Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold470
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: 597437
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 4 of 6
Found at i:325699 original size:45 final size:47
Alignment explanation
Indices: 325650--325766 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 47
325640 TAATAGCCTC
* *
325650 TTAATAATATAATATTTTATTAATTTAAAATAATAT-A-A-AATTTTA
1 TTAATAATATAATATTATATTAATTTAAAA-AATATAATATAATATTA
*
325695 TTAATAATATAATCTTATATTAATTTTAAAAAATATGAATATAATATTA
1 TTAATAATATAATATTATATTAA-TTTAAAAAATAT-AATATAATATTA
*
325744 -TAATATTATAATATTATATTAAT
1 TTAATAATATAATATTATATTAAT
325767 AACAATCGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
45 26 0.42
46 7 0.11
47 2 0.03
48 21 0.34
49 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (47 bp):
TTAATAATATAATATTATATTAATTTAAAAAATATAATATAATATTA
Found at i:325715 original size:19 final size:19
Alignment explanation
Indices: 325678--325718 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
325668 ATTAATTTAA
*
325678 AATAATATAAAATTTTATT
1 AATAATATAAAATTATATT
**
325697 AATAATATAATCTTATATT
1 AATAATATAAAATTATATT
325716 AAT
1 AAT
325719 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATATAAAATTATATT
Found at i:325718 original size:16 final size:16
Alignment explanation
Indices: 325654--325767 Score: 65
Period size: 16 Copynumber: 7.3 Consensus size: 16
325644 AGCCTCTTAA
*
325654 TAATATAATATTTTAT
1 TAATATAATATTATAT
* * *
325670 TAATTTAAAATAATA-
1 TAATATAATATTATAT
* **
325685 TAAAATTTTATTA-A-
1 TAATATAATATTATAT
*
325699 TAATATAATCTTATAT
1 TAATATAATATTATAT
* **
325715 TAATTTTAA-AAAATAT
1 TAA-TATAATATTATAT
* *
325731 GAATATAATATTATAA
1 TAATATAATATTATAT
*
325747 TATTATAATATTATAT
1 TAATATAATATTATAT
325763 TAATA
1 TAATA
325768 ACAATCGATG
Statistics
Matches: 67, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
14 10 0.15
15 12 0.18
16 41 0.61
17 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (16 bp):
TAATATAATATTATAT
Found at i:325747 original size:8 final size:8
Alignment explanation
Indices: 325734--325761 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
325724 AAAATATGAA
325734 TATAATAT
1 TATAATAT
325742 TATAATAT
1 TATAATAT
325750 TATAATAT
1 TATAATAT
325758 TATA
1 TATA
325762 TTAATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:329081 original size:14 final size:14
Alignment explanation
Indices: 329059--329088 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
329049 TTTTTTTTCT
*
329059 TTTTGTTTATTTTA
1 TTTTATTTATTTTA
329073 TTTTATTTATTTTA
1 TTTTATTTATTTTA
329087 TT
1 TT
329089 ATTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:330931 original size:13 final size:13
Alignment explanation
Indices: 330913--330966 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
330903 TTTTTTTCTT
330913 TTTGTTTATTTTA
1 TTTGTTTATTTTA
*
330926 TTTGTTTATTTTCT
1 TTTGTTTATTTT-A
*
330940 TTTATTTATTTTA
1 TTTGTTTATTTTA
330953 TTAT-TTTATTTTA
1 TT-TGTTTATTTTA
330966 T
1 T
330967 ATTCTGAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTGTTTATTTTA
Found at i:330937 original size:22 final size:22
Alignment explanation
Indices: 330917--330966 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
330907 TTTCTTTTTG
330917 TTTATTTTATTTGT-TTATTTTCT
1 TTTA-TTTATTT-TATTATTTTCT
*
330940 TTTATTTATTTTATTATTTTAT
1 TTTATTTATTTTATTATTTTCT
330962 TTTAT
1 TTTAT
330967 ATTCTGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTATTTATTTTATTATTTTCT
Found at i:330948 original size:27 final size:28
Alignment explanation
Indices: 330906--330964 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
330896 GTCCTAATTT
*
330906 TTTTCTTTTTGTTTATTTTATT-TGTTTA
1 TTTTCTTTTTATTTATTTTATTAT-TTTA
330934 TTTTC-TTTTATTTATTTTATTATTTTA
1 TTTTCTTTTTATTTATTTTATTATTTTA
330961 TTTT
1 TTTT
330965 ATATTCTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (28 bp):
TTTTCTTTTTATTTATTTTATTATTTTA
Found at i:333041 original size:39 final size:39
Alignment explanation
Indices: 332987--333068 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
332977 TTTAGTCCAA
* *
332987 TTATTATTATTATAACTTGTTGGTAATGGATAATCAGAT
1 TTATTATTATTATAACTTGTTAGCAATGGATAATCAGAT
333026 TTATTATTATTATAACTTGTTAGCAATGGATAATCAGAT
1 TTATTATTATTATAACTTGTTAGCAATGGATAATCAGAT
333065 TTAT
1 TTAT
333069 CCTAGCATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (39 bp):
TTATTATTATTATAACTTGTTAGCAATGGATAATCAGAT
Found at i:333829 original size:12 final size:10
Alignment explanation
Indices: 333797--333823 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
333787 TACAGAAATA
333797 CCGCTTCTCT
1 CCGCTTCTCT
333807 CCGCTTCTCT
1 CCGCTTCTCT
333817 CCGCTTC
1 CCGCTTC
333824 ACTCTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.52, G:0.11, T:0.37
Consensus pattern (10 bp):
CCGCTTCTCT
Found at i:334005 original size:35 final size:30
Alignment explanation
Indices: 333930--334003 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
333920 GACTAATCGT
333930 TTAGTGCCTTGCCTGGAAATTAAATGACCA
1 TTAGTGCCTTGCCTGGAAATTAAATGACCA
333960 TTAGTGCCTTGCCTGGAAATTAAATGACCA
1 TTAGTGCCTTGCCTGGAAATTAAATGACCA
333990 TTAGTGCCTTGCCT
1 TTAGTGCCTTGCCT
334004 TGTCAACGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (30 bp):
TTAGTGCCTTGCCTGGAAATTAAATGACCA
Found at i:334757 original size:20 final size:20
Alignment explanation
Indices: 334732--334776 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
334722 ATTGAAGTTT
334732 CAAGCAGGCCAGTTCCGCAA
1 CAAGCAGGCCAGTTCCGCAA
334752 CAAGCAGGCCAGTTCCGCAA
1 CAAGCAGGCCAGTTCCGCAA
334772 CAAGC
1 CAAGC
334777 TTTTCTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.36, G:0.24, T:0.09
Consensus pattern (20 bp):
CAAGCAGGCCAGTTCCGCAA
Found at i:337233 original size:13 final size:13
Alignment explanation
Indices: 337215--337256 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
337205 TTTTTTTCTT
337215 TTTGTTTATTTTA
1 TTTGTTTATTTTA
*
337228 TTTGTTTATTTTCT
1 TTTGTTTATTTT-A
*
337242 TTTATTTATTTTA
1 TTTGTTTATTTTA
337255 TT
1 TT
337257 ATTGTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTGTTTATTTTA
Found at i:337249 original size:22 final size:22
Alignment explanation
Indices: 337219--337268 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
337209 TTTCTTTTTG
*
337219 TTTATTTTATTTGT-TTATTTTCT
1 TTTA-TTTATTT-TATTATTGTCT
337242 TTTATTTATTTTATTATTGTCT
1 TTTATTTATTTTATTATTGTCT
337264 TTTAT
1 TTTAT
337269 ATTCGGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTATTTATTTTATTATTGTCT
Found at i:339077 original size:5 final size:5
Alignment explanation
Indices: 339056--339118 Score: 55
Period size: 5 Copynumber: 13.4 Consensus size: 5
339046 ACGAGTCCTA
* * *
339056 ATTTT ATTTT TTGTTT ATTTT A-TTT -GTTT ATTTT CTTTT A-TTT ATTTT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
339104 A--TT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT AT
