Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 313 of 373
Found at i:105654603 original size:81 final size:81
Alignment explanation
Indices: 105654486--105654641 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
105654476 TTATCCTCGA
* * **
105654486 TTGTGAAATTACTAGAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATT
1 TTGTGAAATTACGAGAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATT
*
105654550 ACCGAAATACCATTGGC
65 ACAGAAATACCATTGGC
105654567 TTGTGAAATTATCGA-AATA-CCCTAAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAAT
1 TTGTGAAATTA-CGAGAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAAT
105654630 TACAGAAATACC
64 TACAGAAATACC
105654642 CTTGACTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 4 0.06
81 60 0.90
82 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACGAGAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA
CAGAAATACCATTGGC
Found at i:105654667 original size:29 final size:27
Alignment explanation
Indices: 105654608--105654701 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
105654598 AAAATTACCA
* * *
105654608 AAATACCCCTGATTT-ACAAAATTACAG
1 AAATACCCTTGCTTTCA-AAAATTATAG
*
105654635 AAATACCCTTGACTTTCTAAAAATTATAA
1 AAATACCCTTG-CTTTC-AAAAATTATAG
* *
105654664 AAATACCATTGCTTTCCAAAATTACT-G
1 AAATACCCTTGCTTTCAAAAATTA-TAG
105654691 AAATACCCTTG
1 AAATACCCTTG
105654702 GTTTGTAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
27 27 0.49
28 9 0.16
29 18 0.33
30 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGCTTTCAAAAATTATAG
Found at i:105654694 original size:27 final size:29
Alignment explanation
Indices: 105654624--105654697 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
105654614 CCCTGATTTA
* *
105654624 CAAAATTACAGAAATACCCTTGACTTTCT
1 CAAAATTACTGAAATACCATTGACTTTCT
* *
105654653 AAAAATTA-TAAAAATACCATTG-CTTTC-
1 CAAAATTACT-GAAATACCATTGACTTTCT
105654680 CAAAATTACTGAAATACC
1 CAAAATTACTGAAATACC
105654698 CTTGGTTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 14 0.38
28 6 0.16
29 17 0.46
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (29 bp):
CAAAATTACTGAAATACCATTGACTTTCT
Found at i:105655556 original size:20 final size:20
Alignment explanation
Indices: 105655531--105655597 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
105655521 GATATGATAT
*
105655531 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
105655551 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
105655571 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
105655591 ACATGAT
1 ACATGAT
105655598 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:105655691 original size:25 final size:25
Alignment explanation
Indices: 105655647--105655730 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
105655637 GAGGAAGTGC
105655647 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
* * **
105655673 AAAAGGGATTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
105655698 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
105655721 AAAAGAGGCT
1 AAAAG-GGCT
105655731 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 28 0.57
26 9 0.18
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:105655927 original size:42 final size:42
Alignment explanation
Indices: 105655863--105655953 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
105655853 TAGTCTCCCC
* ** *
105655863 AATGGGCTTGCATACATTCATTGGTATTTCATATGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
*
105655905 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
105655947 AATGGGC
1 AATGGGC
105655954 CAATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
Found at i:105656020 original size:31 final size:31
Alignment explanation
Indices: 105655977--105656086 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
105655967 CGTTTACAGT
* *
105655977 AAAGCCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
105656008 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
105656039 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
105656070 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
105656087 AACCGTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:105658377 original size:27 final size:27
Alignment explanation
Indices: 105658339--105658532 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
105658329 TAAAATGCCT
* *
105658339 TCGATTTGTAGAATTACCATTTTACAC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
105658366 TCGGTTTATAGAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * * *
105658393 TCGATTTACAAAATTACCGTTTCACCC
1 TCGATTTATAGAATTACCATTTTACCC
*
105658420 TTGATTTATAGAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* *
105658447 TCGATTTATAGAATTACC-GTTTAACC
1 TCGATTTATAGAATTACCATTTTACCC
* *
105658473 TCGATTTACAAAATTACCATTTTACCC
1 TCGATTTATAGAATTACCATTTTACCC
* * *
105658500 TC-AGTTTACAAAATTACCATTTTATCC
1 TCGA-TTTATAGAATTACCATTTTACCC
105658527 TCGATT
1 TCGATT
105658533 GTAAAATTAC
Statistics
Matches: 143, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.16
27 119 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
TCGATTTATAGAATTACCATTTTACCC
Found at i:105658455 original size:81 final size:80
Alignment explanation
Indices: 105658336--105658532 Score: 270
Period size: 80 Copynumber: 2.4 Consensus size: 80
105658326 TACTAAAATG
* * * *
105658336 CCTTCGATTTGTAGAATTACCATTTTACACTCGGTTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCTT-GATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT-AACCTCGATTTA
*
105658401 CAAAATTACCGTTTCAC
64 CAAAATTACCATTTCAC
105658418 CCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACA
1 CCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACA
*
105658483 AAATTACCATTTTAC
66 AAATTACCATTTCAC
* * * *
105658498 CC-TCAGTTTACAAAATTACCATTTTATCCTCGATT
1 CCTTGA-TTTATAGAATTACCATTTTACCCTCGATT
105658533 GTAAAATTAC
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 54 0.52
81 44 0.42
82 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (80 bp):
CCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTAACCTCGATTTACA
AAATTACCATTTCAC
Found at i:105658594 original size:27 final size:27
Alignment explanation
Indices: 105658531--105658714 Score: 167
Period size: 27 Copynumber: 6.8 Consensus size: 27
105658521 TTATCCTCGA
* *
105658531 TTGTAAAATTACTAAAATACCTCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
105658557 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
*
105658585 TTGTAAAATTACCAAAATACCTCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
105658612 TTGTAAAATTATCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
105658639 TTGTGAAATTATCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
*
105658666 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
**
105658693 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
105658715 TTGACTTTCT
Statistics
Matches: 131, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
26 6 0.05
27 118 0.90
28 7 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:105658766 original size:27 final size:27
Alignment explanation
Indices: 105658696--105658777 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
105658686 CCCTAATTTA
* *
105658696 CAAAATTACAGAAATACCCTTGACTTTC
1 CAAAATTACTGAAATACCCTTG-GTTTC
* * *
105658724 TACAAATTA-TAAAAATACCATTGGTTTC
1 CA-AAATTACT-GAAATACCCTTGGTTTC
105658752 CAAAATTACTGAAATACCCTTGGTTT
1 CAAAATTACTGAAATACCCTTGGTTT
105658778 GTAGATTTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
27 20 0.47
28 7 0.16
29 16 0.37
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
CAAAATTACTGAAATACCCTTGGTTTC
Found at i:105659566 original size:25 final size:25
Alignment explanation
Indices: 105659520--105659567 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
105659510 TTATAGTATG
* * *
105659520 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
105659545 AAAATGACCATTATACCTCTAGG
1 AAAATGACCATTATACCCCTAGG
105659568 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:105659629 original size:20 final size:20
Alignment explanation
Indices: 105659603--105659669 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
105659593 GATATGATAT
*
105659603 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
105659623 GCATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
105659643 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
105659663 ACATGAT
1 ACATGAT
105659670 GTATTCATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:105659781 original size:52 final size:51
Alignment explanation
Indices: 105659719--105659854 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
105659709 GAGGAAGTGC
105659719 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
* * *
