Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold224
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: 1473716
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 92095 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:3843 original size:28 final size:29
Alignment explanation
Indices: 3785--3847 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
3775 AAAAAAATTT
*
3785 AATATTTACAAAAATAACTTAAGTTTTAA
1 AATAATTACAAAAATAACTTAAGTTTTAA
*
3814 AATAATTACTAAAATAA-TTAAGTTTTAA
1 AATAATTACAAAAATAACTTAAGTTTTAA
3842 AATAAT
1 AATAAT
3848 CTGATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
AATAATTACAAAAATAACTTAAGTTTTAA
Found at i:3844 original size:16 final size:16
Alignment explanation
Indices: 3795--3847 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
3785 AATATTTACA
3795 AAAATAACTTAAGTTTT
1 AAAATAA-TTAAGTTTT
*
3812 AAAATAATT-A---CT
1 AAAATAATTAAGTTTT
3824 AAAATAATTAAGTTTT
1 AAAATAATTAAGTTTT
3840 AAAATAAT
1 AAAATAAT
3848 CTGATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
12 10 0.33
13 1 0.03
15 1 0.03
16 11 0.37
17 7 0.23
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (16 bp):
AAAATAATTAAGTTTT
Found at i:4100 original size:108 final size:108
Alignment explanation
Indices: 3978--4476 Score: 458
Period size: 112 Copynumber: 4.6 Consensus size: 108
3968 TGGTATACAG
* * *
3978 AAAAAAAAATTTGGTGGTGGTCTGTCAATGGCCGGCACTACTTTTACGGGAAAAAAAATTTTCGG
1 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCGG
*
4043 GTGCTGACCTGTCAATGGCCGACACCAGTATACGAAAAAAATT
66 GTGCTGCCCTGTCAATGGCCGACACCAGTATACGAAAAAAATT
*
4086 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCTGGCACCACCTTTACGGGGAAAAAAATATTTTT
1 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTAC-GGGAAAAAAA-A--TTT
* * * *
4151 TCGGATGTTGCCCTGTCAAAGGCCGGCACC-GATATACGAAAAAAATT
62 TCGGGTGCTGCCCTGTCAATGGCCGACACCAG-TATACGAAAAAAATT
* * *** * * * **
4198 AAAAAAAATTTATGGTGGTGTCCTGTCAATTATCGACACCA-GTATACGAAAAAAATAAAAAAAA
1 AAAAAAAAATT-TGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACG------GGAAAAAAAA
** * * *
4262 AATTCGGTTGCTGCCCTGTCAATGGTCGGCACCAGTATACGAAAAAAATT
59 TTTTCGGGTGCTGCCCTGTCAATGGCCGACACCAGTATACGAAAAAAATT
* ** * *
4312 --AAAAAAATTAGGTGGTGGCCTGGAAATGGTCGGCACCACCTTTAC-AGAAAAAAAA--TTCGG
1 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCGG
* * * ***
4372 GTGCTGGCCTGTCAATGGCC-AGCACCGGTATAAGAAAATTTTTTTT
66 GTGCTGCCCTGTCAATGGCCGA-CACCAGTATACGAAAA---AAATT
* *
4418 TAAAAAAAA-TTAGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATT
1 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATT
4477 ACGGCCAGCA
Statistics
Matches: 316, Mismatches: 52, Indels: 44
0.77 0.13 0.11
Matches are distributed among these distances:
103 36 0.11
105 9 0.03
106 2 0.01
107 32 0.10
108 59 0.19
109 10 0.03
110 1 0.00
111 24 0.08
112 69 0.22
113 23 0.07
114 42 0.13
115 1 0.00
116 1 0.00
117 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (108 bp):
AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATTTTCGG
GTGCTGCCCTGTCAATGGCCGACACCAGTATACGAAAAAAATT
Found at i:4112 original size:56 final size:56
Alignment explanation
Indices: 4050--4349 Score: 243
Period size: 57 Copynumber: 5.4 Consensus size: 56
4040 CGGGTGCTGA
* *
4050 CCTGTCAATGGCCGACACCAGTATACGAAAAAAATTAAAAAAAAATTTGGTGGTGG
1 CCTGTCAATGGCCGGCACCAGTATACGAAAAAAATTAAAAAAAAATTTGGTGGTGC
* * * *** * *** *
4106 CCTGTCAATGGCTGGCACCACCTTTACG-GGGAAA--AAAATATTTTTTCGGATGTTGC
1 CCTGTCAATGGCCGGCACCA-GTATACGAAAAAAATTAAAAAAAAATTT-GG-TGGTGC
* * *
4162 CCTGTCAAAGGCCGGCACC-GATATACGAAAAAAATTAAAAAAAATTTATGGTGGTGT
1 CCTGTCAATGGCCGGCACCAG-TATACGAAAAAAATTAAAAAAAAATT-TGGTGGTGC
*** * * * *
4219 CCTGTCAATTATCGACACCAGTATACGAAAAAAATAAAAAAAAAATTCGGTTGCTGC
1 CCTGTCAATGGCCGGCACCAGTATACGAAAAAAATTAAAAAAAAATTTGG-TGGTGC
* * *
4276 CCTGTCAATGGTCGGCACCAGTATACGAAAAAAATT--AAAAAAATTAGGTGGTGG
1 CCTGTCAATGGCCGGCACCAGTATACGAAAAAAATTAAAAAAAAATTTGGTGGTGC
** *
4330 CCTGGAAATGGTCGGCACCA
1 CCTGTCAATGGCCGGCACCA
4350 CCTTTACAGA
Statistics
Matches: 190, Mismatches: 44, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
54 30 0.16
55 18 0.09
56 47 0.25
57 83 0.44
58 11 0.06
59 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (56 bp):
CCTGTCAATGGCCGGCACCAGTATACGAAAAAAATTAAAAAAAAATTTGGTGGTGC
Found at i:4383 original size:103 final size:105
Alignment explanation
Indices: 3979--4476 Score: 310
Period size: 108 Copynumber: 4.6 Consensus size: 105
3969 GGTATACAGA
* * ** * * *
3979 AAAAAAAATTTGGTGGTGGTCTGTCAATGGCCGGCACTACTTTTACGGGAAAAAAAATTTTCGGG
1 AAAAAAAA-TTAGTGGTGGCCTGGAAATGGCCGGCACCACCTTTACGAGAAAAAAAA--TTCGGG
* *
4044 TGCTGACCTGTCAATGGCC-GACACCAGTATACGAAAA-AAATT
63 TGCTGCCCTGTCAATGGCCAG-CACCAGTATAAGAAAATAAATT
* ** * *
4086 AAAAAAAAATTTGGTGGTGGCCTGTCAATGGCTGGCACCACCTTTACGGGGAAAAAAATATTTTT
1 -AAAAAAAA-TTAGTGGTGGCCTGGAAATGGCCGGCACCACCTTTAC-GAGAAAAAAA-A----T
* * * * *
4151 TCGGATGTTGCCCTGTCAAAGGCCGGCACC-GATATACGAAAA-AAATT
58 TCGGGTGCTGCCCTGTCAATGGCCAGCACCAG-TATAAGAAAATAAATT
* ** *** * * * *
4198 AAAAAAAATTTATGGTGGTGTCCTGTCAATTATCGACACCA-GTATACGAAAAAAATAAAAAAAA
1 AAAAAAAA-TTA--GTGGTGGCCTGGAAATGGCCGGCACCACCTTTACG--------AGAAAAAA
* * * *
4262 AATTCGGTTGCTGCCCTGTCAATGGTCGGCACCAGTATACGAAAA-AAATT
55 AATTCGGGTGCTGCCCTGTCAATGGCCAGCACCAGTATAAGAAAATAAATT
*
4312 -AAAAAAATTAGGTGGTGGCCTGGAAATGGTCGGCACCACCTTTAC-AGAAAAAAAATTCGGGTG
1 AAAAAAAATTA-GTGGTGGCCTGGAAATGGCCGGCACCACCTTTACGAGAAAAAAAATTCGGGTG
* * ***
4375 CTGGCCTGTCAATGGCCAGCACCGGTATAAGAAAATTTTTTTTT
65 CTGCCCTGTCAATGGCCAGCACCAGTATAAGAAAA---TAAATT
** *
4419 AAAAAAAATTAGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAAAAAATT
1 AAAAAAAATTAGTGGTGGCCTGGAAATGGCCGGCACCACCTTTACGAGAAAAAAAATT
4477 ACGGCCAGCA
Statistics
Matches: 321, Mismatches: 45, Indels: 48
0.78 0.11 0.12
Matches are distributed among these distances:
103 46 0.14
107 33 0.10
108 63 0.20
109 10 0.03
110 1 0.00
111 35 0.11
112 53 0.17
113 29 0.09
114 42 0.13
115 1 0.00
118 1 0.00
119 7 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (105 bp):
AAAAAAAATTAGTGGTGGCCTGGAAATGGCCGGCACCACCTTTACGAGAAAAAAAATTCGGGTGC
TGCCCTGTCAATGGCCAGCACCAGTATAAGAAAATAAATT
Found at i:7588 original size:40 final size:40
Alignment explanation
Indices: 7539--7636 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 40
7529 CATTGAAAGT
*
7539 AAATGAAATTGAATGAAAAAAAAAGTGTG-TCAGGCCTTTG
1 AAATGAAATTGAATGAAAAAAAAAGTGTGCT-AGACCTTTG
*
7579 AAATAAAATTGAAATAAATGAAAAAAAAAGTGTGCTAGACCTTTG
1 AAATGAAATTG-----AATGAAAAAAAAAGTGTGCTAGACCTTTG
7624 AAATGAAATTGAA
1 AAATGAAATTGAA
7637 ATAAATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
40 12 0.24
45 36 0.73
46 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.24
Consensus pattern (40 bp):
AAATGAAATTGAATGAAAAAAAAAGTGTGCTAGACCTTTG
Found at i:7597 original size:55 final size:53
Alignment explanation
Indices: 7530--7860 Score: 299
Period size: 54 Copynumber: 6.2 Consensus size: 53
7520 AAAAATTTGC
*
7530 ATTGAAAGTAAATGAAATTGAATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATAAA
1 ATTGAAA-TAAATG--ATTGAATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATGAA
*
7586 ATTG----AAAT-A---AATGAAAAAAAAAGTGTG-CTAGACCTTTGAAATGAA
1 ATTGAAATAAATGATTGAATGAAAAAAAAAGTGTGTC-AGGCCTTTGAAATGAA
* *
7631 ATTGAAATAAATAAAATTGAATG-AAAAAAAAGTTTGTCAGGCCTTTGAAATGAA
1 ATTGAAATAAAT--GATTGAATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATGAA
* * *
7685 ACTGAAATAAATGAAATTGAATGAAAAAAACAAAAGGGTGTGAGGCCTTTGAAATGAA
1 ATTGAAATAAATG--ATTGAATG--AAAAA-AAAAGTGTGTCAGGCCTTTGAAATGAA
* ***
7743 TTTGAAATAAATGGGGGAATGACAAAAAAAAAGTGTGTCAGGCCTTTGAAAATG-A
1 ATTGAAATAAATGATTGAATG--AAAAAAAAAGTGTGTCAGGCCTTTG-AAATGAA
* *** *
7798 TTTGAAATAAATGGGGGAATGAAAAAAAAAGTGTGTCA-GCCATTTAAAATGAA
1 ATTGAAATAAATGATTGAATGAAAAAAAAAGTGTGTCAGGCC-TTTGAAATGAA
7851 ATTGAAATAA
1 ATTGAAATAA
7861 GGGTCTGTTT
Statistics
Matches: 235, Mismatches: 19, Indels: 45
0.79 0.06 0.15
Matches are distributed among these distances:
44 1 0.00
45 36 0.15
48 1 0.00
49 4 0.02
51 4 0.02
52 9 0.04
53 30 0.13
54 46 0.20
55 45 0.19
56 20 0.09
57 4 0.02
58 35 0.15
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (53 bp):
ATTGAAATAAATGATTGAATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATGAA
Found at i:7600 original size:45 final size:45
Alignment explanation
Indices: 7550--7700 Score: 169
Period size: 45 Copynumber: 3.2 Consensus size: 45
7540 AATGAAATTG
*
7550 AATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATAAAATTGAAATA
1 AATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATGAAATTGAAATA
*
7595 AATGAAAAAAAAAGTGTG-CTAGACCTTTGAAATGAAATTGAAATAAATAA
1 AATGAAAAAAAAAGTGTGTC-AGGCCTTTGAAATGAAATTG----AAAT-A
* *
7645 AATTGAATGAAAAAAAAGTTTGTCAGGCCTTTGAAATGAAACTGAAATA
1 AA-TG-A--AAAAAAAAGTGTGTCAGGCCTTTGAAATGAAATTGAAATA
7694 AATGAAA
1 AATGAAA
7701 TTGAATGAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 22
0.77 0.04 0.19
Matches are distributed among these distances:
44 1 0.01
45 38 0.42
47 1 0.01
48 2 0.02
49 7 0.08
50 7 0.08
51 2 0.02
52 1 0.01
54 30 0.33
55 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.25
Consensus pattern (45 bp):
AATGAAAAAAAAAGTGTGTCAGGCCTTTGAAATGAAATTGAAATA
Found at i:8189 original size:20 final size:20
Alignment explanation
Indices: 8161--8198 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8151 TATTATCTAA
*
8161 TAAATCATTTTCCAGAAAAG
1 TAAAACATTTTCCAGAAAAG
8181 TAAAACATTTTCCAGAAA
1 TAAAACATTTTCCAGAAA
8199 TCATTTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTCCAGAAAAG
Found at i:8205 original size:14 final size:14
Alignment explanation
Indices: 8182--8221 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8172 CCAGAAAAGT
*
8182 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
8196 AAATCATTTTACGG
1 AAAACATTTTACAG
8210 AAAACATTTTAC
1 AAAACATTTTAC
8222 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:11841 original size:3 final size:3
Alignment explanation
Indices: 11833--11861 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11823 ATTTCACAAT
11833 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11862 TTAATAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14006 original size:90 final size:92
Alignment explanation
Indices: 13899--14074 Score: 275
Period size: 90 Copynumber: 1.9 Consensus size: 92
13889 CCAACACCTG
* *