339119 ATTCTGAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
3 3 0.06
4 10 0.21
5 30 0.64
6 4 0.09
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:339083 original size:13 final size:13
Alignment explanation
Indices: 339065--339118 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
339055 AATTTTATTT
339065 TTTGTTTATTTTA
1 TTTGTTTATTTTA
*
339078 TTTGTTTATTTTCT
1 TTTGTTTATTTT-A
*
339092 TTTATTTATTTTA
1 TTTGTTTATTTTA
339105 TTAT-TTTATTTTA
1 TT-TGTTTATTTTA
339118 T
1 T
339119 ATTCTGAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTGTTTATTTTA
Found at i:339100 original size:27 final size:27
Alignment explanation
Indices: 339064--339116 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
339054 TAATTTTATT
*
339064 TTTTGTTTATTTTATT-TGTTTATTTTC
1 TTTTATTTATTTTATTAT-TTTATTTTC
339091 TTTTATTTATTTTATTATTTTATTTT
1 TTTTATTTATTTTATTATTTTATTTT
339117 ATATTCTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTATTTATTTTATTATTTTATTTTC
Found at i:340515 original size:54 final size:54
Alignment explanation
Indices: 340432--340542 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
340422 TCCTACATCA
*
340432 ACAATAGAATCCCCAAATATGAACTTGGCAGGAACAACAGGTTGACCATTAGCG
1 ACAATAGAATCCCCAAATATGAACATGGCAGGAACAACAGGTTGACCATTAGCG
340486 ACAATAGAATCCCCAAATATGAACATGGCAGGAACAACAGGTTGACCATTAGCG
1 ACAATAGAATCCCCAAATATGAACATGGCAGGAACAACAGGTTGACCATTAGCG
340540 ACA
1 ACA
340543 GAGAGCGTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (54 bp):
ACAATAGAATCCCCAAATATGAACATGGCAGGAACAACAGGTTGACCATTAGCG
Found at i:340617 original size:10 final size:12
Alignment explanation
Indices: 340590--340615 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
340580 CAAGAGAAGA
340590 TATAAAAAATGT
1 TATAAAAAATGT
340602 TATAAAAAATGT
1 TATAAAAAATGT
340614 TA
1 TA
340616 AATGTCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TATAAAAAATGT
Found at i:345834 original size:13 final size:13
Alignment explanation
Indices: 345816--345843 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
345806 TAAAAGTCCC
345816 AAGTTATGATAGG
1 AAGTTATGATAGG
345829 AAGTTATGATAGG
1 AAGTTATGATAGG
345842 AA
1 AA
345844 TATTTACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (13 bp):
AAGTTATGATAGG
Found at i:347407 original size:92 final size:93
Alignment explanation
Indices: 347294--347469 Score: 264
Period size: 92 Copynumber: 1.9 Consensus size: 93
347284 GGATAAGAGG
* * *
347294 GTAACCAAGTTACCACGCAACAAAATCTTTAAGGCATATAAATGAGTAACCAAGTTACCATGCAT
1 GTAACCAAGTTACCACACAACAAAATCCTTAAGGCATATAAACGAGTAACCAAGTTACCATGCAT
*
347359 A-ATGCTACGGAACTACAAGGCGGTGAA
66 ACATGCGACGGAACTACAAGGCGGTGAA
* * * *
347386 GTAAGCAAGTTATCACACAACAAAATCCTTAGGGCATATAAGCGAGTAACCAAGTTACCATGCAT
1 GTAACCAAGTTACCACACAACAAAATCCTTAAGGCATATAAACGAGTAACCAAGTTACCATGCAT
*
347451 ACATGCGACGGAGCTACAA
66 ACATGCGACGGAACTACAA
347470 AAAATAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
92 59 0.80
93 15 0.20
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (93 bp):
GTAACCAAGTTACCACACAACAAAATCCTTAAGGCATATAAACGAGTAACCAAGTTACCATGCAT
ACATGCGACGGAACTACAAGGCGGTGAA
Found at i:353715 original size:13 final size:13
Alignment explanation
Indices: 353697--353722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
353687 ACAAAGATCC
353697 ATGTATCGATACA
1 ATGTATCGATACA
353710 ATGTATCGATACA
1 ATGTATCGATACA
353723 TTTCGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:353734 original size:20 final size:20
Alignment explanation
Indices: 353709--353746 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
353699 GTATCGATAC
353709 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
353729 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
353747 CTTGGTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:353798 original size:19 final size:19
Alignment explanation
Indices: 353774--353823 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
353764 AGCGAAATAT
353774 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
353793 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
353812 TGTATCGATACA
1 TGTATCGATACA
353824 GTTACTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:354413 original size:23 final size:23
Alignment explanation
Indices: 354382--354425 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
354372 ACGAGTCCTA
*
354382 ATTTTTTTCTTTT-TGTTTATTTT
1 ATTTGTTTCTTTTCT-TTTATTTT
354405 ATTTGTTTCTTTTCTTTTATT
1 ATTTGTTTCTTTTCTTTTATT
354426 CATTTTATTA
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:0.09, C:0.07, G:0.05, T:0.80
Consensus pattern (23 bp):
ATTTGTTTCTTTTCTTTTATTTT
Found at i:354444 original size:27 final size:28
Alignment explanation
Indices: 354386--354444 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
354376 GTCCTAATTT
* * *
354386 TTTTCTTTTTGTTTATTTTATTTGTTTC
1 TTTTCTTTTTATTCATTTTATTTGTTTA
354414 TTTTC-TTTTATTCATTTTATTAT-TTTA
1 TTTTCTTTTTATTCATTTTATT-TGTTTA
354441 TTTT
1 TTTT
354445 ATATTTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTTCTTTTTATTCATTTTATTTGTTTA
Found at i:356923 original size:39 final size:39
Alignment explanation
Indices: 356869--356950 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
356859 TTTAGCCCAA
* * *
356869 TTATTATTATTATAACTTGTTGGTAATGGATAATCAGAT
1 TTATTATTATTATAACTTGTTAGCAATGGACAATCAGAT
356908 TTATTATTATTATAACTTGTTAGCAATGGACAATCAGAT
1 TTATTATTATTATAACTTGTTAGCAATGGACAATCAGAT
356947 TTAT
1 TTAT
356951 CCCAGCATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.45
Consensus pattern (39 bp):
TTATTATTATTATAACTTGTTAGCAATGGACAATCAGAT
Found at i:357601 original size:53 final size:53
Alignment explanation
Indices: 357521--357628 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
357511 AATGTATTGA
*
357521 ATAACTAATGAGAGCTTTGGCTGTTAGGGAGATCAGCTCTCTCTGTTAGGGAG
1 ATAACTAATGAGAGCTTTGGCTGTTAGGGAGATCAGCTCTCACTGTTAGGGAG
357574 ATAACTAATGAGAGCTTTGGCTGTTAGGGAGATCAGCTCTCACTGTTAGGGAG
1 ATAACTAATGAGAGCTTTGGCTGTTAGGGAGATCAGCTCTCACTGTTAGGGAG
357627 AT
1 AT
357629 CATAAAACAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (53 bp):
ATAACTAATGAGAGCTTTGGCTGTTAGGGAGATCAGCTCTCACTGTTAGGGAG
Found at i:357877 original size:18 final size:16
Alignment explanation
Indices: 357846--357894 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
357836 TAAATAAAAT
357846 TTTAAAATATTATTAA
1 TTTAAAATATTATTAA
*
357862 TTTAAAATA-AATT-A
1 TTTAAAATATTATTAA
*
357876 -TTAAAATATTATTAT
1 TTTAAAATATTATTAA
357891 TTTA
1 TTTA
357895 CTTGATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 3 0.11
16 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAATATTATTAA
Found at i:357879 original size:29 final size:29
Alignment explanation
Indices: 357816--357894 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
357806 AGGCATATTG
* *
357816 TTTAAATTATTATTGATTTTTAAATAAAAT
1 TTTAAAATATTATT-ATTTTAAAATAAAAT