105659771 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGATTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
*
105659822 AAAAAGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
105659855 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.06
49 8 0.10
50 8 0.10
51 22 0.28
52 35 0.45
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTACCCCAGTTTACCG
Found at i:105659816 original size:25 final size:26
Alignment explanation
Indices: 105659719--105659854 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
105659709 GAGGAAGTGC
105659719 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
105659745 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
105659771 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
105659797 AAAAGGGATT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
105659822 AAAAAGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
105659845 AAAAGAGGCT
1 AAAAG-GGCT
105659855 AGGCCTCCAG
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.04
24 7 0.08
25 27 0.29
26 55 0.59
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:105660046 original size:42 final size:42
Alignment explanation
Indices: 105659987--105660078 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
105659977 TAGTCTGCCC
* ** *
105659987 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
105660029 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
105660071 AAATGGGC
1 AAATGGGC
105660079 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:105660145 original size:31 final size:31
Alignment explanation
Indices: 105660102--105660180 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
105660092 CGTTTACAGT
*
105660102 AAAGCCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
105660133 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
105660164 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
105660181 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:105670787 original size:26 final size:25
Alignment explanation
Indices: 105670758--105670815 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
105670748 ACTTTTTCTC
*
105670758 TATTTTTATTTATTTAG-TTATTTCAT
1 TATTATTATTTA-TTAGATTATTT-AT
*
105670784 TATTATTCTTTATTAGTATTATTTAT
1 TATTATTATTTATTAG-ATTATTTAT
105670810 TATTAT
1 TATTAT
105670816 AATTATTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
26 18 0.64
27 6 0.21
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTATTTATTAGATTATTTAT
Found at i:105670892 original size:17 final size:16
Alignment explanation
Indices: 105670867--105670900 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
105670857 TCTTCTGTTC
*
105670867 TATTTTTATTACTGATT
1 TATTATTATTACT-ATT
105670884 TATTATTATTACTATT
1 TATTATTATTACTATT
105670900 T
1 T
105670901 TTGTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTATTATTACTATT
Found at i:105672464 original size:6 final size:6
Alignment explanation
Indices: 105672447--105672530 Score: 89
Period size: 6 Copynumber: 14.2 Consensus size: 6
105672437 CCATTGAGTC
* * * * *
105672447 TGTTTA TCTTTA TGTTTA TTTTTA TTTTTC TCTTTA TGTTTA TGTTTA
1 TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA
* * *
105672495 TTTTTA TGTTTA TTTTTA TGTTTA T-TTTA TTTTTA T
1 TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA TGTTTA T
105672531 ATTTTGAACT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
5 5 0.08
6 61 0.92
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (6 bp):
TGTTTA
Found at i:105672482 original size:18 final size:18
Alignment explanation
Indices: 105672447--105672530 Score: 98
Period size: 18 Copynumber: 4.7 Consensus size: 18
105672437 CCATTGAGTC
* *
105672447 TGTTTATCTTTATGTTTA
1 TGTTTATTTTTATCTTTA
* *
105672465 TTTTTATTTTTCTCTTTA
1 TGTTTATTTTTATCTTTA
* *
105672483 TGTTTATGTTTATTTTTA
1 TGTTTATTTTTATCTTTA
*
105672501 TGTTTATTTTTATGTTTA
1 TGTTTATTTTTATCTTTA
105672519 T-TTTATTTTTAT
1 TGTTTATTTTTAT
105672531 ATTTTGAACT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
17 11 0.20
18 45 0.80
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (18 bp):
TGTTTATTTTTATCTTTA
Found at i:105672485 original size:24 final size:24
Alignment explanation
Indices: 105672449--105672530 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
105672439 ATTGAGTCTG
*
105672449 TTTATCTTTATGTTTATTTTTATT
1 TTTATCTTTATGTTTATGTTTATT
*
105672473 TTTCTCTTTATGTTTATGTTTATT
1 TTTATCTTTATGTTTATGTTTATT
* *
105672497 TTTATGTTTATTTTTATGTTTA-T
1 TTTATCTTTATGTTTATGTTTATT
*
105672520 TTTATTTTTAT
1 TTTATCTTTAT
105672531 ATTTTGAACT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 11 0.21
24 41 0.79
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (24 bp):
TTTATCTTTATGTTTATGTTTATT
Found at i:105674404 original size:30 final size:30
Alignment explanation
Indices: 105674347--105674404 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
105674337 AGACCATTTC
*
105674347 CACACGGGCTGAGCACATACCCGTGTGAGA
1 CACACGGGCTGAGCACATACCCATGTGAGA
105674377 CACACGGGCT-AGACACACT-CCCATGTGA
1 CACACGGGCTGAG-CACA-TACCCATGTGA
105674405 TAGCCCGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 22 0.88
31 1 0.04
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGAGCACATACCCATGTGAGA
Found at i:105681561 original size:33 final size:33
Alignment explanation
Indices: 105681509--105681601 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
105681499 CATGGCATTC
* * * *
105681509 ACAGAATAAGTCTACTGGGATAGTAAACACCAA
1 ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
* *
105681542 ATAGAGTAAGTCCATTGGGACAGTAAACACAAA
1 ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
* * **
105681575 ACAGATTAAGTCCTCCAGGACAGTAAA
1 ACAGAGTAAGTCCACTGGGACAGTAAA
105681602 TATGGGTAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (33 bp):
ACAGAGTAAGTCCACTGGGACAGTAAACACAAA
Found at i:105683909 original size:21 final size:21
Alignment explanation
Indices: 105683883--105683930 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
105683873 ATGAAGCAGT
* **
105683883 GGTATCGCGAGGTCCCTTTAG
1 GGTATCGCGAGATCCCCCTAG
*
105683904 GGTATCGCTAGATCCCCCTAG
1 GGTATCGCGAGATCCCCCTAG
105683925 GGTATC
1 GGTATC
105683931 AGAATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (21 bp):
GGTATCGCGAGATCCCCCTAG
Found at i:105688992 original size:44 final size:44
Alignment explanation
Indices: 105688943--105689034 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
105688933 TGTTCAGGGA
*
105688943 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
* **
105688987 TACTTCGACTTCGATTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
105689031 TACT
1 TACT
105689035 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
Found at i:105694593 original size:23 final size:24
Alignment explanation
Indices: 105694549--105694593 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
105694539 ATAGGAAAAC
*
105694549 AAAATAGACATAATAGGAAAAATA
1 AAAATAGACATAATAAGAAAAATA
105694573 AAAATAGA-ATAA-AAGATAAAA
1 AAAATAGACATAATAAGA-AAAA
105694594 ATACAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 8 0.42
24 8 0.42
ACGTcount: A:0.71, C:0.02, G:0.11, T:0.16
Consensus pattern (24 bp):
AAAATAGACATAATAAGAAAAATA
Found at i:105694593 original size:24 final size:24
Alignment explanation
Indices: 105694549--105694596 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
105694539 ATAGGAAAAC
*
105694549 AAAATAGACATAATAGGAAAAATA
1 AAAATAGACATAAAAGGAAAAATA
*
105694573 AAAATAGA-ATAAAAGATAAAAATA
1 AAAATAGACATAAAAG-GAAAAATA
105694597 CAGATAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAATAGACATAAAAGGAAAAATA
Found at i:105699262 original size:12 final size:12
Alignment explanation
Indices: 105699247--105699283 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
105699237 CATTCTACAG
105699247 AATAAGCTACCC
1 AATAAGCTACCC
105699259 AATAAGCTACCC
1 AATAAGCTACCC
105699271 AATAAGCTACCC
1 AATAAGCTACCC
105699283 A
1 A
105699284 GGGAGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
AATAAGCTACCC
Found at i:105709001 original size:31 final size:30
Alignment explanation
Indices: 105708955--105709012 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
105708945 TTTGTATAAT
105708955 TTTCTCTCTAGTTTTAGACTTTAGTTTTTTA
1 TTTCTCTCTAGTTTTAGACTTTA-TTTTTTA
105708986 TTTCTCT-TAGATTTTAGACTTTATTTT
1 TTTCTCTCTAG-TTTTAGACTTTATTTT
105709013 CCATTCTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTCTCTCTAGTTTTAGACTTTATTTTTTA
Found at i:105709595 original size:18 final size:18
Alignment explanation
Indices: 105709547--105709595 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
105709537 GATTTGATAT
105709547 TTACTTTCATTCAATTTG
1 TTACTTTCATTCAATTTG
*
