Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 99 of 279
Found at i:31943859 original size:12 final size:11
Alignment explanation
Indices: 31943823--31943953 Score: 94
Period size: 12 Copynumber: 12.0 Consensus size: 11
31943813 AATACGATTT
31943823 TATAAAA-ATA
1 TATAAAATATA
*
31943833 TATAAAGAAATA
1 TATAAA-ATATA
31943845 TATAAAATATAA
1 TATAAAATAT-A
*
31943857 TATATAATATAA
1 TATAAAATAT-A
**
31943869 TATAATTTATA
1 TATAAAATATA
*
31943880 GATAAAATATA
1 TATAAAATATA
31943891 TAATAAAATATA
1 T-ATAAAATATA
* *
31943903 TA-ACTAATATT
1 TATA-AAATATA
31943914 TATAAAA-ATA
1 TATAAAATATA
*
31943924 TATAAAGTAT-
1 TATAAAATATA
*
31943934 T-TAAAATAAA
1 TATAAAATATA
31943944 T-TAAAATATA
1 TATAAAATATA
31943954 AAAAGGATTA
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
9 6 0.06
10 25 0.26
11 25 0.26
12 40 0.42
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (11 bp):
TATAAAATATA
Found at i:31943911 original size:23 final size:23
Alignment explanation
Indices: 31943885--31943928 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31943875 TTATAGATAA
31943885 AATATATAAT-AAAATATATAACT
1 AATAT-TAATAAAAATATATAACT
*
31943908 AATATTTATAAAAATATATAA
1 AATATTAATAAAAATATATAA
31943929 AGTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATTAATAAAAATATATAACT
Found at i:31943934 original size:21 final size:22
Alignment explanation
Indices: 31943895--31943936 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
31943885 AATATATAAT
31943895 AAAATATATAACTAATATTTATA
1 AAAATATATAAC-AATATTTATA
*
31943918 AAAATATATAA-AGTATTTA
1 AAAATATATAACAATATTTA
31943937 AAATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATATATAACAATATTTATA
Found at i:31949784 original size:21 final size:21
Alignment explanation
Indices: 31949758--31949797 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31949748 AGACAAGCGA
* *
31949758 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
31949779 TACTCCAAAACAGGTGGAG
1 TACTCCAAAACAGGTGGAG
31949798 ATTGAGCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:31951936 original size:60 final size:60
Alignment explanation
Indices: 31951843--31951965 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 60
31951833 AGGCCATTTG
31951843 CAAGTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTCAACCATCC
1 CAAGTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTCAACCATCC
* *** *
31951903 CAAGTTAGTCCCTGAACTTCAACTATAAATAGGCCTTTTCATTTTTCATTTCAACCATCC
1 CAAGTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTCAACCATCC
31951963 CAA
1 CAA
31951966 CCAAACTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (60 bp):
CAAGTTAGTCCCTGAACCTCAACTATAAATAGGCCTAACCATTTCTCATTTCAACCATCC
Found at i:31955632 original size:43 final size:43
Alignment explanation
Indices: 31955579--31955867 Score: 267
Period size: 43 Copynumber: 6.6 Consensus size: 43
31955569 ACTTTTAGCA
* * ** *
31955579 AAAGAGTCGCTAAAAGTCATGTTCTTTAATGATGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * *
31955622 AAAGCGTCGCTAAAGATCATGTTCTTTAGCGGTTTTTGTAGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * *
31955665 ATAGCATTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * * *
31955708 AAAGTG-CAGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAGGA
1 AAAGCGTC-GCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* *
31955751 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGTGTTTGTGGGG
1 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
* * * *
31955794 AAAATGCCTCTGCCACTAAACGTCATGTTATTTAGCTGG-GTTTGTGGGA
1 -AAA-GCGTC-G---CTAAAGGTCATGTTCTTTAGC-GGTGTTTGTGGGG
* *
31955843 AAAACATCGCTAAAGGTCATGTTCT