13899 AAAATTTTTTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACCAAA-TTTTT-TTATT
1 AAAAATTTTTTTCCCGTAAAGGTGGTGCCGACCATTGACAGGCCACCACCAAATTTTTTATTATT
13962 TTTTCGTATACTGGTGCCGGCCTGTAA
66 TTTTCGTATACTGGTGCCGGCCTGTAA
*
13989 AAAAATTTTTTTGCCGTAAAGGTGGTGCCGACCATTGACAGGCCACCACCAAATTTTTTAAAATT
1 AAAAATTTTTTTCCCGTAAAGGTGGTGCCGACCATTGACAGGCCACCACCAAATTTTTT---ATT
*
14054 TTTTTTTCGTATACTGGTGCC
63 ATTTTTTCGTATACTGGTGCC
14075 AGCCATTGAC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
90 50 0.65
91 5 0.06
95 22 0.29
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (92 bp):
AAAAATTTTTTTCCCGTAAAGGTGGTGCCGACCATTGACAGGCCACCACCAAATTTTTTATTATT
TTTTCGTATACTGGTGCCGGCCTGTAA
Found at i:14081 original size:57 final size:56
Alignment explanation
Indices: 14011--14149 Score: 185
Period size: 57 Copynumber: 2.4 Consensus size: 56
14001 GCCGTAAAGG
14011 TGGTGCCGACCATTGACAGGCCACCA-CC-AAATTTTT-TAAAATTTTTTTTTCGTATAC
1 TGGTGCCG-CCATTGACAGGCCACCACCCGAAATTTTTCT-AAA-TTTTTTTT-GTATAC
*
14068 TGGTGCCAGCCATTGACAGGCCAGCACCCGAAATTTTTCTAAATTTTTTTTGTATAC
1 TGGTGCC-GCCATTGACAGGCCACCACCCGAAATTTTTCTAAATTTTTTTTGTATAC
*
14125 CGGTGCCGGCCATTGACAGGCCACC
1 TGGTGCC-GCCATTGACAGGCCACC
14150 TATGATAGCC
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
57 51 0.69
58 11 0.15
59 11 0.15
60 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (56 bp):
TGGTGCCGCCATTGACAGGCCACCACCCGAAATTTTTCTAAATTTTTTTTGTATAC
Found at i:22158 original size:71 final size:71
Alignment explanation
Indices: 22023--22159 Score: 159
Period size: 71 Copynumber: 1.9 Consensus size: 71
22013 AATACCGATA
* * * * * *
22023 ATAGATGTGCCCTGCACTGGTCAGATAAACCGATAATATTTTACGCCCAGCATTGGCTAGATAAA
1 ATAGATGTGCCCTGCACTAGTCAGATAAACCAACAATATTTTACACCCAGCATAGGCGAGATAAA
22088 CTGACG
66 CTGACG
* * * * *
22094 ATAGATGTGCCTTGCACTAGTCGGATAAACCAACAATGTTTTGCACCCAGCACTAGTCGA-ATAA
1 ATAGATGTGCCCTGCACTAGTCAGATAAACCAACAATATTTTACACCCAGCA-TAGGCGAGATAA
22158 AC
65 AC
22160 CAAAAATATC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
71 50 0.93
72 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (71 bp):
ATAGATGTGCCCTGCACTAGTCAGATAAACCAACAATATTTTACACCCAGCATAGGCGAGATAAA
CTGACG
Found at i:23435 original size:17 final size:17
Alignment explanation
Indices: 23413--23447 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23403 TAACTTACTA
23413 ACCAAAATTTTTGTATC
1 ACCAAAATTTTTGTATC
23430 ACCAAAATTTTTGTATC
1 ACCAAAATTTTTGTATC
23447 A
1 A
23448 TAATCTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
ACCAAAATTTTTGTATC
Found at i:27818 original size:18 final size:18
Alignment explanation
Indices: 27775--27828 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
27765 TTCGCTGTCC
*
27775 TTTGTTCCTCACTTGTAT
1 TTTGTTCCTCACTTGCAT
* *
27793 CTTCTTCCTCAGC-TGCAT
1 TTTGTTCCTCA-CTTGCAT
*
27811 TTTGTTCCTCATTTGCAT
1 TTTGTTCCTCACTTGCAT
27829 CTTCATTATC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.11, C:0.28, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTGTTCCTCACTTGCAT
Found at i:30177 original size:67 final size:67
Alignment explanation
Indices: 30063--30197 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
30053 GGTATCCAAA
* **
30063 AAACTTGAACACGTGATTGTGTAATGATCATCAACTGGCCCTTGATTATACTCGAACCCGCGATC
1 AAACTTGAACACGTGATTGCGTAATGATCATCAACTGGCCCCCGATTATACTCGAACCCGCGATC
30128 GC
66 GC
* *
30130 AAACTTGAACACGTGATTGCGTAATGATCATCAACTGGCCCCCGATTATACTTGAACCCGTGATC
1 AAACTTGAACACGTGATTGCGTAATGATCATCAACTGGCCCCCGATTATACTCGAACCCGCGATC
30195 GC
66 GC
30197 A
1 A
30198 TCACACCGGC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (67 bp):
AAACTTGAACACGTGATTGCGTAATGATCATCAACTGGCCCCCGATTATACTCGAACCCGCGATC
GC
Found at i:31153 original size:19 final size:19
Alignment explanation
Indices: 31129--31167 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31119 CAATAATTAC
*
31129 TTAAAATAAATACCAACAA
1 TTAAAATAAATACAAACAA
*
31148 TTAAAATATATACAAACAA
1 TTAAAATAAATACAAACAA
31167 T
1 T
31168 ATTTACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAAAATAAATACAAACAA
Found at i:35344 original size:16 final size:16
Alignment explanation
Indices: 35323--35358 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
35313 TGTTTCGCTA
35323 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
*
35339 TAATGGATTAGAGGCG
1 TAATGGAATAGAGGCG
35355 TAAT
1 TAAT
35359 AGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:35402 original size:45 final size:44
Alignment explanation
Indices: 35338--35434 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
35328 GAATAGAGGC
*
35338 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
35383 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
35427 GGAATGGA
1 GTAATGGA
35435 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:38910 original size:7 final size:7
Alignment explanation
Indices: 38898--38934 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
38888 AGCCCTTTCT
38898 TCTCCCA
1 TCTCCCA
38905 TCTCCCA
1 TCTCCCA
38912 TCTCCCA
1 TCTCCCA
38919 TCTCCCA
1 TCTCCCA
38926 TCTCCCA
1 TCTCCCA
38933 TC
1 TC
38935 CCTTTCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.57, G:0.00, T:0.30
Consensus pattern (7 bp):
TCTCCCA
Found at i:54829 original size:13 final size:14
Alignment explanation
Indices: 54811--54844 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
54801 ATAGATATAC
54811 TTTCATT-AAACAT
1 TTTCATTCAAACAT
54824 TTTCATTTCAAACAT
1 TTTCA-TTCAAACAT
54839 TTTCAT
1 TTTCAT
54845 AGATTCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 3 0.16
15 11 0.58
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTCATTCAAACAT
Found at i:59170 original size:33 final size:32
Alignment explanation
Indices: 59123--59274 Score: 115
Period size: 33 Copynumber: 4.6 Consensus size: 32
59113 GTGTCATAAA
*
59123 CCAGTTATGGTCTTATCATCAGAATGCCATAGC
1 CCAGCTATGGTCTTA-CATCAGAATGCCATAGC
* * * * *
59156 CCAGCTATGGTCTTACATATAAACACTGTCATGGT
1 CCAGCTATGGTCTTACAT-CAGA-A-TGCCATAGC
* * * * * * *
59191 CCAACCATTGTCTTACGTTCATAGTGCCATAAC
1 CCAGCTATGGTCTTAC-ATCAGAATGCCATAGC
*
59224 CCAGTTATGGTCTTATCATCAGAATGCCATAGC
1 CCAGCTATGGTCTTA-CATCAGAATGCCATAGC
*
59257 CGAGCTATGGTCTTACAT
1 CCAGCTATGGTCTTACAT
59275 ATAAACACTA
Statistics
Matches: 87, Mismatches: 27, Indels: 11
0.70 0.22 0.09
Matches are distributed among these distances:
32 6 0.07
33 57 0.66
34 2 0.02
35 21 0.24
36 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (32 bp):
CCAGCTATGGTCTTACATCAGAATGCCATAGC
Found at i:59290 original size:101 final size:100
Alignment explanation
Indices: 59102--59340 Score: 361
Period size: 101 Copynumber: 2.4 Consensus size: 100
59092 AATTCATCCT
* * *
59102 TTACATTCGTAGTGTCATAAACCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCAT-AACCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
** * *
59167 CTTACATATAAACACTGTCATGGTCCAACCATTGTC
65 CTTACATATAAACACTACCATGGTACAACCATGGTC
*
59203 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCGAGCTATGGT
1 TTACGTTCATAGTGCCATAA-CCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
59268 CTTACATATAAACACTACCATGGTACAACCATGGTC
65 CTTACATATAAACACTACCATGGTACAACCATGGTC
* * *
59304 TTATGTTCATAGTTCCATAACCAGTTATGGTATTATC
1 TTACGTTCATAGTGCCATAACCAGTTATGGTCTTATC
59341 CGTCAATTCA
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
100 18 0.14
101 108 0.86
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (100 bp):
TTACGTTCATAGTGCCATAACCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTC
TTACATATAAACACTACCATGGTACAACCATGGTC
Found at i:62433 original size:44 final size:44
Alignment explanation
Indices: 62346--62453 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
62336 GATATACTCT
* * * *
62346 ACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTACTACTTCAATCCGCTCC
* * *
62390 ATTGCAACTTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTACTA-CTTCAATCCGCTCC
*
62434 ACTGTAACTT-AGGGAGATAA
1 ACTGCAACTTCAGGGAGATAA
62454 AATCAATAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 13 0.25
44 40 0.75
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTACTACTTCAATCCGCTCC
Found at i:62919 original size:44 final size:42
Alignment explanation
Indices: 62871--63400 Score: 263
Period size: 44 Copynumber: 12.5 Consensus size: 42
62861 TTCAACCTTC
62871 TCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCTACCTAT
1 TCCACTGCTGATCAGGGAGATAGGATT-ACAATCTTC-ACCTAT
* * *
62915 TCCACTGCTAATAAGGGAAATAGG------A--TTCACCTAT
1 TCCACTGCTGATCAGGGAGATAGGATTACAATCTTCACCTAT
62949 TCCACTGCTGA-CTAGGGAGATAGGACTTACAATCTTCAACCTAT
1 TCCACTGCTGATC-AGGGAGATAGGA-TTACAATCTTC-ACCTAT
* * * **** * * *
62993 TCCACTGTTGACCAGGGAGATAAGG-CTAGTGGCTTAAATCTGCT
1 TCCACTGCTGATCAGGGAGAT-AGGATTACAATCTT-CACCT-AT
* * ** * * ** * **
63037 TCC-CTACT-ACCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGC
1 TCCACTGCTGA--TCAGGGAGATAGGATT-ACAATCTTC-ACCTAT
* * * * ** * **
63081 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGC
1 TCCACTGCTGATCAGGGAGATAGGAT-TACAATCTTC-ACCTAT
*
63125 TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTAT
1 TCCACTGCTGATCAGGGAGATAGGATT-ACAATCTTC-ACCTAT
*
63169 TCCACTGCTGCTCAGGGAGATAGGATTTACAATCTTCAACCTAT
1 TCCACTGCTGATCAGGGAGATAGGA-TTACAATCTTC-ACCTAT
*
63213 TCCACTGCTGACCAGGGAGATAGG------A--TTCACCTAT
1 TCCACTGCTGATCAGGGAGATAGGATTACAATCTTCACCTAT
* * *
63247 TCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACCTAT
1 TCCACTGCTGATCAGGGAGATAGGA-TTACAATCTTC-ACCTAT
* * * *
63291 TCCACTACTAACCAGGGAGGTAGGACTTACAATCTTCAACCTAT
1 TCCACTGCTGATCAGGGAGATAGGA-TTACAATCTTC-ACCTAT
* * * * *
63335 TCCACTACTAACCAAGGAGGTAGGACTTACAATCTTCAACCTAT
1 TCCACTGCTGATCAGGGAGATAGGA-TTACAATCTTC-ACCTAT
*
63379 TCCACTGCTGACCAGGGAGATA
1 TCCACTGCTGATCAGGGAGATA
63401 AAGCTTTGTG
Statistics
Matches: 390, Mismatches: 61, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
34 54 0.14
35 6 0.02
37 2 0.01
41 2 0.01
42 1 0.00
43 20 0.05
44 285 0.73
45 20 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
TCCACTGCTGATCAGGGAGATAGGATTACAATCTTCACCTAT
Found at i:63069 original size:254 final size:254
Alignment explanation
Indices: 62689--63195 Score: 831
Period size: 254 Copynumber: 2.0 Consensus size: 254
62679 NTAATTTTCA
62689 ACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGTTGCTCAG
1 ACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGTTGCTCAG
* * *