105709565 TTGCTTTCCATTC-ATTTAG
1 TTACTTT-CATTCAATTT-G
*
105709584 TTACTTTTATTC
1 TTACTTTCATTC
105709596 CCATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.57
Consensus pattern (18 bp):
TTACTTTCATTCAATTTG
Found at i:105716214 original size:13 final size:12
Alignment explanation
Indices: 105716170--105716212 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 12
105716160 CGACAAAGAG
105716170 AAATAAAAT--A
1 AAATAAAATAAA
105716180 AAATAAAATAAA
1 AAATAAAATAAA
*
105716192 GAAACAAAATAAA
1 -AAATAAAATAAA
105716205 AAATAAAA
1 AAATAAAA
105716213 ATTAAACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.32
12 8 0.29
13 11 0.39
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:105728625 original size:40 final size:40
Alignment explanation
Indices: 105728573--105728723 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 40
105728563 TAACCACAAG
* * *
105728573 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
*
105728613 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
* * *
105728653 CACAAATGCGTTCAGGTCTTAGCCC-GA-ATA--AAATCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
*
105728689 CTAGCGTAAATGCCTTCGGGACTTAGCCCGGATAT
1 C-A-C--AAATGCCTTCGGGTCTTAGCCCGGATAT
105728724 CATTCAAATG
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
36 6 0.06
37 1 0.01
38 4 0.04
39 2 0.02
40 78 0.82
41 2 0.02
42 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCA
Found at i:105736999 original size:40 final size:40
Alignment explanation
Indices: 105736944--105737091 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
105736934 ATAACCACAA
* * * *
105736944 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
105736984 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
105737024 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
105737064 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
105737092 TTATCATTCA
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 95 0.96
41 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:105770030 original size:5 final size:5
Alignment explanation
Indices: 105770020--105770045 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
105770010 GCCTTTGAAT
105770020 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
105770046 GCAACATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:105776170 original size:18 final size:19
Alignment explanation
Indices: 105776142--105776179 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
105776132 AGAATCTTCA
105776142 AAAATTAATAAAATAAAAT
1 AAAATTAATAAAATAAAAT
*
105776161 AAAA-TAATAAAGTAAAAT
1 AAAATTAATAAAATAAAAT
105776179 A
1 A
105776180 GGATAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATTAATAAAATAAAAT
Found at i:105783236 original size:13 final size:13
Alignment explanation
Indices: 105783218--105783256 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
105783208 GCTCTACAGG
105783218 GACACGCCCGTGT
1 GACACGCCCGTGT
105783231 GACACGCCCGTGT
1 GACACGCCCGTGT
105783244 GACACGCCCGTGT
1 GACACGCCCGTGT
105783257 TCGATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:105786557 original size:10 final size:10
Alignment explanation
Indices: 105786542--105786566 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
105786532 ATAGGAGTAG
105786542 TCTTCTTTTT
1 TCTTCTTTTT
105786552 TCTTCTTTTT
1 TCTTCTTTTT
105786562 TCTTC
1 TCTTC
105786567 CCTAGCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTCTTTTT
Found at i:105787790 original size:20 final size:20
Alignment explanation
Indices: 105787765--105787831 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
105787755 GTTTTGATAT
105787765 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
105787785 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
105787805 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
105787825 ACGTGAT
1 ACATGAT
105787832 GTATTCATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:105787792 original size:11 final size:11
Alignment explanation
Indices: 105787776--105787831 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
105787766 CATGATTGAT
105787776 ATGATATGCAC
1 ATGATATGCAC
*
105787787 ATGATATG--T
1 ATGATATGCAC
105787796 ATGATATGCAC
1 ATGATATGCAC
*
105787807 ATGATATG--T
1 ATGATATGCAC
105787816 ATGATATGCAC
1 ATGATATGCAC
*
105787827 GTGAT
1 ATGAT
105787832 GTATTCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:105787845 original size:40 final size:39
Alignment explanation
Indices: 105787765--105787845 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 39
105787755 GTTTTGATAT
*
105787765 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
*
105787805 ACATGATATG-TATGATATGCACGTG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
105787845 A
1 A
105787846 TTGGGTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 26 0.72
41 2 0.06
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:105787907 original size:26 final size:25
Alignment explanation
Indices: 105787879--105787974 Score: 131
Period size: 26 Copynumber: 3.8 Consensus size: 25
105787869 AGGAAGTGCA
*
105787879 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
105787904 AAAAGGATTTTTGCCCCAGTTTACCG
1 AAAAGG-GCTTTGCCCCAGTTTACCG
*
105787930 AAAAGGGCTTTTGCCCCAGTTTATC-
1 AAAAGGGC-TTTGCCCCAGTTTACCG
105787955 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
105787975 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.19
25 14 0.22
26 37 0.59
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:105788234 original size:31 final size:31
Alignment explanation
Indices: 105788196--105788259 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
105788186 TGTTTACAGT
105788196 AAAGGCTTCCGCCCAGTAATATGAAATATGA
1 AAAGGCTTCCGCCCAGTAATATGAAATATGA
* **
105788227 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCCGCCCAGTAATATGAAATATGA
105788258 AA
1 AA
105788260 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCCGCCCAGTAATATGAAATATGA
Found at i:105791425 original size:22 final size:22
Alignment explanation
Indices: 105791341--105791426 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
105791331 TTTGTACGGT
* * *
105791341 ATTTGCAGTATGATGCCTACTG
1 ATTTGCATTATGGTGCCTACTA
** *
105791363 ATTTGCGCTATGGTGCCTACTG
1 ATTTGCATTATGGTGCCTACTA
*
105791385 ATTTGCATTACGGT-CCTACTA
1 ATTTGCATTATGGTGCCTACTA
*
105791406 ATTTG-ATTTTTGGTGCCTACT
1 ATTTGCA-TTATGGTGCCTACT
105791427 GCTCTACACT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.02
21 16 0.30
22 36 0.68
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.41
Consensus pattern (22 bp):
ATTTGCATTATGGTGCCTACTA
Found at i:105797255 original size:42 final size:42
Alignment explanation
Indices: 105797208--105797330 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
105797198 TGATATGTGT
* *
105797208 TTTCGTGTAAGACCATGTCTGGTACATTGGCATCGTATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
* *
105797250 TTTCGTGTAAGA-CATTATCTGGGACAATGGCATTGATATTTGA
1 TTTCGTGTAAGACCA-TGTCTGGGACATTGGCATTG-TATTTGA
* * * *
105797293 TTACATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
105797331 GTGCTTTCCG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.46
43 33 0.49
44 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
Found at i:105806129 original size:42 final size:43
Alignment explanation
Indices: 105806068--105806174 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
105806058 AACTTATGAG
* * *
105806068 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCTAGAACAGTGGCATCGATATTTGA
* *
105806110 TTTCGTGTAAGACCTTGTCTAGAACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGAACAGTGGCATCGATATTTGA
* *
105806153 TTACATGTAAGACCACGTCTAG
1 TTACGTGTAAGACCATGTCTAG
105806175 GATGTTGGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 30 0.55
43 25 0.45
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTAGAACAGTGGCATCGATATTTGA
Found at i:105806184 original size:43 final size:43
Alignment explanation
Indices: 105806027--105806185 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
105806017 TATGTGTTTT
*
105806027 CGTGTAAGACCACGTTTAGGATGTTGGCATC-A-ACTTATGAGTTA
1 CGTGTAAGACCACGTCTAGGATGTTGGCATCGATA-TT-TGA-TTA
* * ** *
105806071 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTAGGATGTTGGCATCGATATTTGATTA
** * *
105806113 CGTGTAAGACCTTGTCTAGAACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACGTCTAGGA-TGTTGGCATCGATATTTGATTA
*
105806156 CATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCACGTCTAGGATGTTGGCAT
105806186 TGTATGTGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 29 0.31
43 35 0.38
44 28 0.30
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGATGTTGGCATCGATATTTGATTA
Found at i:105806513 original size:10 final size:10