*
357846 TTTAAAATATTATTAATTTAAAAT-AAAT
1 TTTAAAATATTATTATTTTAAAATAAAAT
357874 TATTAAAATATTATTATTTTA
1 T-TTAAAATATTATTATTTTA
357895 CTTGATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.11
29 26 0.59
30 13 0.30
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
TTTAAAATATTATTATTTTAAAATAAAAT
Found at i:358071 original size:40 final size:42
Alignment explanation
Indices: 358011--358118 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 42
358001 ACTAACTATT
* * * *
358011 ATTATTATAATATTATATTATTAT-A-TTTGTGTT-TTTTAAA
1 ATTAATATAAGATTATATTATTATAAGTTTATATTATTTT-AA
358051 ATTAATATAAGATTATATTATTAATAAAAGTTTATATTATTTTAA
1 ATTAATATAAGATTATATTATT-AT--AAGTTTATATTATTTTAA
*
358096 ATTAATAAAAGATTATATTATTA
1 ATTAATATAAGATTATATTATTA
358119 AAAAGCTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
40 20 0.35
41 2 0.04
44 2 0.04
45 29 0.51
46 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (42 bp):
ATTAATATAAGATTATATTATTATAAGTTTATATTATTTTAA
Found at i:358075 original size:19 final size:19
Alignment explanation
Indices: 358051--358091 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
358041 GTTTTTTAAA
*
358051 ATTAATATAAGATTATATT
1 ATTAATAAAAGATTATATT
*
358070 ATTAATAAAAGTTTATATT
1 ATTAATAAAAGATTATATT
358089 ATT
1 ATT
358092 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTAATAAAAGATTATATT
Found at i:358292 original size:45 final size:47
Alignment explanation
Indices: 358243--358359 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 47
358233 TAATAGCCTC
* *
358243 TTAATAATATAATATTTTATTAATTTAAAATAATAT-A-A-AATTTTA
1 TTAATAATATAATATTATATTAATTTAAAA-AATATAATATAATATTA
*
358288 TTAATAATATAATCTTATATTAATTTTAAAAAATATGAATATAATATTA
1 TTAATAATATAATATTATATTAA-TTTAAAAAATAT-AATATAATATTA
*
358337 -TAATATTATAATATTATATTAAT
1 TTAATAATATAATATTATATTAAT
358360 AACAATCGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
45 26 0.42
46 7 0.11
47 2 0.03
48 21 0.34
49 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (47 bp):
TTAATAATATAATATTATATTAATTTAAAAAATATAATATAATATTA
Found at i:358308 original size:19 final size:19
Alignment explanation
Indices: 358271--358311 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
358261 ATTAATTTAA
*
358271 AATAATATAAAATTTTATT
1 AATAATATAAAATTATATT
**
358290 AATAATATAATCTTATATT
1 AATAATATAAAATTATATT
358309 AAT
1 AAT
358312 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATATAAAATTATATT
Found at i:358311 original size:16 final size:16
Alignment explanation
Indices: 358247--358360 Score: 65
Period size: 16 Copynumber: 7.3 Consensus size: 16
358237 AGCCTCTTAA
*
358247 TAATATAATATTTTAT
1 TAATATAATATTATAT
* * *
358263 TAATTTAAAATAATA-
1 TAATATAATATTATAT
* **
358278 TAAAATTTTATTA-A-
1 TAATATAATATTATAT
*
358292 TAATATAATCTTATAT
1 TAATATAATATTATAT
* **
358308 TAATTTTAA-AAAATAT
1 TAA-TATAATATTATAT
* *
358324 GAATATAATATTATAA
1 TAATATAATATTATAT
*
358340 TATTATAATATTATAT
1 TAATATAATATTATAT
358356 TAATA
1 TAATA
358361 ACAATCGATG
Statistics
Matches: 67, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
14 10 0.15
15 12 0.18
16 41 0.61
17 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (16 bp):
TAATATAATATTATAT
Found at i:358340 original size:8 final size:8
Alignment explanation
Indices: 358327--358354 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
358317 AAAATATGAA
358327 TATAATAT
1 TATAATAT
358335 TATAATAT
1 TATAATAT
358343 TATAATAT
1 TATAATAT
358351 TATA
1 TATA
358355 TTAATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:361603 original size:13 final size:12
Alignment explanation
Indices: 361551--361608 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 12
361541 AGTCCTAATT
*
361551 TTTTTTATTTTA
1 TTTTTTCTTTTA
*
361563 TTTGTTTCTTTTC
1 TTT-TTTCTTTTA
361576 TTTTATTCATTTTA
1 TTTT-TTC-TTTTA
361590 TTATTTTCTTTTA
1 TT-TTTTCTTTTA
361603 TATTTT
1 T-TTTT
361609 GAAGGTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.11
13 22 0.58
14 10 0.26
15 2 0.05
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTTA
Found at i:362139 original size:15 final size:13
Alignment explanation
Indices: 362119--362165 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
362109 AATGTAATAA
362119 AATATATTAAAAATT
1 AATATA-TAAAAA-T
*
362134 AATATATAATAAT
1 AATATATAAAAAT
*
362147 AATA-ATAATAAT
1 AATATATAAAAAT
362159 AATATAT
1 AATATAT
362166 TAAAGATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 12 0.40
13 7 0.23
14 5 0.17
15 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:362147 original size:3 final size:3
Alignment explanation
Indices: 362133--362162 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
362123 TATTAAAAAT
362133 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
362163 TATTAAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:362179 original size:20 final size:19
Alignment explanation
Indices: 362115--362186 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
362105 AATAAATGTA
362115 ATAA-AATATATTAAAAATT
1 ATAATAATATATT-AAAATT
*
362134 AATATATAATA-A-TAATAATA
1 -ATA-ATAATATATTAA-AATT
362154 ATAATAATATATTAAAGATT
1 ATAATAATATATTAAA-ATT
*
362174 ATAATATTATATT
1 ATAATAATATATT
362187 TTTATTTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 6 0.14
19 7 0.16
20 24 0.56
21 2 0.05
22 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
ATAATAATATATTAAAATT
Found at i:362895 original size:12 final size:12
Alignment explanation
Indices: 362880--362905 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
362870 TATTTTATTA
362880 TTTATATCATAT
1 TTTATATCATAT
362892 TTTATATCATAT
1 TTTATATCATAT
362904 TT
1 TT
362906 AAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATATCATAT
Found at i:363473 original size:2 final size:2
Alignment explanation
Indices: 363466--363502 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
363456 TTTTCCTTAC
363466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
363503 CCGAGCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:364271 original size:97 final size:95
Alignment explanation
Indices: 364086--364268 Score: 332
Period size: 94 Copynumber: 1.9 Consensus size: 95
364076 ATCCTAATAT
364086 TTAGGACATTTTTCAATTAGAATGAATGTCCTTATCAAGTGCAAGTCTTGTAGTTGTTTATTTAA
1 TTAGGACATTTTTCAATTAGAATGAATGTCC-T-TCAAGTGCAAGTCTTGTAGTTGTTTATTTAA
*
364151 TAAAAAAGGCTTATGTTTTTTTTTAATTGAAA
64 TAAAAAAGGCTCATGTTTTTTTTTAATTGAAA
364183 TTAGGACATTTTTCAATTAGAATGAATGTCC-TCAAGTGCAAGTCTTGTAGTTGTTTATTTAATA
1 TTAGGACATTTTTCAATTAGAATGAATGTCCTTCAAGTGCAAGTCTTGTAGTTGTTTATTTAATA
364247 AAAAAGGCTCATGTTTTTTTTT
66 AAAAAGGCTCATGTTTTTTTTT
364269 TTTTTGGAAT
Statistics
Matches: 85, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
94 54 0.64
97 31 0.36
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (95 bp):
TTAGGACATTTTTCAATTAGAATGAATGTCCTTCAAGTGCAAGTCTTGTAGTTGTTTATTTAATA
AAAAAGGCTCATGTTTTTTTTTAATTGAAA