62754 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAATATTCGCCGTCTT
66 GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGAAAGATAAGATTCGCCGTCTT
* *
62819 TGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGATC
131 CGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAACCTGCTCCACTGCTGATC
*
62884 AGGGAGATAGGATTCACAATCTTCTACCTATTCCACTGCTAATAAGGGAAATAGGATTC
196 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAATAAGGGAAATAGGATTC
* * *
62943 ACCTATTCCACTGCTGACT-AGGGAGAT-AGGACTTACAATCTTCAACCTATTCCACTGTTGAC-
1 ACCTACTCCACTGCTG-CTCAGGGAGATAAGG-CCTACAATCTTCAACCTACTCCACTGTTG-CT
63005 CAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGAAAGATAAGATTCGCCGT
63 CAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGAAAGATAAGATTCGCCGT
*
63070 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGCTCCACTGCTG
128 CTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAACCTGCTCCACTGCTG
* ** * *
63135 CTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATT
193 ATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAATAAGGGAAATAGGATT
63196 TACAATCTTC
Statistics
Matches: 235, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
253 3 0.01
254 229 0.97
255 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (254 bp):
ACCTACTCCACTGCTGCTCAGGGAGATAAGGCCTACAATCTTCAACCTACTCCACTGTTGCTCAG
GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGAAAGATAAGATTCGCCGTCTT
CGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAACCTGCTCCACTGCTGATC
AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAATAAGGGAAATAGGATTC
Found at i:63247 original size:254 final size:247
Alignment explanation
Indices: 62728--63270 Score: 752
Period size: 254 Copynumber: 2.1 Consensus size: 247
62718 GGCCTACAAT
*
62728 CTTCAACCTACTCCACTGTTG-CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
1 CTTCAACCTATTCCACTGTTGAC-CAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
* * * *
62792 CCTTGGGAAGATAATATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGT
65 CCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGT
* *
62857 AATTTTCAACCTTCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCTACCTATTCCACTG
130 AATTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
*
62922 CTAATAAGGGAAATAGGATTCACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAA
195 CTAATAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGG------AA
62981 TCTTCAACCTATTCCACTGTTGACCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
1 -CTTCAACCTATTCCACTGTTGACCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
*
63046 CCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
65 CCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGT
*
63111 AATTTTCAACCTGCTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
130 AATTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
** * *
63176 CTGCTCAGGGAGATAGGATTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG-A
195 CTAATAAGGGAAATAGG-------A--TTC-ACCTATTCCACTGCTGACCAGGGAGATAGGAA
* *
63238 -TTC-ACCTATTCCACTGCTGACCAGGAAGATAAG
1 CTTCAACCTATTCCACTGTTGACCAGGGAGATAAG
63271 ACTTACAATC
Statistics
Matches: 262, Mismatches: 16, Indels: 22
0.87 0.05 0.07
Matches are distributed among these distances:
254 224 0.85
255 4 0.02
257 1 0.00
261 1 0.00
263 3 0.01
264 29 0.11
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (247 bp):
CTTCAACCTATTCCACTGTTGACCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC
CTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
ATTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGC
TAATAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGAA
Found at i:63292 original size:78 final size:80
Alignment explanation
Indices: 63158--63400 Score: 287
Period size: 78 Copynumber: 3.0 Consensus size: 80
63148 GATTCACAAT
*
63158 CTTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGATTTACAATCTTCAACCTATTCCACTGCT
1 CTTCAACCTATTCCACTGCTGAC-CA-GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
63222 GACCAGGGAGATAGG-A
64 GACCAGGGAGATAGGAA
* * *
63238 -TTC-ACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACCTATTCCACTACTA
1 CTTCAACCTATTCCACTGCTGACCAGG-AGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
*
63301 ACCAGGGAGGTAGGACTTACAA
65 ACCAGGGAGATAGG------AA
* * *
63323 TCTTCAACCTATTCCACTACTAACCAAGGAGGTAGGACTTACAATCTTCAACCTATTCCACTGCT
1 -CTTCAACCTATTCCACTGCTGACC-AGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
63388 GACCAGGGAGATA
64 GACCAGGGAGATA
63401 AAGCTTTGTG
Statistics
Matches: 138, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
77 2 0.01
78 64 0.46
79 4 0.03
85 1 0.01
87 3 0.02
88 61 0.44
89 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (80 bp):
CTTCAACCTATTCCACTGCTGACCAGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGAA
Found at i:63341 original size:254 final size:246
Alignment explanation
Indices: 62728--63343 Score: 526
Period size: 254 Copynumber: 2.4 Consensus size: 246
62718 GGCCTACAAT
* * * * *** * *
62728 CTTCAACCTACTCCACTGTTG-CTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
1 CTTCAACCTATTCCACTGCTGAC-CAGGAAGATAAGACTACAAGCTTAAACCTGATTCCCTACTA
* * * * ** ** * *
62792 CCTTGGGAAGATAATATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGT
65 CC-TAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGAGAGATAAGATCTGT
* *
62857 AATTTTCAACCTTCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCTACCTATTCCACTG
129 AATTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
*
62922 CTAATAAGGGAAATAGGATTCACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAA
194 CTAATAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGG------AA
* * * *** * *
62981 TCTTCAACCTATTCCACTGTTGACCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTA
1 -CTTCAACCTATTCCACTGCTGACCAGGAAGATAAGACTACAAGCTTAAACCTGATTCCCTACTA
* ** * * * *
63046 CCTTAGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
65 CC-TAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGAGAGATAAGATCTGT
*
63111 AATTTTCAACCTGCTCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
129 AATTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
** * *
63176 CTGCTCAGGGAGATAGGATTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG-A
194 CTAATAAGGGAAATAGG-------A--TTC-ACCTATTCCACTGCTGACCAGGGAGATAGGAA
* *
63238 -TTC-ACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACCT-ATTCCACTACT
1 CTTCAACCTATTCCACTGCTGACCAGGAAGATAAGAC-TACAAGCTTAAACCTGATTCC-CTACT
** * * *
63300 AACC-AGGGAGGTAGGACTT-ACAATCTTCAACCTATTCCACTACT
64 -ACCTAGAAAGATAAGA-TTCACAATCTTCAACCTACTCCACTACT
63344 AACCAAGGAG
Statistics
Matches: 312, Mismatches: 35, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
254 255 0.82
255 20 0.06
256 3 0.01
257 1 0.00
261 1 0.00
263 3 0.01
264 29 0.09
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (246 bp):
CTTCAACCTATTCCACTGCTGACCAGGAAGATAAGACTACAAGCTTAAACCTGATTCCCTACTAC
CTAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGAGAGATAAGATCTGTAA
TTTTCAACCTGCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCT
AATAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGGAGATAGGAA
Found at i:63359 original size:122 final size:122
Alignment explanation
Indices: 63125--63359 Score: 332
Period size: 122 Copynumber: 1.9 Consensus size: 122
63115 TTCAACCTGC
* * * *
63125 TCCACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGCTCAGGGAGAT
1 TCCACTGCTGCTCAGGAAGATAAGATTCACAATCTTCAACCTATTCCACTACTACTCAGGGAGAT
* * * *
63190 AGGATTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTAT
66 AGGACTTACAATCTTCAACCTATTCCACTACTAACCAAGGAGATAGGATTCACCTAT
63247 TCCACTGCTGAC-CAGGAAGATAAGACTT-ACAATCTTCAACCTATTCCACTACTAAC-CAGGGA
1 TCCACTGCTG-CTCAGGAAGATAAGA-TTCACAATCTTCAACCTATTCCACTACT-ACTCAGGGA
* *
63309 GGTAGGACTTACAATCTTCAACCTATTCCACTACTAACCAAGGAGGTAGGA
63 GATAGGACTTACAATCTTCAACCTATTCCACTACTAACCAAGGAGATAGGA
63360 CTTACAATCT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
122 96 0.96
123 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (122 bp):
TCCACTGCTGCTCAGGAAGATAAGATTCACAATCTTCAACCTATTCCACTACTACTCAGGGAGAT
AGGACTTACAATCTTCAACCTATTCCACTACTAACCAAGGAGATAGGATTCACCTAT
Found at i:63398 original size:298 final size:298
Alignment explanation
Indices: 62861--63401 Score: 664
Period size: 298 Copynumber: 1.8 Consensus size: 298
62851 ATCTGTAATT
*
62861 TTCAACCTTCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCTACCTATTCCACTGCTAA
1 TTCAACCTTCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAA
* * * *
62926 TAAGGGAAATAGGATTCACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAATCTTCAACCT
66 CAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACCT
** * *** * * *
62991 ATTCCACTGTTGACCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGAAAG
131 ATTCCACTACTAACCAGGGAGATAAGGCTACAAGCTTAAACCTGATTCCCTACTACCTAAGAAAG
* ** * * * *
63056 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
196 ATAAGATTCACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
63121 CTGCTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
261 CTGCTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
* * *
63159 TTCAACCTAT-TCCACTGCTGCTCAGGGAGATAGGATTTACAATCTTCAACCTATTCCACTGCTG
1 TTCAACCT-TCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTA
* *
63223 ACCAGGGAGATAGGATTCACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACC
65 ACAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACC
* * *
63288 TATTCCACTACTAACCAGGGAGGT-AGGACTTACAATCTTCAACCT-ATTCCACTACTAACC-AA
130 TATTCCACTACTAACCAGGGAGATAAGG-C-TACAAGCTTAAACCTGATTCC-CTACT-ACCTAA
* * * * *
63350 G-GAGGTAGGACTT-ACAATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAA
191 GAAAGATAAGA-TTCACAATCTTCAACCTACTCCACTACTG-CTCAGGGAGATAA
63402 AGCTTTGTGA
Statistics
Matches: 202, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
297 3 0.01
298 176 0.87
299 20 0.10
300 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (298 bp):
TTCAACCTTCTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAA
CAAGGGAAATAGGATTCACCTATTCCACTGCTGACCAGGAAGATAAGACTTACAATCTTCAACCT
ATTCCACTACTAACCAGGGAGATAAGGCTACAAGCTTAAACCTGATTCCCTACTACCTAAGAAAG
ATAAGATTCACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
CTGCTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
Found at i:64734 original size:21 final size:21
Alignment explanation