Alignment explanation
Indices: 105806500--105806529 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
105806490 TGTGAGCTCG
105806500 AGGGTCGTCA
1 AGGGTCGTCA
105806510 AGGGTCGTCA
1 AGGGTCGTCA
*
105806520 AGGATCGTCA
1 AGGGTCGTCA
105806530 CCACACTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.20
Consensus pattern (10 bp):
AGGGTCGTCA
Found at i:105812623 original size:51 final size:51
Alignment explanation
Indices: 105812520--105812707 Score: 258
Period size: 51 Copynumber: 3.7 Consensus size: 51
105812510 TACTTGGCTG
105812520 CCATAACATCTTTCATCTATAGTCTTA--CCATATACCTTAT-TCCAGACTA
1 CCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATAT-CAGACTA
* *
105812569 CCATAACATCTTTCATCTATGGTCTTATGCCATATACCTTATATCAGACTA
1 CCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGACTA
* *
105812620 CCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTA-ATCAGACTG
1 CCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGACTA
* * * * *
105812670 CCATAGCCTCCTACATTTATAGTCTTACGCCATATACC
1 CCATAACATCTTTCATCTATAGTCTTACGCCATATACC
105812708 ATCATCACGA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 26 0.20
50 40 0.31
51 60 0.47
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (51 bp):
CCATAACATCTTTCATCTATAGTCTTACGCCATATACCTTATATCAGACTA
Found at i:105812707 original size:101 final size:100
Alignment explanation
Indices: 105812520--105812707 Score: 261
Period size: 101 Copynumber: 1.9 Consensus size: 100
105812510 TACTTGGCTG
* * *
105812520 CCATAACATCTTTCATCTATAGTCTTACCATATACCTTATTCCAGACTACCATAACATCTTTCAT
1 CCATAACATCTTTCATCTATAGTCTTACCATATACCTTAATCCAGACTACCATAACATCCTACAT
* *
105812585 CTATGGTCTTATGCCATATACCTTATATCAGACTA
66 CTATAGTCTTACGCCATATACCTTATATCAGACTA
* * * *
105812620 CCATAACATCTTTCATCTATGGTCTTACGCCATATACCTTAAT-CAGACTGCCATAGCCTCCTAC
1 CCATAACATCTTTCATCTATAGTCTTA--CCATATACCTTAATCCAGACTACCATAACATCCTAC
*
105812684 ATTTATAGTCTTACGCCATATACC
64 ATCTATAGTCTTACGCCATATACC
105812708 ATCATCACGA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
100 26 0.34
101 37 0.49
102 13 0.17
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (100 bp):
CCATAACATCTTTCATCTATAGTCTTACCATATACCTTAATCCAGACTACCATAACATCCTACAT
CTATAGTCTTACGCCATATACCTTATATCAGACTA
Found at i:105817757 original size:61 final size:61
Alignment explanation
Indices: 105817653--105817775 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 61
105817643 AGCACACTAC
* * *
105817653 AACTGGAAAGGTTACATAGAATACTATTACAATAGAATCAGATCAATTTT-CTAATGGAAAT
1 AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATC-ATTTTGCTAATGGAAAT
* * * *
105817714 AACTAGAAAGGCTACACAGAATATTATTGCAGTAGAATTAGATCATTTTGCTAATGGAAAT
1 AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATCATTTTGCTAATGGAAAT
105817775 A
1 A
105817776 CTACAGCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 5 0.09
61 49 0.91
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.29
Consensus pattern (61 bp):
AACTAGAAAGGCTACACAGAATACTATTACAATAGAATCAGATCATTTTGCTAATGGAAAT
Found at i:105822432 original size:42 final size:42
Alignment explanation
Indices: 105822319--105822488 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 42
105822309 TTTCGATACG
* * *
105822319 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATC-AATT
1 TGATTTCATGTAAGACC-CTGTCTGGGACATTGGCATCGTATT
* * * *
105822360 TGAGATTTACGTGTAATACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
* * *
105822405 TGATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGATGTT
1 TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCG-TATT
* * * *
105822448 TGATTACATGTAAGA-CATCGTCTGGGACGTTGGCATTGTAT
1 TGATTTCATGTAAGACCCT-GTCTGGGACATTGGCATCGTAT
105822489 GAGCTTTTCG
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 41 0.40
44 27 0.26
45 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGTATT
Found at i:105822463 original size:43 final size:42
Alignment explanation
Indices: 105822327--105822488 Score: 125
Period size: 42 Copynumber: 3.8 Consensus size: 42
105822317 CGTGATTTCG
* * * *
105822327 TGTAAGACCACGTCTGGGAC-GTTGGCATC-AATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATAT--GA-TTACA
* * *
105822371 TGTAATACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
* * * *
105822413 TGTAAGACCCTGTTTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTACA
*
105822456 TGTAAGA-CATCGTCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACCAT-GTCTGGGACAG-TGGCATCGTAT
105822489 GAGCTTTTCG
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 34 0.36
43 33 0.35
44 25 0.26
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
Found at i:105846795 original size:44 final size:44
Alignment explanation
Indices: 105846745--105846834 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
105846735 TAATTGTAAT
* * * * **
105846745 TTAAATTCTAATTATTTTTAAATGTGTATTTATCACAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
*
105846789 TTAAATTATAACTATTTTTAAATATATAAGTATCGCAACTTCTA
1 TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
105846833 TT
1 TT
105846835 TTATTTAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (44 bp):
TTAAATTATAACTATTTTTAAATATATAAGTATCACAACTTCTA
Found at i:105855137 original size:40 final size:40
Alignment explanation
Indices: 105855072--105855166 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
105855062 CCATCTCCAT
* * *
105855072 CCAACCCAACACACC-A-TGTGGGGATAAAATTGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
* * *
105855110 CCAGCCCTACACACCAAGTATGGGGATAAAATTAACTCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
*
105855150 CCAATCCTACACACCAA
1 CCAACCCTACACACCAA
105855167 AAAGTATCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.28
39 1 0.02
40 33 0.70
ACGTcount: A:0.38, C:0.34, G:0.13, T:0.16
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATTAACCCAC
Found at i:105857379 original size:29 final size:29
Alignment explanation
Indices: 105857347--105857423 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
105857337 AATCATATTC
*
105857347 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
105857376 ATATGGCCTATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
105857405 ATATGGCCCGTTAAGCCCA
1 ATATGGCCCATTAGGCCCA
105857424 GTCACATTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:105857660 original size:8 final size:8
Alignment explanation
Indices: 105857647--105857689 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
105857637 GTAGCCAAAC
105857647 TTTCGGCT
1 TTTCGGCT
105857655 TTTCGGCAT
1 TTTCGGC-T
105857664 TTT-GGCT
1 TTTCGGCT
*
105857671 TTTCGGCA
1 TTTCGGCT
*
105857679 TTTCGACT
1 TTTCGGCT
105857687 TTT
1 TTT
105857690 GTCGATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 4 0.13
8 22 0.73
9 4 0.13
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:105857688 original size:16 final size:16
Alignment explanation
Indices: 105857647--105857689 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
105857637 GTAGCCAAAC
105857647 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
105857663 TTTTGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
105857679 TTTCGACTTTT
1 TTTCGGCTTTT
105857690 GTCGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:105859302 original size:18 final size:19
Alignment explanation
Indices: 105859276--105859316 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
105859266 TGCCTCTCGG
105859276 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
105859294 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
105859313 CGGT
1 CGGT
105859317 CCATAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:105862676 original size:14 final size:14
Alignment explanation
Indices: 105862657--105862683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105862647 AATATAATTA
105862657 TTACTATTATTATT
1 TTACTATTATTATT
105862671 TTACTATTATTAT
1 TTACTATTATTAT
105862684 CTAATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:105862851 original size:3 final size:3
Alignment explanation
Indices: 105862845--105862971 Score: 57
Period size: 3 Copynumber: 41.7 Consensus size: 3
105862835 TATTTCTAAA
* *
105862845 TAT TAT T-T TTT TAT GTAT ATAT TAT TAAT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * ** * *
105862891 TAC TAT TAT TAAA TAT CCT TAT TAT TAC TAT TAT T-T TCAT TCCT T-T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT T-AT TAT
* * *
105862937 TAT TAT TGCT TAT TAT CAT T-G TAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
105862972 CTTTCTTTGT
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
2 9 0.10
3 66 0.71
4 18 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:105863027 original size:3 final size:3
Alignment explanation