Found at i:364516 original size:23 final size:23
Alignment explanation
Indices: 364486--364534 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
364476 TAACCTTGGG
364486 ATTGATAATTTTGCGGTAACTTT
1 ATTGATAATTTTGCGGTAACTTT
*
364509 ATTGATAATTTTGGGGTAACTTT
1 ATTGATAATTTTGCGGTAACTTT
364532 ATT
1 ATT
364535 AATTATAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (23 bp):
ATTGATAATTTTGCGGTAACTTT
Found at i:365003 original size:21 final size:21
Alignment explanation
Indices: 364978--365022 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
364968 TAGAGCACCA
364978 CTTAGTTAACAG-TTACCACAT
1 CTTAGTTAACAGATT-CCACAT
364999 CTTAGTTAACAGATTCCACAT
1 CTTAGTTAACAGATTCCACAT
365020 CTT
1 CTT
365023 TAATCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTAGTTAACAGATTCCACAT
Found at i:370399 original size:2 final size:2
Alignment explanation
Indices: 370394--370422 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
370384 TTTCATCTTT
370394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
370423 TTCAATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:370537 original size:15 final size:15
Alignment explanation
Indices: 370519--370549 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
370509 AAGGAAAAAA
*
370519 CTTGATGATTGGAGC
1 CTTGATGATTAGAGC
370534 CTTGATGATTAGAGC
1 CTTGATGATTAGAGC
370549 C
1 C
370550 ACTTTGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (15 bp):
CTTGATGATTAGAGC
Found at i:371416 original size:19 final size:19
Alignment explanation
Indices: 371392--371459 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
371382 AATTCAAAAA
371392 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
371411 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
371426 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
371443 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
371460 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:371430 original size:32 final size:32
Alignment explanation
Indices: 371394--371456 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
371384 TTCAAAAATT
*
371394 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
371426 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
371457 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:371431 original size:13 final size:13
Alignment explanation
Indices: 371413--371437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371403 ACATAAGTTT
371413 TGTATCGATACAA
1 TGTATCGATACAA
371426 TGTATCGATACA
1 TGTATCGATACA
371438 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:371517 original size:13 final size:13
Alignment explanation
Indices: 371499--371524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
371489 CATTTTTCTG
371499 TGTATCGATACAT
1 TGTATCGATACAT
371512 TGTATCGATACAT
1 TGTATCGATACAT
371525 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:371521 original size:33 final size:33
Alignment explanation
Indices: 371479--371545 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
371469 GCCAAGGAAA
***
371479 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
371512 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
371545 T
1 T
371546 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:374180 original size:52 final size:52
Alignment explanation
Indices: 374051--374220 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 52
374041 TTATTTCCGA
** * *
374051 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTTCCACAATC
* * **
374103 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTTCC-ACAATC
* * *
374155 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTCT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTTCCACAATC
* *
374207 GAGGATGCTCCAAC
1 GGGGATACTCCAAC
374221 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
51 9 0.09
52 72 0.75
53 12 0.12
54 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTTCCACAATC
Found at i:375745 original size:2 final size:2
Alignment explanation
Indices: 375738--375762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
375728 GTTTGGCTTA
375738 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
375763 CACGCACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:376846 original size:2 final size:2
Alignment explanation
Indices: 376839--376863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
376829 GATTGCTTGC
376839 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
376864 CCATCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:379025 original size:15 final size:15
Alignment explanation
Indices: 379005--379033 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
378995 GGGCTTTTAG
379005 TTTAAGTTTAAATTA
1 TTTAAGTTTAAATTA
379020 TTTAAGTTTAAATT
1 TTTAAGTTTAAATT
379034 TATATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTAAGTTTAAATTA
Found at i:380125 original size:20 final size:20
Alignment explanation
Indices: 380083--380138 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
380073 TATTCTTATA
* *
380083 ATTTTAAAATATAATTTTATT
1 ATTTTAAAA-AAAATTATATT
*
380104 ATTTTAAAAAAAATTATCTT
1 ATTTTAAAAAAAATTATATT
*
380124 ATATTTAACAAAAAT
1 AT-TTTAAAAAAAAT
380139 AAATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTAAAAAAAATTATATT
Found at i:384649 original size:2 final size:2
Alignment explanation
Indices: 384644--384672 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
384634 TTTTTTGAAA
384644 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
384673 TAATTAGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:386082 original size:30 final size:30
Alignment explanation
Indices: 385997--386088 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
385987 TTTAAATGTA
*
385997 ATAAATAAAAATAAAACATTAAT-AAAATT
1 ATAAATAAAAATAAAATATTAATAAAAATT
* **
386026 -T--GTAAACAATCAAAATAATTTTTAAAAATT
1 ATAAATAAA-AAT-AAAAT-ATTAATAAAAATT
* *
386056 ATAAATAAAAATAAAATATTGATAAAAGTT
1 ATAAATAAAAATAAAATATTAATAAAAATT
386086 ATA
1 ATA
386089 CATCACTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 5 0.10
29 4 0.08
30 19 0.40
31 6 0.12
32 3 0.06
33 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (30 bp):
ATAAATAAAAATAAAATATTAATAAAAATT
Found at i:386283 original size:6 final size:6
Alignment explanation
Indices: 386261--386299 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
386251 TATTTGTATT
*
386261 TAAAAA TAAATA TTAAATA TAAATA T-AATA TAAATA TAA
1 TAAATA TAAATA -TAAATA TAAATA TAAATA TAAATA TAA
386300 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATA
Found at i:386290 original size:11 final size:11
Alignment explanation
Indices: 386266--386300 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
386256 GTATTTAAAA
386266 ATAAATATTAAAT
1 ATAAATA-T-AAT
386279 ATAAATATAAT
1 ATAAATATAAT
386290 ATAAATATAAT
1 ATAAATATAAT
386301 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.64