Indices: 64684--64763 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
64674 CTTTTTGTCA
* *
64684 TTTTTATTTTTTAA-TTTTGA
1 TTTTTTTTTTTTAATTTTTGG
*
64704 TTTTAATTTTTTTAATTTTTGG
1 TTTT-TTTTTTTTAATTTTTGG
*
64726 TTTTTTTTTTATGT-TTTTTTGG
1 TTTTTTTTTT-T-TAATTTTTGG
* *
64748 GTTTTTTTTTTGAATT
1 TTTTTTTTTTTTAATT
64764 GGATCTTGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 4 0.09
21 16 0.34
22 26 0.55
23 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTTTTAATTTTTGG
Found at i:70492 original size:22 final size:21
Alignment explanation
Indices: 70457--70531 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 21
70447 AAATGATATC
* *
70457 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
70478 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
70501 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
70520 TGCATATCATAT
1 TACAAATCATAT
70532 TTAATATTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 19 0.40
21 3 0.06
22 15 0.32
23 10 0.21
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:70500 original size:23 final size:22
Alignment explanation
Indices: 70457--70514 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
70447 AAATGATATC
* *
70457 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
70478 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
70501 TGCATATCATATCT
1 TACAAATCATATCT
70515 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:70517 original size:19 final size:19
Alignment explanation
Indices: 70493--70545 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
70483 AATCATATCT
70493 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
70512 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
70531 TTTAATATTGCATAT
1 TCTAAGATTGCATAT
70546 TCTTAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:76858 original size:75 final size:75
Alignment explanation
Indices: 76735--76945 Score: 309
Period size: 75 Copynumber: 2.8 Consensus size: 75
76725 TATCTGTTAT
*
76735 CGGT-GGATTCAGCACTTAGCAACCACCAGTG-ATTCGGGGAATCAGCACTTAGCAACCCCTTTC
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATT-GGGGAATCAGCACTTAGCAACCCCTTTC
*
76798 ACATTTAAGATA
64 ACATTTAAAATA
* *
76810 CGGTGGGATCAGCATTTAGCAACCACCAATGAATTGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATTGGGGAATCAGCACTTAGCAACCCCTTTCAC
76875 ATTTAAAATA
66 ATTTAAAATA
* * * * *
76885 CGGTGGAATCAGCACTTAACAACCACCAATAAATCGGGGAATCATCACTTAGCAACCCCTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATTGGGGAATCAGCACTTAGCAACCCCTT
76946 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
75 117 0.95
76 6 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAATTGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAAATA
Found at i:76862 original size:33 final size:33
Alignment explanation
Indices: 76817--76968 Score: 118
Period size: 33 Copynumber: 4.5 Consensus size: 33
76807 ATACGGTGGG
* * *
76817 ATCAGCATTTAGCAACCACCAATGAATTGGGGA
1 ATCAGCACTTAGCAACCACCAATAAATCGGGGA
*
76850 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T-AAAT-CGG-GGA
*
76892 ATCAGCACTTAACAACCACCAATAAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATAAATCGGGGA
* *
76925 ATCATCACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATAAATCGGGGA
76952 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
76969 CCCTTTATAT
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
27 22 0.22
30 1 0.01
32 2 0.02
33 32 0.32
34 6 0.06
35 4 0.04
36 3 0.03
37 1 0.01
38 1 0.01
39 3 0.03
40 3 0.03
41 5 0.05
42 17 0.17
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATAAATCGGGGA
Found at i:83577 original size:33 final size:32
Alignment explanation
Indices: 83535--83689 Score: 122
Period size: 33 Copynumber: 4.6 Consensus size: 32
83525 ATACGGTGGG
*
83535 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACC-CCAATAAATCGGGGA
*
83568 ATCAGCACTTAGCAACCCC--T---TGGGGGA
1 ATCAGCACTTAGCAACCCCAATAAATCGGGGA
*
83595 ACCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA--CCC--CA-A--T-AAAT-CGG-GGA
*
83637 ATCAGCACTTAGCAACCGCCAATAAATCGGGAA
1 ATCAGCACTTAGCAACC-CCAATAAATCGGGGA
*
83670 ATCAACACTTAGCAACCCCA
1 ATCAGCACTTAGCAACCCCA
83690 TTTATATTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 33
0.72 0.04 0.24
Matches are distributed among these distances:
27 20 0.20
29 3 0.03
30 1 0.01
31 1 0.01
32 5 0.05
33 35 0.35
34 3 0.03
35 4 0.04
36 2 0.02
38 1 0.01
39 2 0.02
40 3 0.03
41 3 0.03
42 17 0.17
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (32 bp):
ATCAGCACTTAGCAACCCCAATAAATCGGGGA
Found at i:83613 original size:102 final size:102
Alignment explanation
Indices: 83489--83688 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 102
83479 CAGTGATTCA
* * * *
83489 GGGAATCAGCACTTAGAAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCAC
1 GGGAACCAGCACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
* * *
83554 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGG
66 CAATAAATCGGGAAATCAACACTTAGCAACCCCTTGG
* *
83591 GGGAACCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCGC
1 GGGAACCAGCACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
83656 CAATAAATCGGGAAATCAACACTTAGCAACCCC
66 CAATAAATCGGGAAATCAACACTTAGCAACCCC
83689 ATTTATATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (102 bp):
GGGAACCAGCACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCAC
CAATAAATCGGGAAATCAACACTTAGCAACCCCTTGG
Found at i:88659 original size:75 final size:75
Alignment explanation
Indices: 88536--88744 Score: 321
Period size: 75 Copynumber: 2.8 Consensus size: 75
88526 TATCCGTTAT
* * * *
88536 CGGT-GAATTCAGCACTTAGCAACCACCAGTGATTCAGGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGAA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCA
*
88600 CATTTAAGATA
65 CATTTAAAATA
*
88611 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
88676 ATTTAAAATA
66 ATTTAAAATA
* * *
88686 CGGTGGAATCAGCACTTAGCAACCGCCAATAAATCGGGAAATCAGCACTTAGCAACCCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
88745 ATTTATATTC
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
75 121 0.98
76 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTTAAAATA
Found at i:88660 original size:33 final size:33
Alignment explanation
Indices: 88618--88742 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 33
88608 ATACGGTGGG
*
88618 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATAAATCGGGGA
*
88651 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T-AAAT-CGG-GGA
* *
88693 ATCAGCACTTAGCAACCGCCAATAAATCGGGAA
1 ATCAGCACTTAGCAACCACCAATAAATCGGGGA
88726 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
88743 CCATTTATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
33 34 0.43
34 6 0.08
35 4 0.05
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 3 0.04
41 6 0.08
42 18 0.23
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATAAATCGGGGA
Found at i:95582 original size:11 final size:11
Alignment explanation
Indices: 95566--95608 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
95556 GTTTCTTAAT
95566 TAAATTAATTA
1 TAAATTAATTA
95577 TAAATT--TTA
1 TAAATTAATTA
95586 -AAA--AATTA
1 TAAATTAATTA
95594 TAAATTAATTA
1 TAAATTAATTA
95605 TAAA
1 TAAA
95609 GTCTAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
8 6 0.22
9 6 0.22
11 15 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAATTAATTA
Found at i:100534 original size:11 final size:12
Alignment explanation
Indices: 100506--100557 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
100496 GCCCAAATGT
100506 CGAAATTTTCGGA
1 CGAAATTTTC-GA
100519 CGAAATTTTC-A
1 CGAAATTTTCGA
*
100530 CGAAATTTTTCCA
1 CGAAA-TTTTCGA
* *
100543 TGAAATTTTAGA
1 CGAAATTTTCGA
100555 CGA
1 CGA
100558 TAAAAATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 6 0.18
12 12 0.36
13 15 0.45
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (12 bp):
CGAAATTTTCGA
Found at i:109355 original size:35 final size:35
Alignment explanation
Indices: 109315--109383 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
109305 ACCCAAATTT
*
109315 TAAGAGATTGTTTGCAAG-TCAAGTTAAACAAAATC
1 TAAGAGATTGCTTGCAAGCT-AAGTTAAACAAAATC
109350 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
1 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
109384 ATATTTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (35 bp):
TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAATC
Found at i:109430 original size:24 final size:24
Alignment explanation
Indices: 109403--109449 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
109393 TTCTAGAAGA
*
109403 TTTAGTATAATATATTTAACATTT
1 TTTAGCATAATATATTTAACATTT
*
109427 TTTAGCATAATATATTTTACATT
1 TTTAGCATAATATATTTAACATT
109450 GATTAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTAGCATAATATATTTAACATTT
Found at i:109455 original size:24 final size:24
Alignment explanation
Indices: 109404--109455 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
109394 TCTAGAAGAT
* **
109404 TTAGTATAATATATTTAACATTTT
1 TTAGCATAATATATTTAACATTGA
*
109428 TTAGCATAATATATTTTACATTGA
1 TTAGCATAATATATTTAACATTGA
109452 TTAG
1 TTAG
109456 AATTAGGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
TTAGCATAATATATTTAACATTGA
Found at i:114746 original size:35 final size:35
Alignment explanation
Indices: 114706--114774 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
114696 ACCCAAATTT
*
114706 TAAGAGATTGTTTGCAAG-TCAAGTTAAACAAAATC
1 TAAGAGATTGCTTGCAAGCT-AAGTTAAACAAAATC
114741 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
1 TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAAT
114775 ATATTTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (35 bp):
TAAGAGATTGCTTGCAAGCTAAGTTAAACAAAATC
Found at i:114821 original size:24 final size:24
Alignment explanation
Indices: 114794--114840 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
114784 TTCTAGAAGA
*
114794 TTTAGTATAATATATTTAACATTT
1 TTTAGCATAATATATTTAACATTT
*
114818 TTTAGCATAATATATTTTACATT
1 TTTAGCATAATATATTTAACATT
114841 GATTAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTAGCATAATATATTTAACATTT
Found at i:114846 original size:24 final size:24
Alignment explanation
Indices: 114795--114846 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
114785 TCTAGAAGAT
* **
114795 TTAGTATAATATATTTAACATTTT
1 TTAGCATAATATATTTAACATTGA