Indices: 105863019--105863044 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
105863009 TTATTGTTTA
105863019 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
105863045 CTATATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:105884334 original size:40 final size:40
Alignment explanation
Indices: 105884289--105884629 Score: 511
Period size: 40 Copynumber: 8.8 Consensus size: 40
105884279 ACAGCTCAAT
* * * * *
105884289 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGTACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
105884329 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
105884369 TGCCTTCGGGTCTTAGCCTGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
105884409 TGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
105884449 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
105884489 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
105884529 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
105884569 TGCCTTCGGGTTTTAGCCCGG--ATAT--ACTCGC-C-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
105884603 TGCCTTC-GGT-TTAG-CCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
105884630 TTGCTCATGC
Statistics
Matches: 283, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
31 4 0.01
32 4 0.01
33 7 0.02
34 9 0.03
35 2 0.01
36 6 0.02
38 4 0.01
40 247 0.87
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:105890494 original size:24 final size:24
Alignment explanation
Indices: 105890445--105890492 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
105890435 AAACATGGGG
105890445 TAAAAATATGTATAATTTACAGTT
1 TAAAAATATGTATAATTTACAGTT
105890469 TAAAAATATGTATAATTTAC-GTT
1 TAAAAATATGTATAATTTACAGTT
105890492 T
1 T
105890493 TATCAACCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
TAAAAATATGTATAATTTACAGTT
Found at i:105912397 original size:18 final size:19
Alignment explanation
Indices: 105912362--105912398 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
105912352 ACCTATCAGA
*
105912362 AGAAAATAAATGAAAAATT
1 AGAAAAAAAATGAAAAATT
105912381 AGAAAAAAAAT-AAAAATT
1 AGAAAAAAAATGAAAAATT
105912399 TAAGTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (19 bp):
AGAAAAAAAATGAAAAATT
Found at i:105929881 original size:29 final size:29
Alignment explanation
Indices: 105929849--105929908 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
105929839 AATTTGACAG
105929849 GTTCGACCACAGGTGTTAGACACGGGCGT
1 GTTCGACCACAGGTGTTAGACACGGGCGT
*
105929878 GTTCGACCACAGGTGTTAGACACGGGTGT
1 GTTCGACCACAGGTGTTAGACACGGGCGT
105929907 GT
1 GT
105929909 CGCACGCCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (29 bp):
GTTCGACCACAGGTGTTAGACACGGGCGT
Found at i:105935945 original size:27 final size:27
Alignment explanation
Indices: 105935910--105935971 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
105935900 ATTCACTAAA
*
105935910 ATACTCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
105935937 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
105935963 ATACCCCTA
1 ATACCCCTA
105935972 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.71
27 7 0.23
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:105936115 original size:27 final size:26
Alignment explanation
Indices: 105936077--105936182 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
105936067 GAGGAAGCGT
105936077 TCTGGTGGCTCTGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCAC-AATATCTAA
**
105936104 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCT-AA
*
105936132 TCTGGTGGTTCTGCCACAATATCTATA
1 TCTGGTGGCTCTGCCACAATATCTA-A
* *
105936159 TCTGGTGACTCTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
105936183 GTTCTGGCAG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 53 0.77
28 16 0.23
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTAA
Found at i:105936183 original size:54 final size:54
Alignment explanation
Indices: 105936075--105936189 Score: 171
Period size: 55 Copynumber: 2.1 Consensus size: 54
105936065 TGGAGGAAGC
*
105936075 GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCACAAATATCT
* *
105936129 GTTTCTGGTGGTTCTGCCAC-AATATCTATATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCTA-ATCTGGTGACTCTGCCACAAATATCT
105936183 GTTCTGG
1 GTTCTGG
105936190 CAGCCAAGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.30
55 33 0.59
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCACAAATATCT
Found at i:105938312 original size:114 final size:114
Alignment explanation
Indices: 105938172--105938410 Score: 424
Period size: 114 Copynumber: 2.1 Consensus size: 114
105938162 CACACTTCAA
* *
105938172 ATCATTTCATGACACAAGAATGAAAATCATAAACTCTTTGCCCAGCGCAAGCTGAACCAGAACTG
1 ATCATATCATGACACAAGAATGAAAATCATAAACTCTTTGCCAAGCGCAAGCTGAACCAGAACTG
105938237 ATGCTTCAGTTGACAATGTCTTCAACTGATTACCACTTTATTAATAATT
66 ATGCTTCAGTTGACAATGTCTTCAACTGATTACCACTTTATTAATAATT
* * * *
105938286 ATCATATCATGACGCATGACTGAAAATCATAAACTCTTTGCCAAGCGCAGGCTGAACCAGAACTG
1 ATCATATCATGACACAAGAATGAAAATCATAAACTCTTTGCCAAGCGCAAGCTGAACCAGAACTG
105938351 ATGCTTCAGTTGACAATGTCTTCAACTGATTACCACTTTATTAATAATT
66 ATGCTTCAGTTGACAATGTCTTCAACTGATTACCACTTTATTAATAATT
105938400 ATCATATCATG
1 ATCATATCATG
105938411 CAGACTTCAC
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 119 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (114 bp):
ATCATATCATGACACAAGAATGAAAATCATAAACTCTTTGCCAAGCGCAAGCTGAACCAGAACTG
ATGCTTCAGTTGACAATGTCTTCAACTGATTACCACTTTATTAATAATT
Found at i:105942111 original size:28 final size:28
Alignment explanation
Indices: 105942071--105942141 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
105942061 GAATCATTCG
*
105942071 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAATGTCATTCTCA
* *
105942099 ATATCTCGTACACTAAATGTCATTCTCA
1 ATATTTCGCACACTAAATGTCATTCTCA
105942127 ATATTTCGCACACTA
1 ATATTTCGCACACTA
105942142 CGTGCCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAATGTCATTCTCA
Found at i:105942229 original size:40 final size:40
Alignment explanation
Indices: 105942185--105942262 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
105942175 TGTACATAGT
* **
105942185 CAAAGCTATCTCAAATTGCACACTAAGTGCCAAATTTAGC
1 CAAAGCTATATCAAACCGCACACTAAGTGCCAAATTTAGC
* *
105942225 CAAAGCTATATCGAACCGCACACTAAGTGCCATATTTA
1 CAAAGCTATATCAAACCGCACACTAAGTGCCAAATTTA
105942263 ACCGATATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (40 bp):
CAAAGCTATATCAAACCGCACACTAAGTGCCAAATTTAGC
Found at i:105960012 original size:23 final size:23
Alignment explanation
Indices: 105959983--105960042 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
105959973 AGGTTATGAG
**
105959983 AAGAGAATGAATTTAGGTTTTAC
1 AAGAGAATGAATTTAGGAATTAC
*
105960006 GAGAGAATGAATTTAGGAATTAC
1 AAGAGAATGAATTTAGGAATTAC
*
105960029 AAAAGAATGAATTT
1 AAGAGAATGAATTT
105960043 GGGAGTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (23 bp):
AAGAGAATGAATTTAGGAATTAC
Found at i:105961585 original size:27 final size:27
Alignment explanation
Indices: 105961555--105961831 Score: 376
Period size: 27 Copynumber: 10.3 Consensus size: 27
105961545 CATAATCATG
** * * *
105961555 ATTTTACCAAACAGGGGTATTACGTTT
1 ATTTTACCCTACAGGGGCATTACGGTC
*
105961582 ATTTTACCCTACAGGAGCATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
*
105961609 ATTTTACCCTACAGGGGCATTACGATC
1 ATTTTACCCTACAGGGGCATTACGGTC
* *
105961636 ATTTTACCCTACAAGGGTATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* *
105961663 ATTTTACCCTATAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* *
105961690 ATTTTACCCTATAGGGGCATTACAGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
*
105961717 ATTTTACCCTACAAGGGCATTA-GGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
* * *
105961743 ATTTTATCCTACATGGGTATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
*
105961770 ATTTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCCTACAGGGGCATTACGGTC
*
105961797 ATTTTACCCTACAGGGGTATTACGGTC
1 ATTTTACCCTACAGGGGCATTACGGTC
105961824 ATTTTACC
1 ATTTTACC
105961832 TTTTTAGGGT
Statistics
Matches: 222, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.10
27 200 0.90
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGCATTACGGTC
Found at i:105969475 original size:25 final size:24
Alignment explanation
Indices: 105969447--105969571 Score: 99
Period size: 25 Copynumber: 5.1 Consensus size: 24
105969437 GAGCTTTCTG
105969447 ATATTTAGCTCACATGAGCTTCCC
1 ATATTTAGCTCACATGAGCTTCCC
**
105969471 AATATTTAGCTTGCATGAGCTTCCC
1 -ATATTTAGCTCACATGAGCTTCCC
* * * * *
105969496 GATACTCAGCTCCCATTACCTTCCC
1 -ATATTTAGCTCACATGAGCTTCCC
*
105969521 GTCATTTAGCTCACATGAGCTTCCC
1 AT-ATTTAGCTCACATGAGCTTCCC
* ** *
105969546 GTATGCAGCTCGA-AGGAGCTTCCC