12 1 0.05
13 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:386294 original size:17 final size:17
Alignment explanation
Indices: 386264--386299 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
386254 TTGTATTTAA
386264 AAATAAATATTAAATAT
1 AAATAAATATTAAATAT
386281 AAATATAATA-TAAATAT
1 AAATA-AATATTAAATAT
386298 AA
1 AA
386300 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATATTAAATAT
Found at i:386354 original size:17 final size:17
Alignment explanation
Indices: 386332--386369 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
386322 TAATTATAGT
386332 TAAATA-TATATAAAACA
1 TAAATATTATATAAAA-A
*
386349 TAAATATTTTATAAAAA
1 TAAATATTATATAAAAA
386366 TAAA
1 TAAA
386370 AAATTCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATATTATATAAAAA
Found at i:386785 original size:3 final size:3
Alignment explanation
Indices: 386779--386808 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
386769 GTTTCTATCA
386779 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
386809 TCCTGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:387927 original size:18 final size:18
Alignment explanation
Indices: 387892--387940 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
387882 TATGTTCATA
*
387892 TATTTTTATCATAATATAT
1 TATTTTT-TTATAATATAT
*
387911 TATTTTTTTATATTATAT
1 TATTTTTTTATAATATAT
387929 TATATTTTTTAT
1 TAT-TTTTTTAT
387941 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTTATAATATAT
Found at i:387928 original size:20 final size:21
Alignment explanation
Indices: 387889--387938 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
387879 TAATATGTTC
*
387889 ATATATTTTTATCATAATA-T
1 ATATTTTTTTATCATAATATT
*
387909 ATTATTTTTTTAT-ATTATATT
1 A-TATTTTTTTATCATAATATT
387930 ATATTTTTT
1 ATATTTTTT
387939 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
ATATTTTTTTATCATAATATT
Found at i:388734 original size:21 final size:19
Alignment explanation
Indices: 388684--388746 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 19
388674 ATTTTAAATT
388684 TTTTAAATTTAATTTAAAAAA
1 TTTTAAA-TTAA-TTAAAAAA
388705 TTATATAAATTAATTAAATTAAA
1 TT-T-TAAATTAATTAAA--AAA
*
388728 TTTTAAATTAAATAAAAAA
1 TTTTAAATTAATTAAAAAA
388747 ATCATTTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.08
21 19 0.51
22 6 0.16
23 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTTAAATTAATTAAAAAA
Found at i:389484 original size:32 final size:33
Alignment explanation
Indices: 389442--389503 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
389432 TAAAATATTA
*
389442 TATATTTATATAAATTTTGATAAATTAATAATT
1 TATATTTATATAAATTTTGACAAATTAATAATT
389475 TATA-TTATATAAATTTTGACAAATTAATA
1 TATATTTATATAAATTTTGACAAATTAATA
389504 TAGTTGTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (33 bp):
TATATTTATATAAATTTTGACAAATTAATAATT
Found at i:389578 original size:34 final size:34
Alignment explanation
Indices: 389526--389593 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
389516 ATTCATAATA
389526 TTTTTATTTTATATTTTATAT-TAAATTTAATTAT
1 TTTTTATTTTATATTTTATATAT-AATTTAATTAT
* *
389560 TTTTTCTTATTATA-TTTATATATATTTTAATTAT
1 TTTTTATT-TTATATTTTATATATAATTTAATTAT
389594 ATTATGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTTATTTTATATTTTATATATAATTTAATTAT
Found at i:391106 original size:3 final size:3
Alignment explanation
Indices: 391098--391141 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
391088 CAAAGGAAAC
* *
391098 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
391142 CACATAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:391513 original size:11 final size:11
Alignment explanation
Indices: 391499--391545 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
391489 TCATATCGTA
391499 TTTATATTATT
1 TTTATATTATT
391510 TTTATATTATAT
1 TTTATATTAT-T
391522 TTT-TAATTATT
1 TTTAT-ATTATT
391533 TTTATATTTATT
1 TTTATA-TTATT
391545 T
1 T
391546 ATGACATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATATTATT
Found at i:391530 original size:12 final size:13
Alignment explanation
Indices: 391506--391545 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 13
391496 GTATTTATAT
391506 TATTTTTATATTA
1 TATTTTTATATTA
391519 TATTTTTA-A-T-
1 TATTTTTATATTA
391529 TATTTTTATATT-
1 TATTTTTATATTA
391541 TATTT
1 TATTT
391546 ATGACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 7 0.28
13 8 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTATATTA
Found at i:391534 original size:23 final size:23
Alignment explanation
Indices: 391499--391545 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
391489 TCATATCGTA
391499 TTTATATTATTTTTATATTATATT
1 TTTATATTATTTTTATATT-TATT
391523 TTTA-ATTATTTTTATATTTATT
1 TTTATATTATTTTTATATTTATT
391545 T
1 T
391546 ATGACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTATATTATTTTTATATTTATT
Found at i:391723 original size:22 final size:22
Alignment explanation
Indices: 391683--391736 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
391673 TACAAATTAT
*
391683 TATTTAAA-ATAT-TATTTTTA
1 TATTTAAATTTATATATTTTTA
391703 TA-TTAATATTTATATATTTTTA
1 TATTTAA-ATTTATATATTTTTA
391725 TATTTAAATTTA
1 TATTTAAATTTA
391737 AATAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 3 0.10
21 3 0.10
22 15 0.52
23 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTAAATTTATATATTTTTA
Found at i:392003 original size:16 final size:15
Alignment explanation
Indices: 391982--392032 Score: 75
Period size: 16 Copynumber: 3.3 Consensus size: 15
391972 GGATATTATG
*
391982 TTATTTATTATTTGTT
1 TTATTTTTTATTT-TT
391998 TTATTTTTTATTTTT
1 TTATTTTTTATTTTT
392013 TTATTCTTTTATTTTT
1 TTATT-TTTTATTTTT
392029 TTAT
1 TTAT
392033 AAATTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 7 0.21
16 26 0.79
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTATTTTTTATTTTT
Found at i:392008 original size:23 final size:23
Alignment explanation
Indices: 391982--392029 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
391972 GGATATTATG
*
391982 TTATTTATTAT-TTGTTTTATTTT
1 TTATTT-TTATATTCTTTTATTTT
*
392005 TTATTTTTTTATTCTTTTATTTT
1 TTATTTTTATATTCTTTTATTTT
392028 TT
1 TT
392030 TATAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (23 bp):
TTATTTTTATATTCTTTTATTTT
Found at i:392014 original size:8 final size:8
Alignment explanation
Indices: 391989--392058 Score: 70
Period size: 8 Copynumber: 8.1 Consensus size: 8
391979 ATGTTATTTA
391989 TTATTTGTT
1 TTATTT-TT
391998 TTA-TTTT
1 TTATTTTT
392005 TTATTTTT
1 TTATTTTT
*
392013 TTATTCTT
1 TTATTTTT
392021 TTATTTTT
1 TTATTTTT
392029 TTATAAATTTT
1 TTAT---TTTT
392040 TTAATTATTT
1 TT-ATT-TTT
392050 TTATTTTT
1 TTATTTTT
392058 T
1 T
392059 AAAGTTTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
7 5 0.09
8 28 0.53
9 7 0.13
10 5 0.09
11 6 0.11
12 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.79
Consensus pattern (8 bp):
TTATTTTT