*
114819 TTAGCATAATATATTTTACATTGA
1 TTAGCATAATATATTTAACATTGA
114843 TTAG
1 TTAG
114847 AATTAGGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
TTAGCATAATATATTTAACATTGA
Found at i:121121 original size:25 final size:25
Alignment explanation
Indices: 121085--121223 Score: 147
Period size: 25 Copynumber: 5.6 Consensus size: 25
121075 CAGACACACC
*
121085 ACAGCTCTCATGAGCTTCCCATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
** * *
121110 TTAGCTGGCATGAGCTTCCTATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
* *
121135 ACAACTCGCATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
*
121160 ACAGCTCGCATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
* *
121185 TCAGCTCAGCA-GAGCTTCCCGTT-T
1 ACAGCTC-GCATGAGCTTCCCATTAT
* *
121209 ACAACTCGTATGAGC
1 ACAGCTCGCATGAGC
121224 ATATATGAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
23 2 0.02
24 10 0.10
25 81 0.84
26 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCCATTAT
Found at i:123431 original size:21 final size:21
Alignment explanation
Indices: 123386--123459 Score: 120
Period size: 19 Copynumber: 3.7 Consensus size: 21
123376 ATTTTTGAGG
123386 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
123405 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
123426 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
123447 ATAT--AATCTTAGA
1 ATATGCAATCTTAGA
123460 AGATATGATT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 28 0.53
21 25 0.47
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:123492 original size:22 final size:23
Alignment explanation
Indices: 123450--123492 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
123440 ATATGATATA
*
123450 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
123473 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
123493 GCAAATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:124155 original size:29 final size:26
Alignment explanation
Indices: 124103--124156 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
124093 TAGTATAATA
*
124103 TAATTATTTTTTTATTTATTTATATG
1 TAATTATTTTTTTATTTATGTATATG
124129 TAATTATTATTTTTATCTATATGTATAT
1 TAATTATT-TTTTTAT-T-TATGTATAT
124157 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 7 0.29
28 1 0.04
29 8 0.33
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
TAATTATTTTTTTATTTATGTATATG
Found at i:124159 original size:23 final size:24
Alignment explanation
Indices: 124103--124165 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
124093 TAGTATAATA
* *
124103 TAATTATTTTTTTATTTATTTATATG
1 TAATTA-TTTATT-TTTATCTATATG
124129 TAATTA-TTATTTTTATCTATATG
1 TAATTATTTATTTTTATCTATATG
124152 T-ATATATTTATTTT
1 TAAT-TATTTATTTT
124166 AGTATACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 14 0.42
24 11 0.33
26 6 0.18
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (24 bp):
TAATTATTTATTTTTATCTATATG
Found at i:128130 original size:17 final size:17
Alignment explanation
Indices: 128095--128146 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
128085 GTTGAGTCGA
*
128095 AAAAAAATGATGAAA-TG
1 AAAAAAATGA-AAAAGTG
128112 AAAAAAATGAAAAAGTG
1 AAAAAAATGAAAAAGTG
128129 --AAAAATGAAAAAGT-
1 AAAAAAATGAAAAAGTG
128143 AAAA
1 AAAA
128147 TGGAGAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 14 0.45
16 5 0.16
17 12 0.39
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AAAAAAATGAAAAAGTG
Found at i:129890 original size:44 final size:44
Alignment explanation
Indices: 129710--129894 Score: 106
Period size: 44 Copynumber: 4.2 Consensus size: 44
129700 AAGATTGTAG
* * *
129710 ATCTTATCTTCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * ** * **
129754 ATCTTATCTTTCC-AAG-A-TAGTGGAAAGTAGATTTAAGCCATCAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATCGAAGACGGCAA
** * * * ** * * * ** * *
129798 GCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
129842 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
129886 ATCTTATCT
1 ATCTTATCT
129895 TTCCAAGATA
Statistics
Matches: 99, Mismatches: 36, Indels: 12
0.67 0.24 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 81 0.82
45 5 0.05
46 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
Found at i:129962 original size:45 final size:44
Alignment explanation
Indices: 129911--130000 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
129901 GATAGTGGGA
* *
129911 AGCAGATTTAAGCCAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGCCA-CAAGTCTTATCTC-CCTGAAGTTACAGTGG
* *
129956 AGCAGATTAAAGCTATAAGTCTTATCTCCCTGAAGTTACAGTGG
1 AGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTACAGTGG
130000 A
1 A
130001 ATAGATTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 26 0.65
45 14 0.35
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGCAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTACAGTGG
Found at i:129986 original size:132 final size:132
Alignment explanation
Indices: 129624--129930 Score: 515
Period size: 132 Copynumber: 2.3 Consensus size: 132
129614 NNNNNNNNNN
* *
129624 CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGGCACCAAGCCTTGTCTCCCTGAGCAACAGC
1 CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGC
* *
129689 GGAGTAGGCTGAAGATTGTAGATCTTATCTTCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAA
129754 AT
131 AT
* * *
129756 CTTATCTTTCCAAGATAGTGGAAAGTAGATTTAAGCCATCAAGCCTTGTCTCCCTGAGCAGCAGC
1 CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGC
* * *
129821 AGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAA
129886 AT
131 AT
*
129888 CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAGCAAG
1 CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG
129931 TCTTATCCTC
Statistics
Matches: 162, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 162 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
CTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGC
GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCAA
AT
Found at i:130007 original size:44 final size:44
Alignment explanation
Indices: 129928--130012 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
129918 TTAAGCCAGC
* *
129928 AAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAT
1 AAGTCTTATCCTCCTGAAGTTACAGTGGAACAGATTAAAGCTAT
* *
129972 AAGTCTTAT-CTCCCTGAAGTTACAGTGGAATAGATTGAAGC
1 AAGTCTTATCCT-CCTGAAGTTACAGTGGAACAGATTAAAGC
130013 ACTAGCTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
AAGTCTTATCCTCCTGAAGTTACAGTGGAACAGATTAAAGCTAT
Found at i:130237 original size:19 final size:19
Alignment explanation
Indices: 130213--130279 Score: 107
Period size: 19 Copynumber: 3.4 Consensus size: 19
130203 ATAATTTTTT
130213 ATCTTAGATATGATATGCA
1 ATCTTAGATATGATATGCA
130232 ATCTTAGATATGATATATGCA
1 ATCTTAGATATG--ATATGCA
*
130253 ATCTTAGATATGATATGTA
1 ATCTTAGATATGATATGCA
130272 ATCTTAGA
1 ATCTTAGA
130280 AGATATGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 26 0.58
21 19 0.42
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
ATCTTAGATATGATATGCA
Found at i:130251 original size:21 final size:21
Alignment explanation
Indices: 130213--130268 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
130203 ATAATTTTTT
130213 ATCTTAGATATG--ATATGCA
1 ATCTTAGATATGATATATGCA
130232 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGATATATGCA
130253 ATCTTAGATATGATAT
1 ATCTTAGATATGATAT
130269 GTAATCTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.34
21 23 0.66
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATCTTAGATATGATATATGCA
Found at i:130298 original size:23 final size:22
Alignment explanation
Indices: 130218--130302 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
130208 TTTTTATCTT
*
130218 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
130239 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
130258 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
130280 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
130303 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:130312 original size:22 final size:23
Alignment explanation
Indices: 130268--130312 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
130258 AGATATGATA
*
130268 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
130291 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
130313 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:130961 original size:23 final size:23
Alignment explanation
Indices: 130935--130978 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
130925 TTATTATTTT
*
130935 TATATGTA-ATTATTTTTTTTATC
1 TATATGTATA-TATTTATTTTATC
130958 TATATGTATATATTTATTTTA
1 TATATGTATATATTTATTTTA
130979 GTATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TATATGTATATATTTATTTTATC
Found at i:136822 original size:41 final size:41
Alignment explanation
Indices: 136764--136951 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
136754 ATAAAGATGA
* * *
136764 TTCAGACTTTACGTCTAGTAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
*
136805 TTCAGACTTTACATCTAGCAGGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
* * * *
136846 TTCGGACTTTATGTCTAGCAGGCTTGATGCAGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
* *
136887 TTCAGACTTTATGTCTAGCAAGCTTGATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
* *
136928 TTCGGACTTTACGTCTAACAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
136952 AATTACCGGC
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAT
Found at i:136905 original size:82 final size:82
Alignment explanation
Indices: 136768--136951 Score: 305
Period size: 82 Copynumber: 2.2 Consensus size: 82
136758 AGATGATTCA
* * *
136768 GACTTTACGTCTAGTAGGCTTGATGCTGGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGAT
1 GACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAAGCTTGAT
136833 GCCGGTGAAATATTTCG
66 GCCGGTGAAATATTTCG
* **
136850 GACTTTATGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTATGTCTAGCAAGCTTGAT
1 GACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAAGCTTGAT
136915 GCCGGTGAAATATTTCG
66 GCCGGTGAAATATTTCG
*
136932 GACTTTACGTCTAACAGGCT
1 GACTTTACGTCTAGCAGGCT
136952 AATTACCGGC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 94 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (82 bp):
GACTTTACGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTACATCTAGCAAGCTTGAT
GCCGGTGAAATATTTCG