1 ATATTTAGCTC-ACATGAGCTTCCC
105969570 AT
1 AT
105969572 TTACAGCTCG
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
24 19 0.24
25 60 0.76
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (24 bp):
ATATTTAGCTCACATGAGCTTCCC
Found at i:105970036 original size:15 final size:15
Alignment explanation
Indices: 105970004--105970032 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
105969994 ATTTTCTTTG
105970004 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
105970019 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
105970033 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:105973538 original size:22 final size:22
Alignment explanation
Indices: 105973513--105973556 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
105973503 GGTTGACATG
105973513 TTCTTAAATTGTTATTTGAGGT
1 TTCTTAAATTGTTATTTGAGGT
105973535 TTCTTAAATTGTTATTTGAGGT
1 TTCTTAAATTGTTATTTGAGGT
105973557 GCCTAAGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (22 bp):
TTCTTAAATTGTTATTTGAGGT
Found at i:105979021 original size:21 final size:21
Alignment explanation
Indices: 105978995--105979042 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
105978985 AACTCCCTTC
105978995 GATGTCAC-AACATAACCTAGG
1 GATGTCACGAA-ATAACCTAGG
* *
105979016 GATGTCACGAAATAACTTGGG
1 GATGTCACGAAATAACCTAGG
105979037 GATGTC
1 GATGTC
105979043 GCGATACACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (21 bp):
GATGTCACGAAATAACCTAGG
Found at i:105985550 original size:14 final size:14
Alignment explanation
Indices: 105985531--105985559 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
105985521 ACCAATAGAG
105985531 TTCATACAAACCTC
1 TTCATACAAACCTC
105985545 TTCATACAAACCTC
1 TTCATACAAACCTC
105985559 T
1 T
105985560 ATGAACTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (14 bp):
TTCATACAAACCTC
Found at i:105987560 original size:54 final size:54
Alignment explanation
Indices: 105987478--105987587 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
105987468 CAGATCGCAG
105987478 ATTCAAAACAAAAGAACCTGGAGGACAGATCTATGAAATGTCACTTACCTCACT
1 ATTCAAAACAAAAGAACCTGGAGGACAGATCTATGAAATGTCACTTACCTCACT
*
105987532 ATTCAAAACAAAAGAACCTGGAGGACAGATCTATGAAATGTCACTTACTTCACT
1 ATTCAAAACAAAAGAACCTGGAGGACAGATCTATGAAATGTCACTTACCTCACT
105987586 AT
1 AT
105987588 CACTTCCACG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (54 bp):
ATTCAAAACAAAAGAACCTGGAGGACAGATCTATGAAATGTCACTTACCTCACT
Found at i:105989905 original size:17 final size:17
Alignment explanation
Indices: 105989885--105989918 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
105989875 TATATTACTA
105989885 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
105989902 TTATTATCATATATTTT
1 TTATTATCATATATTTT
105989919 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:105989955 original size:14 final size:14
Alignment explanation
Indices: 105989900--105989974 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
105989890 ATCCATTATT
*
105989900 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
105989915 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
105989931 TATTATATTATATA
1 TTTTATTTTATATA
105989945 TTTTATTTTATATA
1 TTTTATTTTATATA
*
105989959 -TTT-CTTTATATA
1 TTTTATTTTATATA
105989971 TTTT
1 TTTT
105989975 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:105989966 original size:12 final size:11
Alignment explanation
Indices: 105989950--105989979 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
105989940 ATATATTTTA
105989950 TTTTATATATT
1 TTTTATATATT
105989961 TCTTTATATATT
1 T-TTTATATATT
105989973 TTTTATA
1 TTTTATA
105989980 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:105989997 original size:20 final size:21
Alignment explanation
Indices: 105989969--105990008 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
105989959 TTTCTTTATA
*
105989969 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
105989989 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
105990009 AATGGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:105990350 original size:18 final size:18
Alignment explanation
Indices: 105990324--105990364 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
105990314 TACCATATTA
*
105990324 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
105990342 TATTACATACTATATTTT
1 TATTACATACTATATTTT
105990360 TATTA
1 TATTA
105990365 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:105990442 original size:24 final size:22
Alignment explanation
Indices: 105990399--105990445 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
105990389 CTTTCTCATA
105990399 TATTTTTTTATTATATATTATT
1 TATTTTTTTATTATATATTATT
105990421 TATTTTGTTT-TTATACTAATTATT
1 TATTTT-TTTATTATA-T-ATTATT
105990445 T
1 T
105990446 TACCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTTTTATTATATATTATT
Found at i:105990498 original size:21 final size:22
Alignment explanation
Indices: 105990472--105990532 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
105990462 GCAAAATACT
105990472 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
105990493 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
105990515 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
105990533 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:105992260 original size:57 final size:56
Alignment explanation
Indices: 105992175--105992283 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 56
105992165 TGTTCCATTC
*
105992175 CCCTCCCATCCCTCTCCCTCTTCCCCACCATCCCTCCCCCTACTCTGATTCTCTCT
1 CCCTCCCATCCCTCTCCCTCTTCCCCACCATCCCTCACCCTACTCTGATTCTCTCT
* **
105992231 CCCTCTCA-CCCTCTCCCTCTCTTCCCCACCATCCCTCATTCTACTCTGATTCT
1 CCCTCCCATCCCTCT-CC-CTCTTCCCCACCATCCCTCACCCTACTCTGATTCT
105992284 TTCTTTCTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
55 6 0.13
56 9 0.19
57 32 0.68
ACGTcount: A:0.10, C:0.56, G:0.02, T:0.32
Consensus pattern (56 bp):
CCCTCCCATCCCTCTCCCTCTTCCCCACCATCCCTCACCCTACTCTGATTCTCTCT
Found at i:105996174 original size:32 final size:32
Alignment explanation
Indices: 105996133--105996204 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
105996123 AACTCTGTTA
105996133 CAATCTCCATTCATTATGCTACTTTGATTCAC
1 CAATCTCCATTCATTATGCTACTTTGATTCAC
*
105996165 CAATCTCCATTCATTATGCTATTTTGATTCAC
1 CAATCTCCATTCATTATGCTACTTTGATTCAC
105996197 C-ATCTCCA
1 CAATCTCCA
105996205 GAGGGTTAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.40
Consensus pattern (32 bp):
CAATCTCCATTCATTATGCTACTTTGATTCAC
Found at i:106000805 original size:39 final size:36
Alignment explanation
Indices: 106000750--106000824 Score: 123
Period size: 39 Copynumber: 2.0 Consensus size: 36
106000740 CCTAGAAAAG
106000750 AAATAAAAAAAATAGAATTAAAAGTTTTGATCTGGAA
1 AAATAAAAAAAATAGAATTAAAAGTTTTGATC-GGAA
106000787 AAATAAAATAAAAATAGAATTAAAAGTTTTGATCGGAA
1 AAAT-AAA-AAAAATAGAATTAAAAGTTTTGATCGGAA
106000825 TTTTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 4 0.11
38 7 0.19
39 25 0.69
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (36 bp):
AAATAAAAAAAATAGAATTAAAAGTTTTGATCGGAA
Found at i:106001556 original size:10 final size:10
Alignment explanation
Indices: 106001529--106001578 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
106001519 TTAAATTCTA
106001529 AAAGATAAAT
1 AAAGATAAAT
*
106001539 ATAA-ATAATT
1 A-AAGATAAAT
106001549 AAAGATAAAT
1 AAAGATAAAT
106001559 AAAGATAAAT
1 AAAGATAAAT
*
106001569 AAAAATAAAT
1 AAAGATAAAT
106001579 CCTAAAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:106003322 original size:18 final size:19
Alignment explanation
Indices: 106003299--106003334 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
106003289 TACAAATATA
106003299 TATAAATT-ATAAAGAAAT
1 TATAAATTGATAAAGAAAT
*
106003317 TATAAATTGTTAAAGAAA
1 TATAAATTGATAAAGAAA
106003335 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
TATAAATTGATAAAGAAAT
Found at i:106004930 original size:139 final size:139
Alignment explanation
Indices: 106004741--106005019 Score: 452
Period size: 139 Copynumber: 2.0 Consensus size: 139
106004731 TGTGTTGATG
* * *
106004741 CATTTTAATTTTAACCAGCTTTCAACCATGTCTATGAGTATTTACCCATGGGAAATGGGGAAAGC
1 CATTTTAATTTTAACCAGCTTACAACCATGTCTACGAGTATTTACCCATGGGAAATCGGGAAAGC
*
106004806 GTCTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTCGCG
66 ATCTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTCGCG
106004871 CCTTTTCTT
131 CCTTTTCTT
* * * *
106004880 CATTTTAATTTTAATCAG-TGTACAACCATGTCTACGTGTTTTTATCCATGGGAAATCGGGAAAG
1 CATTTTAATTTTAACCAGCT-TACAACCATGTCTACGAGTATTTACCCATGGGAAATCGGGAAAG
* *
106004944 CATCTTGTTTCTGTGCATGCATGTTAGTGATGTGCTAAATGAATGCTACAATTTTCCAAAGTTGC
65 CATCTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTCGC
106005009 GCCTTTTCTT