Found at i:392051 original size:12 final size:11
Alignment explanation
Indices: 391975--392051 Score: 50
Period size: 12 Copynumber: 6.9 Consensus size: 11
391965 ATATCTTGGA
*
391975 TATTATGTTATT
1 TATTAT-TTTTT
391987 TATTATTTGTTT
1 TATTATTT-TTT
*
391999 TATTTTTTATTT
1 TATTATTT-TTT
* *
392011 TTTTATTCTTT
1 TATTATTTTTT
*
392022 TATT-TTTTTA
1 TATTATTTTTT
*
392032 TA-AATTTTTT
1 TATTATTTTTT
*
392042 AATTATTTTT
1 TATTATTTTT
392052 ATTTTTTAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
10 12 0.24
11 14 0.29
12 23 0.47
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (11 bp):
TATTATTTTTT
Found at i:392059 original size:7 final size:7
Alignment explanation
Indices: 391982--392029 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 7
391972 GGATATTATG
*
391982 TTATTTA
1 TTATTTT
391989 TTATTTGTT
1 TTA-TT-TT
391998 TTATTTT
1 TTATTTT
392005 TTATTTTT
1 TTA-TTTT
392013 TTATTCTT
1 TTATT-TT
392021 TTATTTT
1 TTATTTT
392028 TT
1 TT
392030 TATAAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 14 0.39
8 18 0.50
9 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (7 bp):
TTATTTT
Found at i:392061 original size:26 final size:26
Alignment explanation
Indices: 391996--392074 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
391986 TTATTATTTG
* *
391996 TTTTATTTTTT-ATTTTTTTATTCT-T
1 TTTTATTTTTTAAATTTTTTAAT-TAT
392021 TTATT-TTTTTATAAATTTTTTAATTAT
1 TT-TTATTTTT-TAAATTTTTTAATTAT
* *
392048 TTTTATTTTTTAAAGTTTTTAAATAT
1 TTTTATTTTTTAAATTTTTTAATTAT
392074 T
1 T
392075 ATCGTAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
25 7 0.16
26 21 0.47
27 17 0.38
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTTATTTTTTAAATTTTTTAATTAT
Found at i:392430 original size:18 final size:18
Alignment explanation
Indices: 392407--392445 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
392397 AATTATATTT
392407 TTAATTT-TATAAAAATAA
1 TTAATTTATATAAAAA-AA
392425 TTAATTTGATATAAAAAAA
1 TTAATTT-ATATAAAAAAA
392444 TT
1 TT
392446 TGAATGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAATTTATATAAAAAAA
Found at i:393664 original size:11 final size:10
Alignment explanation
Indices: 393651--393706 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
393641 TTAAATATAA
393651 AAAAATAAAT
1 AAAAATAAAT
*
393661 AAAAATAATTT
1 AAAAATAA-AT
*
393672 AAAAATAACT
1 AAAAATAAAT
*
393682 AAAAATTAATT
1 AAAAA-TAAAT
*
393693 AAATATAAAT
1 AAAAATAAAT
393703 AAAA
1 AAAA
393707 CTCTCTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:393677 original size:21 final size:21
Alignment explanation
Indices: 393651--393706 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
393641 TTAAATATAA
393651 AAAAATAAATAAAAA-TAATTT
1 AAAAATAAATAAAAATTAA-TT
*
393672 AAAAATAACTAAAAATTAATT
1 AAAAATAAATAAAAATTAATT
*
393693 AAATATAAATAAAA
1 AAAAATAAATAAAA
393707 CTCTCTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATAAATAAAAATTAATT
Found at i:394849 original size:26 final size:27
Alignment explanation
Indices: 394811--394872 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
394801 TAGTTATTAT
* *
394811 TAATAAAAATTAAA-AAATTATTTTT-A
1 TAATTAAATTTAAATAAATT-TTTTTAA
394837 TAATTAAATTTAAATAAATTTTTTTAA
1 TAATTAAATTTAAATAAATTTTTTTAA
*
394864 TTATTAAAT
1 TAATTAAAT
394873 ATCAATCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATTAAATTTAAATAAATTTTTTTAA
Found at i:395481 original size:23 final size:22
Alignment explanation
Indices: 395438--395481 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
395428 ATTTTTTATT
*
395438 TAAATTTAATTATAAAAATATA
1 TAAAATTAATTATAAAAATATA
*
395460 TAAAATTAA-TATAATAATATA
1 TAAAATTAATTATAAAAATATA
395481 T
1 T
395482 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTAATTATAAAAATATA
Found at i:409060 original size:62 final size:62
Alignment explanation
Indices: 408963--409149 Score: 311
Period size: 62 Copynumber: 3.0 Consensus size: 62
408953 GGGGAACAGA
*
408963 AGTGACGTGGAAAGTGGGACCCATAGCACGTGGATTTTTCCTCAGAATTGCTGTTAGTTTTG
1 AGTGACGTGGAAAGTGGGACCCATAGCACATGGATTTTTCCTCAGAATTGCTGTTAGTTTTG
409025 AGTGACGTGGAAAGTGGGACCCATAGCACATGGATTTTTCCTCAGAATTGCTGTTAGTTTTG
1 AGTGACGTGGAAAGTGGGACCCATAGCACATGGATTTTTCCTCAGAATTGCTGTTAGTTTTG
* * * * *
409087 AGTGACGTGGAAAGTGGGACCTACAGTACATGGATTTTTGCTTTAGAATTGCTGTTAGTTTTG
1 AGTGACGTGGAAAGTGGGACCCATAGCACATGGATTTTT-CCTCAGAATTGCTGTTAGTTTTG
409150 TTGGTTATGT
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
62 97 0.82
63 21 0.18
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (62 bp):
AGTGACGTGGAAAGTGGGACCCATAGCACATGGATTTTTCCTCAGAATTGCTGTTAGTTTTG
Found at i:409486 original size:20 final size:20
Alignment explanation
Indices: 409463--409509 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
409453 TATATTACAC
409463 TAATTAAATAAATATAAAAA
1 TAATTAAATAAATATAAAAA
* * *
409483 TAA-TATAATATATGTAAATA
1 TAATTA-AATAAATATAAAAA
409503 TAATTAA
1 TAATTAA
409510 TATTATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATTAAATAAATATAAAAA
Found at i:409539 original size:24 final size:23
Alignment explanation
Indices: 409512--409571 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
409502 ATAATTAATA
*
409512 TTATATTTAATATATTTT-TTTTAT
1 TTATATTTAA-AT-TTTTATTATAT
409536 TTATATTTAAATTTTTATTATAT
1 TTATATTTAAATTTTTATTATAT
409559 TTAATAATTTAAA
1 TT-AT-ATTTAAA
409572 AATATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.12
23 9 0.28
24 12 0.38
25 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATATTTAAATTTTTATTATAT
Found at i:409550 original size:18 final size:17
Alignment explanation
Indices: 409529--409562 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
409519 TAATATATTT
409529 TTTTTATTTATATTTAAA
1 TTTTTA-TTATATTTAAA
409547 TTTTTATTATATTTAA
1 TTTTTATTATATTTAA
409563 TAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATTATATTTAAA
Found at i:409695 original size:19 final size:20
Alignment explanation
Indices: 409664--409716 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
409654 TATTAATCCC
409664 AAAAGAGATTTTTTTAATAAA
1 AAAAGAGA-TTTTTTAATAAA
* *
409685 AAAATAG--TTTTTAATTAA
1 AAAAGAGATTTTTTAATAAA
409703 AAAAGAGATTTTTT
1 AAAAGAGATTTTTT
409717 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 16 0.59
20 5 0.19
21 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (20 bp):
AAAAGAGATTTTTTAATAAA
Found at i:409720 original size:18 final size:18
Alignment explanation
Indices: 409664--409725 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
409654 TATTAATCCC
409664 AAAAGAGATTTTTTTAATAA
1 AAAAGAGATTTTTTT--TAA
* *
409684 AAAA-ATAGTTTTTAATTAA
1 AAAAGAGA-TTTTT-TTTAA
409703 AAAAGAGATTTTTTTTAA
1 AAAAGAGATTTTTTTTAA
409721 TAAAA
1 -AAAA
409726 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.12
19 18 0.53
20 11 0.32
21 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (18 bp):
AAAAGAGATTTTTTTTAA
Found at i:415389 original size:20 final size:21
