3961690 TTTTTATCAT
3961700 AATTTTATTATAATATTTTGA
1 AATTTT-TTATAATATTTTGA
*
3961721 AATGTATTTATATATATTTTTG-
1 AAT-TTTTTATA-ATA-TTTTGA
3961743 AATTTTTTA
1 AATTTTTTA
3961752 AAATTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
AATTTTTTATAATATTTTGA
Found at i:3962192 original size:17 final size:19
Alignment explanation
Indices: 3962154--3962200 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
3962144 TATTTTTTTA
3962154 AAAAATATTATAATAAATTT
1 AAAAATA-TATAATAAATTT
3962174 AAAAATATATAA-AAA-TT
1 AAAAATATATAATAAATTT
*
3962191 AAAAAAATAT
1 AAAAATATAT
3962201 TGTTGACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.42
18 3 0.12
19 5 0.19
20 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATATATAATAAATTT
Found at i:3962275 original size:17 final size:15
Alignment explanation
Indices: 3962247--3962286 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
3962237 GACATAAAAT
3962247 AAATAAATAATTTAA
1 AAATAAATAATTTAA
3962262 AAATATAATAAATTT-A
1 AAATA-AAT-AATTTAA
3962278 AAATAAATA
1 AAATAAATA
3962287 TTAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 9 0.39
17 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAATAATTTAA
Found at i:3962295 original size:17 final size:17
Alignment explanation
Indices: 3962241--3962295 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
3962231 TCACAAGACA
*
3962241 TAAAATAAATAAATAATT
1 TAAAATAAAT-AATAAAT
*
3962259 TAAAA-ATATAATAAATT
1 TAAAATAAATAATAAA-T
*
3962276 TAAAATAAATATTAAAT
1 TAAAATAAATAATAAAT
3962293 TAA
1 TAA
3962296 TAAAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATAAATAATAAAT
Found at i:3962783 original size:19 final size:19
Alignment explanation
Indices: 3962761--3962802 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3962751 TTATTTAATA
3962761 TTAATACAATTATATTTAT
1 TTAATACAATTATATTTAT
** *
3962780 TTAATATTATTATATTTTT
1 TTAATACAATTATATTTAT
3962799 TTAA
1 TTAA
3962803 AATATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATACAATTATATTTAT
Found at i:3962854 original size:21 final size:21
Alignment explanation
Indices: 3962769--3962854 Score: 88
Period size: 21 Copynumber: 4.1 Consensus size: 21
3962759 TATTAATACA
3962769 ATTATATTTATTT--AATA-TT
1 ATTATATTT-TTTAAAATATTT
3962788 ATTATATTTTTTTAAAATATTTT
1 ATTATA-TTTTTTAAAATA-TTT
* * * *
3962811 TTTTTATTTTTTAAATTAATT
1 ATTATATTTTTTAAAATATTT
3962832 ATTATATTTTTTAAAATATTT
1 ATTATATTTTTTAAAATATTT
3962853 AT
1 AT
3962855 GTATTTATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.17
20 3 0.06
21 25 0.46
22 11 0.20
23 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTATATTTTTTAAAATATTT
Found at i:3975480 original size:50 final size:49
Alignment explanation
Indices: 3975348--3975531 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 49
3975338 GAAGCTACCC
* * * * * *
3975348 GATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGACAATCCG
1 GATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACCAT-CT
* *
3975398 GA-ACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT
1 GATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCT
* * *
3975447 GATACACATAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTCAT-T
1 GATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCT
*
3975497 GAGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GA-TACACATAGTAGCCTGCACTTAGTACTACACA
3975532 TGTATCAACC
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
49 37 0.32
50 44 0.38
51 34 0.30
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (49 bp):
GATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCT
Done.