130 GCCTTTTCTT
106005019 C
1 C
106005020 TTCATTTAGG
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
138 1 0.01
139 128 0.99
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (139 bp):
CATTTTAATTTTAACCAGCTTACAACCATGTCTACGAGTATTTACCCATGGGAAATCGGGAAAGC
ATCTTGTTTCTGTGCATGCATGTTAGCGATGTGCTAAATGAATGCTACAATTTTCCAAAGTCGCG
CCTTTTCTT
Found at i:106006512 original size:11 final size:10
Alignment explanation
Indices: 106006492--106006553 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
106006482 TATAAAAACT
106006492 AAAAATTCTA
1 AAAAATTCTA
106006502 AAAACATTCTA
1 AAAA-ATTCTA
* *
106006513 AAGAA-TATA
1 AAAAATTCTA
*
106006522 AAAAA-GCTA
1 AAAAATTCTA
*
106006531 AAAAATTTTA
1 AAAAATTCTA
*
106006541 AAAACTTCTA
1 AAAAATTCTA
106006551 AAA
1 AAA
106006554 TAATAATTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
9 14 0.34
10 18 0.44
11 9 0.22
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:106006550 original size:38 final size:36
Alignment explanation
Indices: 106006480--106006552 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 36
106006470 ATTTTTTTAA
106006480 AATATAAAAACTAAAAATTCTAAAAACATTCTAAAG
1 AATATAAAAACTAAAAATTCTAAAAACATTCTAAAG
*
106006516 AATATAAAAAAGCTAAAAAATTTTAAAAAC-TTCTAAA
1 AATAT-AAAAA-CT-AAAAATTCTAAAAACATTCTAAA
106006553 ATAATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 5 0.15
37 5 0.15
38 9 0.27
39 14 0.42
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (36 bp):
AATATAAAAACTAAAAATTCTAAAAACATTCTAAAG
Found at i:106006745 original size:16 final size:16
Alignment explanation
Indices: 106006704--106006745 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
106006694 AACTCAAACA
106006704 ATTTCACTCG-ATTCC
1 ATTTCACTCGAATTCC
* * *
106006719 ACTTGACTCGAATTTC
1 ATTTCACTCGAATTCC
106006735 ATTTCACTCGA
1 ATTTCACTCGA
106006746 TTCGATCTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTTCACTCGAATTCC
Found at i:106009674 original size:14 final size:14
Alignment explanation
Indices: 106009652--106009706 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
106009642 AACATAATAG
*
106009652 ATTAATAAATATTT
1 ATTATTAAATATTT
106009666 ATTATTAAATATTT
1 ATTATTAAATATTT
*
106009680 ATAAATTGCAATATATTT
1 AT-TATT--AA-ATATTT
106009698 ATTATTAAA
1 ATTATTAAA
106009707 ATAGTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 16 0.47
15 5 0.15
17 5 0.15
18 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTATTAAATATTT
Found at i:106009770 original size:19 final size:19
Alignment explanation
Indices: 106009742--106009789 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
106009732 ATATTAAGAA
106009742 TATTATTTAATATTTAAAAT
1 TATTA-TTAATATTTAAAAT
* * *
106009762 TGTTATTAATGTTTAAATT
1 TATTATTAATATTTAAAAT
106009781 TATTATTAA
1 TATTATTAA
106009790 AATAAAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTAAAAT
Found at i:106016619 original size:3 final size:3
Alignment explanation
Indices: 106016611--106016641 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
106016601 TACTGTTTGT
106016611 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
106016642 TTAATTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:106023450 original size:20 final size:21
Alignment explanation
Indices: 106023412--106023450 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
106023402 TTTTTTTTTA
**
106023412 AAAAAGATAAATTTTAAATAT
1 AAAAAGATAAATTACAAATAT
106023433 AAAAA-ATAAATTACAAAT
1 AAAAAGATAAATTACAAAT
106023451 TATGTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAGATAAATTACAAATAT
Found at i:106026573 original size:19 final size:19
Alignment explanation
Indices: 106026549--106026592 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
106026539 CAATAATATG
*
106026549 TCACATATATTTATTAATT
1 TCACATATATCTATTAATT
106026568 TCACATATATCTATTAATT
1 TCACATATATCTATTAATT
*
106026587 TGACAT
1 TCACAT
106026593 GATAATCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (19 bp):
TCACATATATCTATTAATT
Found at i:106033655 original size:35 final size:35
Alignment explanation
Indices: 106033586--106033654 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
106033576 AAGGGAGGAG
106033586 TGATGAAAAAAAAAATTGTCTCATCCATGCCCCCC
1 TGATGAAAAAAAAAATTGTCTCATCCATGCCCCCC
106033621 TGATG-AAAAAAAAATTGTCTCATCCATGCCCCCC
1 TGATGAAAAAAAAAATTGTCTCATCCATGCCCCCC
106033655 CATTGCCGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 29 0.85
35 5 0.15
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (35 bp):
TGATGAAAAAAAAAATTGTCTCATCCATGCCCCCC
Found at i:106035136 original size:40 final size:40
Alignment explanation
Indices: 106035077--106035294 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
106035067 TGGATGATAA
* * *
106035077 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
106035117 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
106035157 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
106035197 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
106035237 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
106035277 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
106035295 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:106055120 original size:8 final size:8
Alignment explanation
Indices: 106055081--106055111 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
106055071 ATTTAAGTAA
106055081 ATATTATT
1 ATATTATT
106055089 ATATTATT
1 ATATTATT
106055097 ATATTATT
1 ATATTATT
106055105 ATATTAT
1 ATATTAT
106055112 ATTAGTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:106055896 original size:26 final size:26
Alignment explanation
Indices: 106055867--106055919 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
106055857 GAACTGAAAG
106055867 TATGTGATTTTGTGATAGTTGAATAT
1 TATGTGATTTTGTGATAGTTGAATAT
106055893 TATGTGATTTTGTGATAGTTGAATAT
1 TATGTGATTTTGTGATAGTTGAATAT
106055919 T
1 T
106055920 GGATGAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (26 bp):
TATGTGATTTTGTGATAGTTGAATAT
Found at i:106060812 original size:20 final size:20
Alignment explanation
Indices: 106060787--106060832 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
106060777 TTTATTTGAC
106060787 TTAGTCTAATTTATTACAAT
1 TTAGTCTAATTTATTACAAT
106060807 TTAGTCTAATTTATTACAAT
1 TTAGTCTAATTTATTACAAT
106060827 TTAGTC
1 TTAGTC
106060833 ATTGGTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (20 bp):
TTAGTCTAATTTATTACAAT
Found at i:106062871 original size:34 final size:34
Alignment explanation
Indices: 106062831--106062919 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
106062821 ATGTTAGTTA
*
106062831 TTAATTGAGTTGCTAGAATAAATGCTTATCTTAG
1 TTAATTGAGTTGCTAGAATAAATGCGTATCTTAG
* *
106062865 TTAATTGAATAGCTAGAATAAATGCGTATCTTAG
1 TTAATTGAGTTGCTAGAATAAATGCGTATCTTAG
*
106062899 TTAATTTAGTTGCTAGAATAA
1 TTAATTGAGTTGCTAGAATAA
106062920 TTTATTGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (34 bp):
TTAATTGAGTTGCTAGAATAAATGCGTATCTTAG
Found at i:106065033 original size:15 final size:17
Alignment explanation
Indices: 106065015--106065082 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
106065005 AAATCAAGAG
106065015 AAGAAAAAGAGA-TG-A
1 AAGAAAAAGAGATTGAA
*
106065030 AAGAAAAAGAAATTGAA
1 AAGAAAAAGAGATTGAA
*
106065047 AAGGAAAAAGAGAATGAGA
1 AA-GAAAAAGAGATTGA-A
106065066 GAGAGAAAAA-AGATTGA
1 -A-AGAAAAAGAGATTGA
106065083 GATTGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 11 0.26
16 2 0.05
17 3 0.07
18 12 0.28
19 7 0.16
20 7 0.16
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAGATTGAA
Found at i:106069134 original size:46 final size:45
Alignment explanation
Indices: 106069081--106069254 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
106069071 GTTGTTGTTG
106069081 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGA
106069127 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GACGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-GA
* *
106069173 GAACTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACTTA-A
1 G--CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTA-TGAGA
*
106069221 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
106069255 TACGAGATGA
Statistics
Matches: 113, Mismatches: 3, Indels: 24
0.81 0.02 0.17
Matches are distributed among these distances:
45 6 0.05
46 55 0.49
47 28 0.25
48 21 0.19
49 1 0.01
50 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGA
Found at i:106069261 original size:46 final size:46
Alignment explanation
Indices: 106069084--106069349 Score: 256
Period size: 47 Copynumber: 5.7 Consensus size: 46
106069074 GTTGTTGGCT
* * *
106069084 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCC
* * * *