Alignment explanation
Indices: 415352--415391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
415342 GGGTGTGTTT
*
415352 AATTTTATTTTATATATTTAA
1 AATTATATTTTATATATTTAA
415373 AATTATATTTT-TATATTTA
1 AATTATATTTTATATATTTA
415392 TGTTAATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTATATTTTATATATTTAA
Found at i:415681 original size:29 final size:29
Alignment explanation
Indices: 415644--415703 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
415634 TTGTCCAATC
415644 ATTTCCTATTAACTTAAACTTATAAGGTA
1 ATTTCCTATTAACTTAAACTTATAAGGTA
* * *
415673 ATTTTCTATTAACTTGAACTTTTAAGGTA
1 ATTTCCTATTAACTTAAACTTATAAGGTA
415702 AT
1 AT
415704 CGATCAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (29 bp):
ATTTCCTATTAACTTAAACTTATAAGGTA
Found at i:420770 original size:25 final size:26
Alignment explanation
Indices: 420721--420772 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
420711 ATTCAATATG
* * *
420721 ATTTAATTTAAATTATATGATTATTA
1 ATTTAATTAAAATTATATAAATATTA
420747 ATTTAATTAAAATT-TATAAATATTA
1 ATTTAATTAAAATTATATAAATATTA
420772 A
1 A
420773 AAATTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTAATTAAAATTATATAAATATTA
Found at i:426765 original size:20 final size:20
Alignment explanation
Indices: 426740--426780 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
426730 TGGTTTTAAA
426740 TATATTTTATTAAATATATT
1 TATATTTTATTAAATATATT
426760 TATATTTTATTAAATATATT
1 TATATTTTATTAAATATATT
426780 T
1 T
426781 TAAATATTTT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTTATTAAATATATT
Found at i:426782 original size:14 final size:15
Alignment explanation
Indices: 426735--426765 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
426725 CTTTTTGGTT
426735 TTAAATATATTT-TA
1 TTAAATATATTTATA
426749 TTAAATATATTTATA
1 TTAAATATATTTATA
426764 TT
1 TT
426766 TTATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATATATTTATA
Found at i:426792 original size:20 final size:20
Alignment explanation
Indices: 426746--426793 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
426736 TAAATATATT
* *
426746 TTATTAAATATATTTATATT
1 TTATTAAATATATTTAAATA
426766 TTATTAAATATATTTTAAATA
1 TTATTAAATATA-TTTAAATA
426787 TT-TTAAA
1 TTATTAAA
426794 ATTAATTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAAATATATTTAAATA
Found at i:427072 original size:16 final size:16
Alignment explanation
Indices: 427024--427074 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
427014 GCTAATAATA
*
427024 ATTAA-TAATAATATT
1 ATTAATTAATATTATT
** *
427039 AAAAATTAAAATTATT
1 ATTAATTAATATTATT
427055 ATTAATTAATATTATT
1 ATTAATTAATATTATT
427071 ATTA
1 ATTA
427075 TATATATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 3 0.11
16 25 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATATTATT
Found at i:427238 original size:17 final size:16
Alignment explanation
Indices: 427216--427248 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
427206 TAATATTAAA
427216 ATTATATAAAATATAAT
1 ATTATATAAAA-ATAAT
427233 ATTATATAAAAATAAT
1 ATTATATAAAAATAAT
427249 TTTAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATATAAAAATAAT
Found at i:427254 original size:39 final size:39
Alignment explanation
Indices: 427199--427327 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 39
427189 TTATCATAAC
427199 ATAAAAATAATATTAAAATTATATAAA-ATATAATATTAT
1 ATAAAAATAATATTAAAATTATATAAATAT-TAATATTAT
* * *
427238 ATAAAAATAATTTTAAAATTATATATATATTAATATTTT
1 ATAAAAATAATATTAAAATTATATAAATATTAATATTAT
* *
427277 ATAATTTATATAATA-T-AGATTATA-AATATATTAATATTTAT
1 ATAA---AAATAATATTAAAATTATATAA-ATATTAATA-TTAT
*
427318 ATAAATATAA
1 ATAAAAATAA
427328 ATTTTTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
38 6 0.08
39 38 0.50
40 18 0.24
41 8 0.11
42 6 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (39 bp):
ATAAAAATAATATTAAAATTATATAAATATTAATATTAT
Found at i:427259 original size:22 final size:21
Alignment explanation
Indices: 427199--427262 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
427189 TTATCATAAC
427199 ATAAAAATAATATTAAAATTAT
1 ATAAAAATAAT-TTAAAATTAT
*
427221 AT-AAAAT-A--TAATATTAT
1 ATAAAAATAATTTAAAATTAT
427238 ATAAAAATAATTTTAAAATTAT
1 ATAAAAATAA-TTTAAAATTAT
427260 ATA
1 ATA
427263 TATATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 10 0.29
18 5 0.14
19 1 0.03
20 1 0.03
21 5 0.14
22 13 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATAATTTAAAATTAT
Found at i:427306 original size:20 final size:20
Alignment explanation
Indices: 427257--427326 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
427247 ATTTTAAAAT
* **
427257 TATATATATATTAATAT-TT
1 TATAAATATATTAATATAGA
*
427276 TAT-AATTTATATAATATAGA
1 TATAAATATAT-TAATATAGA
**
427296 TTATAAATATATTAATATTTA
1 -TATAAATATATTAATATAGA
427317 TATAAATATA
1 TATAAATATA
427327 AATTTTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
20 10 0.25
21 10 0.25
22 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (20 bp):
TATAAATATATTAATATAGA
Found at i:427628 original size:9 final size:10
Alignment explanation
Indices: 427616--427686 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
427606 TATTTTTTAT
427616 TATTTA-AAA
1 TATTTATAAA
427625 TA-TTAT-AA
1 TATTTATAAA
427633 -ATTTATATAA
1 TATTTATA-AA
427643 TATTTATAAA
1 TATTTATAAA
**
427653 TATTT-TTTA
1 TATTTATAAA
427662 TATTTAT--A
1 TATTTATAAA
427670 TA-TTATATAA
1 TATTTATA-AA
427680 TATTTAT
1 TATTTAT
427687 TTTTATTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
7 5 0.10
8 12 0.24
9 9 0.18
10 13 0.26
11 11 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTTATAAA
Found at i:427651 original size:19 final size:19
Alignment explanation
Indices: 427623--427686 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
427613 TATTATTTAA
427623 AATA-TTATAAATTTATAT
1 AATATTTATAAATTTATAT
*
427641 AATATTTATAAATATT-TTT
1 AATATTTATAAAT-TTATAT
* *
427660 TATATTTATATA-TTATAT
1 AATATTTATAAATTTATAT
427678 AATATTTAT
1 AATATTTAT
427687 TTTTATTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 14 0.37
19 20 0.53
20 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTTATAAATTTATAT
Found at i:427657 original size:37 final size:37
Alignment explanation
Indices: 427616--427686 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
427606 TATTTTTTAT
427616 TATTTAAAATATTATAAAT-TTATATAATATTTATAAA
1 TATTTAAAATATT-TAAATATTATATAATATTTATAAA
*** *
427653 TATTTTTTATATTTATATATTATATAATATTTAT
1 TATTTAAAATATTTAAATATTATATAATATTTAT
427687 TTTTATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.14
37 25 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (37 bp):
TATTTAAAATATTTAAATATTATATAATATTTATAAA
Found at i:427663 original size:24 final size:26
Alignment explanation
Indices: 427633--427722 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 26
427623 AATATTATAA
*
427633 ATTTATATAATATTTATA-AATATTT
1 ATTTATATTATATTTATATAATATTT