Found at i:136987 original size:82 final size:82
Alignment explanation
Indices: 136768--136992 Score: 195
Period size: 82 Copynumber: 2.7 Consensus size: 82
136758 AGATGATTCA
** * * * * ** * *
136768 GACTTTACGTCTAGTAGGCTTGATGCTGGTGAAATGTTTCAGACTTTACA-TCTAGCAGGCTTGA
1 GACTTTACGTCTAACAGGCTTAATACAGGTCAAATGAATCAGACTTTA-AGCCTAGCAAGCTTGA
136832 TGCCGGTGAAATATTTCG
65 TGCCGGTGAAATATTTCG
* * * * * ** * *
136850 GACTTTATGTCTAGCAGGCTTGATGCAGGTGAAATGTTTCAGACTTTATGTCTAGCAAGCTTGAT
1 GACTTTACGTCTAACAGGCTTAATACAGGTCAAATGAATCAGACTTTAAGCCTAGCAAGCTTGAT
136915 GCCGGTGAAATATTTCG
66 GCCGGTGAAATATTTCG
* * **
136932 GACTTTACGTCTAACAGGC-TAATTACCGG-CATACTGAATCAGGTTTTAAGCCTAGCAAGCT
1 GACTTTACGTCTAACAGGCTTAA-TACAGGTCA-AATGAATCAGACTTTAAGCCTAGCAAGCT
136993 AAGCGCCGGT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
81 3 0.02
82 119 0.98
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (82 bp):
GACTTTACGTCTAACAGGCTTAATACAGGTCAAATGAATCAGACTTTAAGCCTAGCAAGCTTGAT
GCCGGTGAAATATTTCG
Found at i:137485 original size:71 final size:70
Alignment explanation
Indices: 137409--137560 Score: 198
Period size: 71 Copynumber: 2.1 Consensus size: 70
137399 GATAAATACA
** * *
137409 TATATACATTTGGTTATAATATTTGTTAAG-TATATGTATATATATGCATTCGGTTATTCATGTT
1 TATATACATTTGGAGATAATATCTGTTAAGATATATGTATATA-A-GCATTCGGCTATTCATGTT
137473 CAAAGTG
64 CAAAGTG
* *
137480 TATATACATTTGGAGCTAATATCTGTTAAGCATATATGTATATAAGCATTCGGCTATTCATGTTT
1 TATATACATTTGGAGATAATATCTGTTAAG-ATATATGTATATAAGCATTCGGCTATTCATGTTC
*
137545 ATAGTG
65 AAAGTG
*
137551 AATATACATT
1 TATATACATT
137561 CAGTTTTAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
71 58 0.82
72 1 0.01
73 12 0.17
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (70 bp):
TATATACATTTGGAGATAATATCTGTTAAGATATATGTATATAAGCATTCGGCTATTCATGTTCA
AAGTG
Found at i:141525 original size:43 final size:43
Alignment explanation
Indices: 141478--141575 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
141468 ACGGCCTGAG
*
141478 ACACGGGCGTGTCTCTTGACCATGTGAGTCACACGACCTGGCC
1 ACACGAGCGTGTCTCTTGACCATGTGAGTCACACGACCTGGCC
** * * *
141521 ACACGAATGTGTCTTTTGACCGTGTGAGTCACACGGCCTGGCC
1 ACACGAGCGTGTCTCTTGACCATGTGAGTCACACGACCTGGCC
141564 ACACGAGCGTGT
1 ACACGAGCGTGT
141576 GTCCCTGCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (43 bp):
ACACGAGCGTGTCTCTTGACCATGTGAGTCACACGACCTGGCC
Found at i:142777 original size:16 final size:16
Alignment explanation
Indices: 142756--142794 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
142746 AAATTAAAAT
142756 ATTAAATTATGTCA-AA
1 ATTAAATTATGT-ATAA
*
142772 ATTAAAATATGTATAA
1 ATTAAATTATGTATAA
142788 ATTAAAT
1 ATTAAAT
142795 CTTAAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTAAATTATGTATAA
Found at i:146645 original size:24 final size:24
Alignment explanation
Indices: 146618--146664 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
146608 ACATAACCCA
146618 AACAAACTAAACCCAATCAGCCCC
1 AACAAACTAAACCCAATCAGCCCC
*
146642 AACAAACTAAACCCAATTAGCCC
1 AACAAACTAAACCCAATCAGCCC
146665 ATTTACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.38, G:0.04, T:0.11
Consensus pattern (24 bp):
AACAAACTAAACCCAATCAGCCCC
Found at i:162053 original size:24 final size:24
Alignment explanation
Indices: 162026--162072 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
162016 ACATAACCCA
162026 AACAAACTAAACCCAATCAGCCCC
1 AACAAACTAAACCCAATCAGCCCC
*
162050 AACAAACTAAACCCAATTAGCCC
1 AACAAACTAAACCCAATCAGCCC
162073 ATTTACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.38, G:0.04, T:0.11
Consensus pattern (24 bp):
AACAAACTAAACCCAATCAGCCCC
Found at i:163199 original size:3 final size:3
Alignment explanation
Indices: 163193--163226 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
163183 GATAATAATA
*
163193 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
163227 AATGTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:163608 original size:15 final size:12
Alignment explanation
Indices: 163574--163618 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 12
163564 TTATATTCTT
163574 TATATTTTATAA
1 TATATTTTATAA
163586 TATATTTTATACA
1 TATATTTTATA-A
163599 TAGGTATTTTATATA
1 TA--TATTTTATA-A
163614 TATAT
1 TATAT
163619 ATATATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
15 12 0.41
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (12 bp):
TATATTTTATAA
Found at i:163714 original size:15 final size:17
Alignment explanation
Indices: 163685--163721 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
163675 GTCCCTTTAT
163685 ATTTTTAATTGTA-TTC
1 ATTTTTAATTGTATTTC
*
163701 ATTTTTTATT-TATTTC
1 ATTTTTAATTGTATTTC
163717 ATTTT
1 ATTTT
163722 CATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTTTAATTGTATTTC
Found at i:167897 original size:15 final size:17
Alignment explanation
Indices: 167877--167910 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
167867 ATTTCTATCA
167877 CTTACC-AT-TAACCAT
1 CTTACCAATATAACCAT
167892 CTTACCAATATAACCAT
1 CTTACCAATATAACCAT
167909 CT
1 CT
167911 ATAAGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (17 bp):
CTTACCAATATAACCAT
Found at i:168733 original size:34 final size:34
Alignment explanation
Indices: 168694--168778 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
168684 AATACACAGG
* * *
168694 TAACTACACTACA-CAATATAGCTTGACAGAGCGA
1 TAACTACACCACACCAA-ATAACTCGACAGAGCGA
168728 TAACTACACCACACCAAATAACTCGACAGAGCGA
1 TAACTACACCACACCAAATAACTCGACAGAGCGA
*
168762 TAACTACACCATACCAA
1 TAACTACACCACACCAA
168779 GGCACAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 43 0.93
35 3 0.07
ACGTcount: A:0.44, C:0.29, G:0.11, T:0.16
Consensus pattern (34 bp):
TAACTACACCACACCAAATAACTCGACAGAGCGA
Found at i:173740 original size:20 final size:20
Alignment explanation
Indices: 173715--173755 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
173705 TGTTATAACT
173715 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
173735 TTTTTTTATTTACCAAAATA
1 TTTTTTTATTTACCAAAATA
173755 T
1 T
173756 ATCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTTATTTACCAAAATA
Found at i:173896 original size:27 final size:27
Alignment explanation
Indices: 173828--173897 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
173818 CGCCAATGGG
*
173828 ATTGGCGGCACCAAAGGTGCCAAAGCC
1 ATTGGCGGCACCAATGGTGCCAAAGCC
173855 ATTGGCGGCACCAATGGTGCCAATA-CC
1 ATTGGCGGCACCAATGGTGCCAA-AGCC
173882 ATTGGCGGCACCAATG
1 ATTGGCGGCACCAATG
173898 TTTATTGGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGCC
Found at i:173953 original size:3 final size:3
Alignment explanation
Indices: 173947--174034 Score: 53
Period size: 3 Copynumber: 30.3 Consensus size: 3
173937 GAAAAAAAGA
* * *
173947 AAG AAG AAG AA- AAGG AA- AAG GAG AAG AAA AAG AAAG AAAG AAG GA-
1 AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG -AAG -AAG AAG AAG
* * *
173992 AAG AAA AAG AA- ATG -AG AAG -AG AAA AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
174035 TGGAAGGAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
2 9 0.14
3 47 0.72
4 9 0.14
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:173953 original size:17 final size:17
Alignment explanation
Indices: 173931--174001 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 17
173921 AAAGGAAAGG
173931 AGAAGAGAAAAAAAGAA
1 AGAAGAGAAAAAAAGAA
* *
173948 AGAAGA-AGAAAAGGAA
1 AGAAGAGAAAAAAAGAA
*
173964 A-AGGAGAAGAAAAAGAA
1 AGAAGAGAA-AAAAAGAA
**
173981 AGAA-AGAAGGAAAGAA
1 AGAAGAGAAAAAAAGAA
173997 A-AAGA
1 AGAAGA
174002 AATGAGAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
15 5 0.12
16 18 0.43
17 18 0.43
18 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAGAGAAAAAAAGAA
Found at i:174010 original size:55 final size:54
Alignment explanation
Indices: 173907--174071 Score: 153
Period size: 55 Copynumber: 3.0 Consensus size: 54
173897 GTTTATTGGG
* *
173907 GGAAGAAGGA-AAGAAAAGGAAAG-GAGAA-GAGAAAAAAAGAAAGAAGAAGAAAA
1 GGAAGAAGGAGAAGAAAAAGAAAGAAAGAAGGA-AAAAAAAGAAAG-AGAAGAAAA
173960 GGAA-AAGGAGAAGAAAAAGAAAGAAAGAAGGAAAGAAAAAGAAATGAGAAGAGAAA
1 GGAAGAAGGAGAAGAAAAAGAAAGAAAGAAGGAAA-AAAAAGAAA-GAGAAGA-AAA
* * ** * *
174016 --AAGAAGAAGAAGAAGAAGATGGAAGGAAGGAAAAAAAAAGAAAAGAAAAGAAAA
1 GGAAGAAGGAGAAGAAAAAGAAAGAAAGAAGG-AAAAAAAAG-AAAGAGAAGAAAA
174070 GG
1 GG
174072 TATTTTTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
52 5 0.05
53 16 0.17
54 11 0.12
55 51 0.55
56 10 0.11
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (54 bp):
GGAAGAAGGAGAAGAAAAAGAAAGAAAGAAGGAAAAAAAAGAAAGAGAAGAAAA
Found at i:174017 original size:18 final size:17
Alignment explanation
Indices: 173918--174020 Score: 66
Period size: 18 Copynumber: 5.6 Consensus size: 17
173908 GAAGAAGGAA
*
173918 AGAAAAGGAAAGGAGAAG
1 AGAAAAAGAAA-GAGAAG
*
173936 AGAAAAA-AAGAAAGAAG
1 AGAAAAAGAA-AGAGAAG
* *
173953 AAGAAAAGGAAA-AGGAG
1 -AGAAAAAGAAAGAGAAG
173970 AAGAAAAAGAAAGAAAGAAGG
1 -AGAAAAAGAAAG--AGAA-G
173991 AAAGAAAAAGAAATGAGAAG
1 --AGAAAAAGAAA-GAGAAG
174011 AGAAAAAGAA
1 AGAAAAAGAA
174021 GAAGAAGAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
17 22 0.31
18 24 0.34
19 2 0.03
20 4 0.06
21 5 0.07
22 12 0.17
23 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (17 bp):
AGAAAAAGAAAGAGAAG
Found at i:174026 original size:17 final size:17
Alignment explanation
Indices: 173908--174028 Score: 70
Period size: 17 Copynumber: 6.6 Consensus size: 17
173898 TTTATTGGGG
*
173908 GAAGAAGGAA-AGAAAAG
1 GAAGAA-GAAGAGAAAAA
*
173925 GAAAGGAGAAGAGAAAAA
1 G-AAGAAGAAGAGAAAAA
*
173943 -AAGAAAGAAGAAGAAAAG
1 GAAG-AAGAAG-AGAAAAA
*
173961 GAA-AAGGAGAAGAAAAA
1 GAAGAAGAAG-AGAAAAA
173978 GAAAGAAAGAAGGAAAGAAAAA
1 G-AAG-AAGAA-G--AGAAAAA
174000 GAA-ATGAGAAGAGAAAAA
1 GAAGA--AGAAGAGAAAAA
174018 GAAGAAGAAGA
1 GAAGAAGAAGA
174029 AGAAGATGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
16 3 0.04
17 28 0.33
18 28 0.33
19 4 0.05
20 5 0.06
21 7 0.08
22 9 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (17 bp):
GAAGAAGAAGAGAAAAA
Found at i:174032 original size:75 final size:77
Alignment explanation
Indices: 173909--174063 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 77
173899 TTATTGGGGG
*
173909 AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAGAAGAA-AAGGAA-AAGGAGAA
1 AAGAAGGAAAGAAAAAGAAAGGAGAAGAGAAAAAAAGAAAGAAGAAGAAGAAGGAAGAAGGA-AA
*
173972 GAAAAAG-AAAGA
65 AAAAAAGAAAAGA
* *