106069130 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGACGAGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCC
*
106069178 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA-TGAGAGCC
* *
106069224 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
* * * *
106069270 AGTGTAAGGCCCTGTCTGGGACATGACATCGACT-TGAGAT-ATGAGCC
1 AGTGTAA-GACATGTCTGGGACATG-CATCGGCTACGAGATGA-GAGCC
*
106069317 AGTGTAAGACAATGTTTGGGACATGGCATCGGC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
106069350 ACCTTACCTA
Statistics
Matches: 185, Mismatches: 21, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
45 4 0.02
46 70 0.38
47 78 0.42
48 32 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
Found at i:106069337 original size:140 final size:141
Alignment explanation
Indices: 106069084--106069349 Score: 362
Period size: 140 Copynumber: 1.9 Consensus size: 141
106069074 GTTGTTGGCT
*
106069084 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* * *
106069149 GACATGGCATCGGCATTGAGACGAGAACTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGACATCGACATTGAGACGAGAACCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
106069213 AGACTTAAGCC
131 AGACTTAAGCC
* * * *
106069224 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAG-TCAGTGTAAGGCCCTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCT-AGTGTAAGACCATGTCT
* * *
106069287 GGGACATGACATCGAC-TTGAGA-TATGAGCCAGTGTAAGACAATGTTTGGGACATGGCATCGGC
64 GGGACATGACATCGACATTGAGACGA-GAACCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
106069350 ACCTTACCTA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 20 0.18
140 80 0.73
141 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGACATCGACATTGAGACGAGAACCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACTTAAGCC
Found at i:106076866 original size:47 final size:46
Alignment explanation
Indices: 106076759--106077024 Score: 254
Period size: 47 Copynumber: 5.7 Consensus size: 46
106076749 GTTGATGGTT
* *** * *
106076759 AGTGTAAGACATGTCTGAGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCTTGA-GACGAGAGCC
* *
106076805 AGTGTAAGACCATGTCTGGGGCATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TTGAGACGAGAGCC
* *
106076853 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTTGAGAC-GAGAGCC
* * * * * *
106076899 AGTGTAAGACATGTCTGGAACAT-GCATCAGCTATGAAATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCT-TGAGACGAGAGCC
* *
106076945 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTTGAGACGA-GAGCC
106076992 AGTGTAAGACAATGTCTGGGACATGGCATCGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
106077025 GCCTTACACG
Statistics
Matches: 182, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 70 0.38
47 77 0.42
48 31 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTTGAGACGAGAGCC
Found at i:106077011 original size:140 final size:141
Alignment explanation
Indices: 106076759--106077024 Score: 371
Period size: 140 Copynumber: 1.9 Consensus size: 141
106076749 GTTGATGGTT
* *
106076759 AGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGAGACATGCATCAGCCACATAATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
106076824 GGCATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
106076888 AGACTTAAGCC
131 AGACTTAAGCC
* * * *
106076899 AGTGTAAGACATGTCTG-GAACATGCATCAGCTATGA-AATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGAG-ACATGCATCAGCCA-CATAATGAGAGCCAGTGTAAGACCATGTCT
*
106076962 GGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGGC
64 GGGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
106077025 GCCTTACACG
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 21 0.19
140 80 0.72
141 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCCACATAATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACTTAAGCC
Found at i:106087031 original size:20 final size:21
Alignment explanation
Indices: 106086992--106087032 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
106086982 TTGAAATAGT
**
106086992 ATGTTTAAGTGCGTTTGAATG
1 ATGTTTAAGTGCCCTTGAATG
106087013 ATGTTTAAGT-CCCTTGAATG
1 ATGTTTAAGTGCCCTTGAATG
106087033 TGTGCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (21 bp):
ATGTTTAAGTGCCCTTGAATG
Found at i:106093044 original size:68 final size:68
Alignment explanation
Indices: 106092972--106093178 Score: 238
Period size: 68 Copynumber: 3.0 Consensus size: 68
106092962 ATTTAACATT
* * *
106092972 TTGGCGAACTCTATTGGTTGTCTTAGCCAAACTATGGTCTTACACCTTGTAACCTTATGTTTAAT
1 TTGGCGAACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGTAACCTCATGTTTAAT
106093037 GTC
66 GTC
* * * *
106093040 TTGGC-AGACTCTATTGGTTGTAATAGCCAAGCTATGGTATTACATCTTGTAACCTCATATTTAA
1 TTGGCGA-ACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGTAACCTCATGTTTAA
106093104 TGTC
65 TGTC
* *** * * * * *
106093108 CTAATGAACTCCATTAGTT-TCCATAGCCGAGCTCTGGTCTTACACCTTGTAACCCCATGTTTAA
1 TTGGCGAACTCTATTGGTTGT-CATAGCCAAGCTATGGTCTTACACCTTGTAACCTCATGTTTAA
106093172 TGTC
65 TGTC
106093176 TTG
1 TTG
106093179 ACAGACTTTA
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
67 2 0.02
68 111 0.97
69 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (68 bp):
TTGGCGAACTCTATTGGTTGTCATAGCCAAGCTATGGTCTTACACCTTGTAACCTCATGTTTAAT
GTC
Found at i:106094594 original size:188 final size:188
Alignment explanation
Indices: 106094277--106094656 Score: 733
Period size: 188 Copynumber: 2.0 Consensus size: 188
106094267 ATTGAGATCC
106094277 AACTAATCTAAACTCAGCCACTAAAATCTCTGAATTTCCCGGTGGAGTCTGAAAATTCACCAACC
1 AACTAATCTAAACTCAGCCACTAAAATCTCTGAATTTCCCGGTGGAGTCTGAAAATTCACCAACC
106094342 CATGCAATTTCACCCAAACTTTCCTTAAATTTCAAGTCAAAGAAAATATTTAAGTGTTACAACTG
66 CATGCAATTTCACCCAAACTTTCCTTAAATTTCAAGTCAAAGAAAATATTTAAGTGTTACAACTG
*
106094407 AGCATCCTATATGCTTAGCTTTTTTGTTTTCTTTCCCTTGTAGATCATTACCTTGCGA
131 AGCATCCTATATGCTTAGCTTTTTTGTTTTCTTTCCCTTGTAGATCAGTACCTTGCGA
106094465 AACTAATCTAAACTCAGCCACTAAAATCTCTGAATTTCCCGGTGGAGTCTGAAAATTCACCAACC
1 AACTAATCTAAACTCAGCCACTAAAATCTCTGAATTTCCCGGTGGAGTCTGAAAATTCACCAACC
* *
106094530 CATGCAATTTCATCCAAACTTTCCTTAAATTTCAGGTCAAAGAAAATATTTAAGTGTTACAACTG
66 CATGCAATTTCACCCAAACTTTCCTTAAATTTCAAGTCAAAGAAAATATTTAAGTGTTACAACTG
106094595 AGCATCCTATATGCTTAGCTTTTTTGTTTTCTTTCCCTTGTAGATCAGTACCTTGCGA
131 AGCATCCTATATGCTTAGCTTTTTTGTTTTCTTTCCCTTGTAGATCAGTACCTTGCGA
106094653 AACT
1 AACT
106094657 CATCAAGTCG
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (188 bp):
AACTAATCTAAACTCAGCCACTAAAATCTCTGAATTTCCCGGTGGAGTCTGAAAATTCACCAACC
CATGCAATTTCACCCAAACTTTCCTTAAATTTCAAGTCAAAGAAAATATTTAAGTGTTACAACTG
AGCATCCTATATGCTTAGCTTTTTTGTTTTCTTTCCCTTGTAGATCAGTACCTTGCGA
Found at i:106097992 original size:21 final size:21
Alignment explanation
Indices: 106097946--106098020 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 21
106097936 TTAATTTATT
*
106097946 AAATT-TTAATTTTTATAGAC
1 AAATTATTAATTTTTATATAC
*
106097966 -ATTTATTAATTTTTATATAC
1 AAATTATTAATTTTTATATAC
106097986 AAATTATTGAATTGTTTA-ATA-
1 AAATTATT-AATT-TTTATATAC
*
106098007 ATATTACTTAATTT
1 AAATTA-TTAATTT
106098021 AATTAGAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
19 3 0.07
20 15 0.33
21 15 0.33
22 9 0.20
23 4 0.09
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTATTAATTTTTATATAC
Found at i:106103449 original size:16 final size:16
Alignment explanation
Indices: 106103428--106103477 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
106103418 ATATTTAATT
106103428 ATATAATAAATTATTA
1 ATATAATAAATTATTA
106103444 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
106103457 TTGTAATAAATTATTTA
1 ATATAATAAATTA-TTA
106103474 ATAT
1 ATAT
106103478 TTTGATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:106106264 original size:29 final size:30
Alignment explanation
Indices: 106106230--106106311 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
106106220 TTGAAAATTC
106106230 AAAAAATTATA-AAAACTATTTTAAAAAAT
1 AAAAAATTATATAAAACTATTTTAAAAAAT
* * *
106106259 AAAAAATCA-ATAAAATTATTTTAAAAATT
1 AAAAAATTATATAAAACTATTTTAAAAAAT
*
106106288 ATAAAAATATATATTAAA-TATTTT
1 A-AAAAAT-TATATAAAACTATTTT
106106312 TAAATTCTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.57
30 6 0.14
31 7 0.16
32 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAAATTATATAAAACTATTTTAAAAAAT
Found at i:106108450 original size:46 final size:46
Alignment explanation
Indices: 106108400--106108575 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
106108390 TGGTTGAGCA
*
106108400 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106108446 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
106108491 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106108539 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
106108576 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.