427658 -TTTATATTTATATATTATATAATATTT
1 ATTTATA-TTATAT-TTATATAATATTT
* *
427685 ATTTTTATTATATTTA-ATTA-ATTT
1 ATTTATATTATATTTATATAATATTT
*
427709 -TTAATATTATATTT
1 ATTTATATTATATTT
427723 GTGTTATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 12 0.21
24 10 0.18
25 8 0.14
26 8 0.14
27 13 0.23
28 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTATATTATATTTATATAATATTT
Found at i:427669 original size:28 final size:28
Alignment explanation
Indices: 427633--427722 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 28
427623 AATATTATAA
*
427633 ATTTATA-TAATAT-TTATA-AATATTT
1 ATTTATATTTATATATTATATAATATTT
427658 -TTTATATTTATATATTATATAATATTT
1 ATTTATATTTATATATTATATAATATTT
* *
427685 ATTTTTA-TTATAT-TTA-ATTAATTTTT
1 ATTTATATTTATATATTATA-TAATATTT
427711 AATATTATATTT
1 -AT-TTATATTT
427723 GTGTTATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
24 6 0.11
25 6 0.11
26 15 0.28
27 15 0.28
28 9 0.17
29 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTATATTTATATATTATATAATATTT
Found at i:427670 original size:15 final size:16
Alignment explanation
Indices: 427600--427700 Score: 59
Period size: 15 Copynumber: 6.4 Consensus size: 16
427590 AAAATTTAGG
427600 TATTTATATTTT-TTA
1 TATTTATATTTTATTA
* *
427615 TTATTTAAAATATTA-TA
1 -TATTT-ATATTTTATTA
* **
427632 AATTTATATAATATT-
1 TATTTATATTTTATTA
**
427647 TATAAATATTTT-TTA
1 TATTTATATTTTATTA
*
427662 TATTTATATATTATATAA
1 TATTTATAT-TT-TATTA
427680 TATTTAT-TTTTATTA
1 TATTTATATTTTATTA
427695 TATTTA
1 TATTTA
427701 ATTAATTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
14 2 0.03
15 30 0.47
16 14 0.22
17 9 0.14
18 9 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTATATTTTATTA
Found at i:427696 original size:18 final size:18
Alignment explanation
Indices: 427635--427686 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
427625 TATTATAAAT
427635 TTATATAATATTTATAAATA
1 TTATATAATATTTAT--ATA
* *
427655 TT-TTTTATATTTATATA
1 TTATATAATATTTATATA
427672 TTATATAATATTTAT
1 TTATATAATATTTAT
427687 TTTTATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 10 0.37
20 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATAATATTTATATA
Found at i:428040 original size:17 final size:17
Alignment explanation
Indices: 428019--428060 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
428009 ATTTTGAAAA
428019 AATTCATATT-TATATC
1 AATTCATATTCTATATC
* *
428035 ATATTCGTATTCTATTTC
1 A-ATTCATATTCTATATC
428053 AATTCATA
1 AATTCATA
428061 AATATTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTCATATTCTATATC
Found at i:428984 original size:19 final size:18
Alignment explanation
Indices: 428948--428996 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
428938 ATTATTTAAT
428948 ATTTTATATTAAAATTTA
1 ATTTTATATTAAAATTTA
428966 ATTTTA-ATTAATTAATTT-
1 ATTTTATATTAA--AATTTA
428984 A-TTTAT-TTAAAAT
1 ATTTTATATTAAAAT
428997 AAAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.11
17 13 0.46
18 7 0.25
19 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTATATTAAAATTTA
Found at i:431624 original size:21 final size:21
Alignment explanation
Indices: 431600--431645 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
431590 TCAAGTACAA
* * *
431600 TATTTATATAATTTATAATTT
1 TATTTAAATAATTTAAAATAT
*
431621 TATTTAAATATTTTAAAATAT
1 TATTTAAATAATTTAAAATAT
431642 TATT
1 TATT
431646 ACTAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTAAATAATTTAAAATAT
Found at i:431823 original size:13 final size:13
Alignment explanation
Indices: 431792--431826 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
431782 CAATTATACT
431792 ATATAAAT-TTAA
1 ATATAAATATTAA
431804 A-ATAAATATTAA
1 ATATAAATATTAA
431816 ATATAAATATT
1 ATATAAATATT
431827 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAAATATTAA
Found at i:432559 original size:13 final size:14
Alignment explanation
Indices: 432541--432569 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
432531 TACAGATAAA
432541 ATCAAAATAA-ATT
1 ATCAAAATAAGATT
432554 ATCAAAATAAGATT
1 ATCAAAATAAGATT
432568 AT
1 AT
432570 TTTTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (14 bp):
ATCAAAATAAGATT
Found at i:432589 original size:12 final size:12
Alignment explanation
Indices: 432565--432597 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
432555 TCAAAATAAG
432565 ATTATTT-TTAA
1 ATTATTTATTAA
432576 ATTATTTATTAA
1 ATTATTTATTAA
432588 ATTA-TTATTA
1 ATTATTTATTA
432598 TTTTGACGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATTTATTAA
Found at i:436497 original size:32 final size:32
Alignment explanation
Indices: 436454--436532 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
436444 AGGAAATAGG
* *
436454 GTGGAATGCGCTAAAACG-CTCAGCGCATCTAAC
1 GTGGAA-GCGCTAAAACGCCT-AACGCATCCAAC
* *
436487 TTGGAAGCGCTAAAGCGCCTAACGCATCCAAC
1 GTGGAAGCGCTAAAACGCCTAACGCATCCAAC
*
436519 GTGGAAGCACTAAA
1 GTGGAAGCGCTAAA
436533 GCGACTTAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 32 0.82
33 7 0.18
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (32 bp):
GTGGAAGCGCTAAAACGCCTAACGCATCCAAC
Found at i:437246 original size:18 final size:18
Alignment explanation
Indices: 437207--437255 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
437197 TGTAGTCATT
*
437207 TTTATA-TTTATATTAAA
1 TTTATATTTTTTATTAAA
437224 TTTATATTTTTTATTATAA
1 TTTATATTTTTTATTA-AA
*
437243 -TTATATGTTTTAT
1 TTTATATTTTTTAT
437256 GTTTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 20 0.71
19 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATATTTTTTATTAAA
Found at i:437314 original size:13 final size:14
Alignment explanation
Indices: 437287--437316 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
437277 AATTATTTAT
437287 TTTATAATAATATA
1 TTTATAATAATATA
437301 TTTATAAT-ATATA
1 TTTATAATAATATA
437314 TTT
1 TTT
437317 CTATCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAATAATATA
Found at i:439538 original size:21 final size:24
Alignment explanation
Indices: 439513--439576 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
439503 AACACGAGGG
439513 AAAGAAAAA-AAAAGGAG-GA-AA
1 AAAGAAAAAGAAAAGGAGAGATAA
*
439534 AAAGAAAAGAAGAAAAGGAGAGATAG
1 AAAG-AAA-AAGAAAAGGAGAGATAA
439560 AAAGAAAAAGGAAAAGG
1 AAAGAAAAA-GAAAAGG
439577 GAGGGGGGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 2 0.06
24 10 0.28
25 12 0.33
26 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAGAAAAGGAGAGATAA
Found at i:441260 original size:14 final size:13
Alignment explanation
Indices: 441237--441288 Score: 77
Period size: 13 Copynumber: 3.8 Consensus size: 13
441227 TTTATATTAG
441237 TTTTATTTTTTTT
1 TTTTATTTTTTTT
441250 TTTTAATTTTTTTT
1 TTTT-ATTTTTTTT
441264 TTTTATTTTTTTT
1 TTTTATTTTTTTT
*
441277 TTATATTATTTT
1 TTTTATT-TTTT
441289 ATCATTGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
13 19 0.53
14 17 0.47
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTTTT
Done.