173984 AAGAAGGAAAGAAAAAGAAATGAGAAGAGAAAAAGAAG-AAGAAGAAGAAGATGGAAGGAAGGAA
1 AAGAAGGAAAGAAAAAGAAAGGAGAAGAGAAAAA-AAGAAAGAAGAAGAAGAAGGAA-GAAGGAA
174048 AAAAAAAGAAAAGA
64 AAAAAAAGAAAAGA
174062 AA
1 AA
174064 AGAAAAGGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
75 43 0.61
76 8 0.11
77 8 0.11
78 12 0.17
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (77 bp):
AAGAAGGAAAGAAAAAGAAAGGAGAAGAGAAAAAAAGAAAGAAGAAGAAGAAGGAAGAAGGAAAA
AAAAAGAAAAGA
Found at i:174844 original size:22 final size:22
Alignment explanation
Indices: 174819--174861 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
174809 TTATAAGTTT
*
174819 TTTTTATTTACCAATATATATA
1 TTTTTATTTACCAAAATATATA
174841 TTTTTATTTACCAAAATATAT
1 TTTTTATTTACCAAAATATAT
174862 CAAAAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTATTTACCAAAATATATA
Found at i:174846 original size:72 final size:67
Alignment explanation
Indices: 174701--174831 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 67
174691 TATTTCGGGT
* * *
174701 TTTTTACCAATATATTAGAAAAAAAATACGAAAATATTATAACTTTTTTTATTTACCAGAATAAT
1 TTTTTACAAATATATTAAAAAAAAAATACCAAAATATTATAACTTTTTTTATTTACCAGAATAAT
*
174766 GGG
66 -GA
* *
174769 TTTTTACAAATATATTAAAAAAATAAAAATAACCAAAATGTTATAAGTTTTTTTTATTTACCA
1 TTTTTACAAATATATT--AAAAA-AAAAAT-ACCAAAATATTATAA-CTTTTTTTATTTACCA
174832 ATATATATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
68 15 0.28
70 4 0.08
71 6 0.11
72 13 0.25
73 15 0.28
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (67 bp):
TTTTTACAAATATATTAAAAAAAAAATACCAAAATATTATAACTTTTTTTATTTACCAGAATAAT
GA
Found at i:177404 original size:21 final size:21
Alignment explanation
Indices: 177380--177422 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
177370 GACCAGCATG
177380 AAAGTTTCGGTTAGGGCATTT
1 AAAGTTTCGGTTAGGGCATTT
177401 AAAGTTTCGGTTAGGGCATTT
1 AAAGTTTCGGTTAGGGCATTT
177422 A
1 A
177423 TTTCGGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (21 bp):
AAAGTTTCGGTTAGGGCATTT
Found at i:179553 original size:112 final size:112
Alignment explanation
Indices: 179356--179579 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
179346 GACATGTGTG
*
179356 GCCCAGGATTATTGTATATCACAATACGCTGCATCTGCTCCCCGACCGAAGAAGCGTTAATACCT
1 GCCCAGGATTATTGTATATCACAATACGCCGCATCTGCTCCCCGACCGAAGAAGCGTTAATACCT
179421 TCATCGTTGTTGACATCTTCATCGTCAATATCATCAGGTACATCGTC
66 TCATCGTTGTTGACATCTTCATCGTCAATATCATCAGGTACATCGTC
* * * *
179468 GCCCAGTATTATTGTGTATCACAATACGCCGCATCTGCTCCCTGACCGAAGAAGCGTTAATGCCT
1 GCCCAGGATTATTGTATATCACAATACGCCGCATCTGCTCCCCGACCGAAGAAGCGTTAATACCT
179533 TCATCGTTGTTGACATCTTCATCGTCAATATCATCAGGTACATCGTC
66 TCATCGTTGTTGACATCTTCATCGTCAATATCATCAGGTACATCGTC
179580 AACATCGGGA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (112 bp):
GCCCAGGATTATTGTATATCACAATACGCCGCATCTGCTCCCCGACCGAAGAAGCGTTAATACCT
TCATCGTTGTTGACATCTTCATCGTCAATATCATCAGGTACATCGTC
Found at i:179646 original size:18 final size:18
Alignment explanation
Indices: 179623--179667 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
179613 ATCCCAATGA
*
179623 TCGCCACCACCTTCTTCT
1 TCGCCACCACATTCTTCT
*
179641 TCGCCAGCACATTCTTCT
1 TCGCCACCACATTCTTCT
*
179659 TCACCACCA
1 TCGCCACCA
179668 ACCATGTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.47, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACATTCTTCT
Found at i:180215 original size:34 final size:35
Alignment explanation
Indices: 180171--180237 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
180161 CAGTAAAATA
* *
180171 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
180205 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
180238 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:180241 original size:14 final size:15
Alignment explanation
Indices: 180165--180241 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
180155 GATTGCCAGT
* *
180165 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
180179 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
180193 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
180213 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
180228 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
180242 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:181763 original size:18 final size:18
Alignment explanation
Indices: 181740--181778 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
181730 ATCTCTCTCA
*
181740 ATAAAAATTACAATATTT
1 ATAAAAATTACAAAATTT
* *
181758 ATAAAACTTTCAAAATTT
1 ATAAAAATTACAAAATTT
181776 ATA
1 ATA
181779 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAAATTACAAAATTT
Found at i:181827 original size:10 final size:12
Alignment explanation
Indices: 181804--181844 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
181794 TTAAAAATTT
181804 TAAAAAATATAC
1 TAAAAAATATAC
181816 TAAAAAA-A-AC
1 TAAAAAATATAC
*
181826 TAAAGAATATA-
1 TAAAAAATATAC
181837 TAAAAAAT
1 TAAAAAAT
181845 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 8 0.32
11 9 0.36
12 8 0.32
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (12 bp):
TAAAAAATATAC
Found at i:182406 original size:20 final size:18
Alignment explanation
Indices: 182343--182470 Score: 132
Period size: 20 Copynumber: 6.8 Consensus size: 18
182333 TTTGGTTAAA
182343 AATTACCC-AACTTACCCG
1 AATTACCCGAA-TTACCCG
* * *
182361 ACTTACCCTACTTACCCG
1 AATTACCCGAATTACCCG
*
182379 ACTTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
*
182397 AAAATTACCCGAATTACCCAAA
1 --AATTACCCGAATTACCC--G
*
182419 AATTACCCAAATTACCCG
1 AATTACCCGAATTACCCG
182437 AATTACCCGAAAATTACCCG
1 AATTACCCG--AATTACCCG
182457 AATTACCCGAATTA
1 AATTACCCGAATTA
182471 AATCACTACA
Statistics
Matches: 94, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
18 43 0.46
19 1 0.01
20 50 0.53
ACGTcount: A:0.37, C:0.34, G:0.07, T:0.23
Consensus pattern (18 bp):
AATTACCCGAATTACCCG
Found at i:182414 original size:29 final size:29
Alignment explanation
Indices: 182342--182470 Score: 126
Period size: 29 Copynumber: 4.5 Consensus size: 29
182332 TTTTGGTTAA
*
182342 AAATTACCC-AACTTACCC-GACTTACCC-
1 AAATTACCCGAA-TTACCCAGAATTACCCG
* * *
182369 TACTTACCCGACTTACCC-GAATTACCCG
1 AAATTACCCGAATTACCCAGAATTACCCG
*
182397 AAAATTACCCGAATTACCCAAAAATTACCC-
1 -AAATTACCCGAATTACCC-AGAATTACCCG
*
182427 AAATTACCCGAATTACCCGAAAATTACCCG
1 AAATTACCCGAATTACCC-AGAATTACCCG
182457 -AATTACCCGAATTA
1 AAATTACCCGAATTA
182471 AATCACTACA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 21 0.24
28 1 0.01
29 57 0.66
31 8 0.09
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (29 bp):
AAATTACCCGAATTACCCAGAATTACCCG
Found at i:182468 original size:9 final size:9
Alignment explanation
Indices: 182343--182470 Score: 132
Period size: 9 Copynumber: 13.6 Consensus size: 9
182333 TTTGGTTAAA
182343 AATTACCC-
1 AATTACCCG
182351 AACTTACCCG
1 AA-TTACCCG
* *
182361 ACTTACCCT
1 AATTACCCG
*
182370 ACTTACCCG
1 AATTACCCG
*
182379 ACTTACCCG
1 AATTACCCG
182388 AATTACCCG
1 AATTACCCG
182397 AAAATTACCCG
1 --AATTACCCG
*
182408 AATTACCCAAA
1 AATTACCC--G
*
182419 AATTACCCA
1 AATTACCCG
182428 AATTACCCG
1 AATTACCCG
182437 AATTACCCG
1 AATTACCCG
182446 AAAATTACCCG
1 --AATTACCCG
182457 AATTACCCG
1 AATTACCCG
182466 AATTA
1 AATTA
182471 AATCACTACA
Statistics
Matches: 106, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
8 2 0.02
9 77 0.73
10 1 0.01
11 26 0.25
ACGTcount: A:0.37, C:0.34, G:0.07, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:182499 original size:17 final size:17
Alignment explanation
Indices: 182477--182574 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
182467 ATTAAATCAC
182477 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
182494 TACATAAATATTTGAATCAC
1 TACAT--A-ATTAAAAACAT
*
182514 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
182531 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
182551 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
182568 TACATAA
1 TACATAA
182575 GTCTTGAATT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 30 0.54
18 1 0.02
19 1 0.02
20 24 0.43
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:182575 original size:37 final size:37
Alignment explanation
Indices: 182471--182583 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
182461 ACCCGAATTA
* * *
182471 AATCACTACATAATTAAAAACATTACATAAATATTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
182508 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
182545 AATCACTACATAATTAAAAATATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
182581 AAT
1 AAT
182584 TAACACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 6 0.08
37 67 0.92
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:186813 original size:16 final size:17
Alignment explanation
Indices: 186787--186826 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
186777 GCCTAAGAGA
186787 AAATT-GGCT-GGATTT
1 AAATTGGGCTGGGATTT
*
186802 AAATTGGGCTGGGTTTT
1 AAATTGGGCTGGGATTT
186819 AAATTGGG
1 AAATTGGG
186827 AGGGAGTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 13 0.59
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.38
Consensus pattern (17 bp):
AAATTGGGCTGGGATTT
Found at i:199327 original size:109 final size:109
Alignment explanation
Indices: 199154--199463 Score: 498
Period size: 109 Copynumber: 2.9 Consensus size: 109
199144 TGGATTAAGA
* * *
199154 TTTAAGAGGATATTTGGCTATTTGATCGAACGAG--AAATCGAAACCCAGCATATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
199217 TTTCTCGAATTTCCAAACATAAAACATTGTCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACACAAAACATTGTCTTATTTTGAAATT
* *
199261 TTTAAAAGGATATTTGGCTATTTGGTCGAATGAGAAAAATCGTAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
199326 TTTCTCGAATTTCTAAACGCAAAACATTGTCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACACAAAACATTGTCTTATTTTGAAATT
* *
199370 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGAGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
199435 TTTCTCGAATTTCCAAACGCAAAATATTG
66 TTTCTCGAATTTCCAAACACAAAACATTG
199464 CCTTTGTTGA
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
107 31 0.17
109 156 0.83
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACACAAAACATTGTCTTATTTTGAAATT
Found at i:200390 original size:4 final size:4
Alignment explanation
Indices: 200381--200418 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
200371 AATATAATGG
* *
200381 ATAA ATAA ATAA GTAA ATAA ATAA ATGA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
200419 CAAGCTAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:203573 original size:23 final size:23
Alignment explanation
Indices: 203545--203598 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
203535 CACGGCGTCG
203545 GTCAGAAGAGCGGCGGCTGAAGA
1 GTCAGAAGAGCGGCGGCTGAAGA
203568 GTCAGAAGAGCGGCGGCTGAAGA
1 GTCAGAAGAGCGGCGGCTGAAGA
203591 GTCAGAAG
1 GTCAGAAG
203599 GCCTTAGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.43, T:0.09
Consensus pattern (23 bp):
GTCAGAAGAGCGGCGGCTGAAGA
Found at i:209864 original size:19 final size:20
Alignment explanation
Indices: 209842--209883 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
209832 ATAAAATATT
209842 TATAAAATA-CATAAATAAA
1 TATAAAATATCATAAATAAA
*
209861 TATAAAATATTTATAAATAAA
1 TATAAAATA-TCATAAATAAA
209882 TA
1 TA
209884 AATATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAATATCATAAATAAA
Found at i:214821 original size:2 final size:2
Alignment explanation
Indices: 214816--214843 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
214806 TAGCACTTTA
214816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
214844 TGAATGCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217535 original size:313 final size:314
Alignment explanation
Indices: 216953--217582 Score: 1244
Period size: 313 Copynumber: 2.0 Consensus size: 314
216943 AGGGGGACAA
216953 AAATTAAATTATAATTTTTACGATAGTAAAAATATAATTTTACCATTTTAATAGCATATATTTTT
1 AAATTAAATTAT-ATTTTTACGATAGTAAAAATATAATTTTACCATTTTAATAGCATATATTTTT
217018 ATATTTTTTAAAGGATTAAATCAATTTTTTATCATTTTTAAGGGATGCAAAGTAATTCTACCTTT
65 ATATTTTTTAAAGGATTAAATCAATTTTTTATCATTTTTAAGGGATGCAAAGTAATTCTACCTTT
217083 ATTAATTTAAAATTTTAAAGGATTTAAATGAAAAAATTTATATCTTAGGGAGATCGAGACTCTGC
130 ATTAATTTAAAATTTTAAAGGATTTAAATGAAAAAATTTATATCTTAGGGAGATCGAGACTCTGC
217148 CAGCTAAACCTAGATACACCACTGTTTACATTCTCTCACAGTAATGTTAGGCTTTTTCTCTATGA
195 CAGCTAAACCTAGATACACCACTGTTTACATTCTCTCACAGTAATGTTAGGCTTTTTCTCTATGA
217213 AATAATAAGTATAATTGATTGAACAAACTTACAGTTAAAACAGATAAAGAAGTTG
260 AATAATAAGTATAATTGATTGAACAAACTTACAGTTAAAACAGATAAAGAAGTTG
217268 AAATTAAATTAT-TTTTTACGATAGTAAAAATATAATTTTACCATTTTAATAGCATATATTTTTA
1 AAATTAAATTATATTTTTACGATAGTAAAAATATAATTTTACCATTTTAATAGCATATATTTTTA
217332 TATTTTTTAAAGGATTAAATCAATTTTTTATCATTTTTAAGGGATGCAAAGTAATTCTACCTTTA
66 TATTTTTTAAAGGATTAAATCAATTTTTTATCATTTTTAAGGGATGCAAAGTAATTCTACCTTTA
217397 TTAATTTAAAATTTTAAAGGATTTAAATGAAAAAATTTATATCTTAGGGAGATCGAGACTCTGCC
131 TTAATTTAAAATTTTAAAGGATTTAAATGAAAAAATTTATATCTTAGGGAGATCGAGACTCTGCC
217462 AGCTAAACCTAGATACACCACTGTTTACATTCTCTCACAGTAATGTTAGGCTTTTTCTCTATGAA
196 AGCTAAACCTAGATACACCACTGTTTACATTCTCTCACAGTAATGTTAGGCTTTTTCTCTATGAA
217527 ATAATAAGTATAATTGATTGAACAAACTTACAGTTAAAACAGATAAAGAAGTTG
261 ATAATAAGTATAATTGATTGAACAAACTTACAGTTAAAACAGATAAAGAAGTTG
217581 AA
1 AA
217583 TAATGATTGA
Statistics
Matches: 315, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
313 303 0.96
315 12 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (314 bp):
AAATTAAATTATATTTTTACGATAGTAAAAATATAATTTTACCATTTTAATAGCATATATTTTTA
TATTTTTTAAAGGATTAAATCAATTTTTTATCATTTTTAAGGGATGCAAAGTAATTCTACCTTTA
TTAATTTAAAATTTTAAAGGATTTAAATGAAAAAATTTATATCTTAGGGAGATCGAGACTCTGCC
AGCTAAACCTAGATACACCACTGTTTACATTCTCTCACAGTAATGTTAGGCTTTTTCTCTATGAA
ATAATAAGTATAATTGATTGAACAAACTTACAGTTAAAACAGATAAAGAAGTTG
Found at i:220805 original size:10 final size:10
Alignment explanation
Indices: 220790--220819 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
220780 GAAATGTTAA
220790 AAATTTGTTT
1 AAATTTGTTT
*
220800 AAATTTGGTT
1 AAATTTGTTT
220810 AAATTTGTTT
1 AAATTTGTTT
220820 TTTTACCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (10 bp):
AAATTTGTTT
Found at i:221702 original size:9 final size:9
Alignment explanation
Indices: 221688--221724 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
221678 TATAGTTTGA
221688 TATTCGAAT
1 TATTCGAAT
221697 TATTCGAAT
1 TATTCGAAT
*
221706 TATTCGAGT
1 TATTCGAAT
221715 TATTCGAAT
1 TATTCGAAT
221724 T
1 T
221725 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:253901 original size:9 final size:9
Alignment explanation
Indices: 253884--253941 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
253874 TGTATGATTC
*
253884 AATTAGGTT
1 AATTCGGTT
253893 AATTCGGTT
1 AATTCGGTT
253902 AATTCAGG-T
1 AATTC-GGTT
253911 AATTCGGTT
1 AATTCGGTT
*
253920 AATTCGGAT
1 AATTCGGTT
253929 AATTCGGTT
1 AATTCGGTT
253938 AATT
1 AATT
253942 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:270560 original size:271 final size:271
Alignment explanation
Indices: 270072--270624 Score: 953
Period size: 271 Copynumber: 2.0 Consensus size: 271
270062 ATTTTTGGAG
*
270072 GTTCTAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
1 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
* *
270137 ACCTCTTTACTGTTTACAGGGTAGCATCCATGTGCTTGTTAGTATCGTCTCTGTATTTCTTTACT
66 ACCTCTTTACTGTTTACAGGGTAGCACCCATGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
* *
270202 AAAAATGGTATTGTTTCTTCTAAATTCTTTAAGCAGTCTTCAATAAAAATGTTGTGAAATTTCTT
131 AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
*
270267 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGTTTGTTTTTC
196 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGTTTATTTTTC
*
270332 TTACAGGACGA
261 TTACAGGACAA
270343 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
1 GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
* *
270408 ACCTCTTTACTGTTTACAGGGTAGCACCCTTGTGCATGTTATTATCGTCTCTGTATTTCTTTACT
66 ACCTCTTTACTGTTTACAGGGTAGCACCCATGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
* * *
270473 AAAAATGTTATTATTTCTTCTATATTCTTTAAGAAGTCTTCAATAAAAATGTTGTTAAATTTCTT
131 AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
* ** *
270538 ATTGAATGTATGAAATAGTTTTTGGTTTAACTTCTGTATAATGTTTCCACTTTTGTTTATTTTTC
196 ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGTTTATTTTTC
*
270603 TTATAGGACAA
261 TTACAGGACAA
270614 GTTCAAGTGCT
1 GTTCAAGTGCT
270625 ACTGCTGCAG
Statistics
Matches: 265, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
271 265 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (271 bp):
GTTCAAGTGCTTGAAACATTTTTAGAGCCTTTTGATGTTTTAGACTATAGGAACTATTCCTTTGT
ACCTCTTTACTGTTTACAGGGTAGCACCCATGTGCATGTTAGTATCGTCTCTGTATTTCTTTACT
AAAAATGGTATTATTTCTTCTAAATTCTTTAAGAAGTCTTCAATAAAAATGTTGTGAAATTTCTT
ATTGAATGTATAAAATAGTTTTTGGCATAACTTCTGTATAATGTCTCCACTTTTGTTTATTTTTC
TTACAGGACAA
Found at i:274373 original size:13 final size:13
Alignment explanation
Indices: 274357--274394 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
274347 TATAAAATAA
274357 TTTTTAATTATAT
1 TTTTTAATTATAT
274370 TTTTTACA-TA-AT
1 TTTTTA-ATTATAT
274382 TTTTTAATTATAT
1 TTTTTAATTATAT
274395 CTTAATGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 10 0.45
14 1 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTAATTATAT
Found at i:278747 original size:13 final size:13
Alignment explanation
Indices: 278729--278755 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
278719 AGCCTAGTTC
278729 ATTACTTTTGAAA
1 ATTACTTTTGAAA
278742 ATTACTTTTGAAA
1 ATTACTTTTGAAA
278755 A
1 A
278756 GTGCTGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTACTTTTGAAA
Found at i:278796 original size:13 final size:13
Alignment explanation
Indices: 278733--278796 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
278723 TAGTTCATTA
* *
278733 CTTTTGAAAATTA
1 CTTTTGAAAAGTG
278746 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
278759 C-TGTGAAAAAGTG
1 CTTTTG-AAAAGTG
*
278772 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
* *
278785 TTTTTTAAAAGT
1 CTTTTGAAAAGT
278797 TTGGTTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:286713 original size:20 final size:20
Alignment explanation
Indices: 286688--286728 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
286678 ATTACAAAAT
286688 AATTCAAA-ATAATTTTTTAA
1 AATTCAAAGAT-ATTTTTTAA
*
286708 AATTCAAAGATTTTTTTTAA
1 AATTCAAAGATATTTTTTAA
286728 A
1 A
286729 GAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTCAAAGATATTTTTTAA
Found at i:287719 original size:12 final size:13
Alignment explanation
Indices: 287691--287720 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
287681 TTCAAATTTG
287691 ATTAATAAAAAAT
1 ATTAATAAAAAAT
287704 ATTAATAAAAAA-
1 ATTAATAAAAAAT
287716 ATTAA
1 ATTAA
287721 AGTCGGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATTAATAAAAAAT
Found at i:292704 original size:19 final size:19
Alignment explanation
Indices: 292682--292762 Score: 108
Period size: 19 Copynumber: 4.1 Consensus size: 19
292672 GCAATATTAT
292682 ATATGATATGTAATCTTAG
1 ATATGATATGTAATCTTAG
292701 ATATGATATGTAATCTTAG
1 ATATGATATGTAATCTTAG
*
292720 ATATGATATGCAATCTTAGAAG
1 ATATGATATGTAATCTT---AG
*
292742 ATATGATTTTGTAATCTTAG
1 ATATGA-TATGTAATCTTAG
292762 A
1 A
292763 GATTTAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
19 35 0.64
20 3 0.05
22 8 0.15
23 9 0.16
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (19 bp):
ATATGATATGTAATCTTAG
Found at i:292990 original size:23 final size:23
Alignment explanation
Indices: 292946--292990 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
292936 TCTTATTTTG
* *
292946 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
292969 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
292991 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:294447 original size:19 final size:18
Alignment explanation
Indices: 294414--294449 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
294404 TTATAAACTC
294414 TTCTTATAAATTTATATA
1 TTCTTATAAATTTATATA
*
294432 TTCTTACTATATTTATAT
1 TTCTTA-TAAATTTATAT
294450 TTTATATANN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCTTATAAATTTATATA
Found at i:297021 original size:26 final size:24
Alignment explanation
Indices: 296992--297049 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
296982 AGTACAACTA
*
296992 AATTAAGATGAAATTTTTATATGTGC
1 AATTAA-AT-AAATTTTTATATGTAC
* *
297018 AATTAAATAATTTTTTATATTTAC
1 AATTAAATAAATTTTTATATGTAC
297042 AATTAAAT
1 AATTAAAT
297050 TAGTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.72
25 2 0.07
26 6 0.21
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (24 bp):
AATTAAATAAATTTTTATATGTAC
Done.