1 AAAGCGTCGCTAAAGGTCATGTTCT
31955868 ATAGAGCCAC
Statistics
Matches: 199, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
43 155 0.78
44 4 0.02
45 3 0.02
46 2 0.01
47 3 0.02
48 3 0.02
49 27 0.14
50 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGG
Found at i:31957653 original size:43 final size:43
Alignment explanation
Indices: 31957573--31957679 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
31957563 ATTTATCTAA
* * * *
31957573 AAAAATGCTGCTAAAGGTCATGACCTTTAGTGGCGC-TTCCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
* *
31957615 TAAAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTCCC
1 -AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
* *
31957659 ACAAACGCCACTAAAGGTCAT
1 AAAAACGCCGCTAAAGGTCAT
31957680 AAAATTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 49 0.91
44 5 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCC
Found at i:31957708 original size:10 final size:10
Alignment explanation
Indices: 31957695--31957765 Score: 58
Period size: 10 Copynumber: 7.0 Consensus size: 10
31957685 TTTAAAAAAA
31957695 ATAAAATATT
1 ATAAAATATT
31957705 ATAAAATATT
1 ATAAAATATT
*
31957715 ATAAAAGTAAT
1 ATAAAA-TATT
*
31957726 AAAAAAT-TT
1 ATAAAATATT
*
31957735 A-AAAAAATT
1 ATAAAATATT
31957744 -TAAAATTCATT
1 ATAAAA-T-ATT
31957755 ATCAAAATATT
1 AT-AAAATATT
31957766 GAGAAAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
8 4 0.08
9 8 0.16
10 17 0.35
11 14 0.29
12 2 0.04
13 4 0.08
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:31957728 original size:29 final size:27
Alignment explanation
Indices: 31957678--31957748 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
31957668 ACTAAAGGTC
*
31957678 ATAAAATTTTAAAAAAAATAAAATATT
1 ATAAAATTTTAAAAAAAATAAAAAATT
**
31957705 ATAAAATATTATAAAAGTAATAAAAAATTT
1 ATAAAAT-TT-TAAAAAAAATAAAAAA-TT
* *
31957735 AAAAAAATTTAAAA
1 ATAAAATTTTAAAA
31957749 TTCATTATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.19
28 7 0.19
29 15 0.42
30 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (27 bp):
ATAAAATTTTAAAAAAAATAAAAAATT
Found at i:31959334 original size:7 final size:7
Alignment explanation
Indices: 31959322--31959349 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
31959312 AATTCTATTG
31959322 TGAGTTA
1 TGAGTTA
31959329 TGAGTTA
1 TGAGTTA
31959336 TGAGTTA
1 TGAGTTA
31959343 TGAGTTA
1 TGAGTTA
31959350 AGGCACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
TGAGTTA
Found at i:31962644 original size:7 final size:7
Alignment explanation
Indices: 31962632--31962745 Score: 63
Period size: 7 Copynumber: 16.1 Consensus size: 7
31962622 ACTAATTAAT
31962632 CTAAACC
1 CTAAACC
31962639 CTAAACC
1 CTAAACC
*
31962646 TCTAATCC
1 -CTAAACC
*
31962654 CT-ATCC
1 CTAAACC
* **
31962660 TATAAATA
1 -CTAAACC
31962668 CTAAACC
1 CTAAACC
*
31962675 CTAAACT
1 CTAAACC
*
31962682 CTTAACC
1 CTAAACC
31962689 CTAAACCC
1 CTAAA-CC
* *
31962697 CTACACT
1 CTAAACC
*
31962704 TTAAACTC
1 CTAAAC-C
31962712 C--AACC
1 CTAAACC
31962717 CTAAACC
1 CTAAACC
31962724 CTAAACC
1 CTAAACC
* *
31962731 ATAATCC
1 CTAAACC
31962738 CTAAACC
1 CTAAACC
31962745 C
1 C
31962746 ATAATTCATC
Statistics
Matches: 78, Mismatches: 22, Indels: 14
0.68 0.19 0.12
Matches are distributed among these distances:
5 2 0.03
6 7 0.09
7 56 0.72
8 13 0.17
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:31962739 original size:14 final size:15
Alignment explanation
Indices: 31962713--31962750 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
31962703 TTTAAACTCC
*
31962713 AACCC-TAAACCCTA
1 AACCCATAATCCCTA
31962727 AA-CCATAATCCCTA
1 AACCCATAATCCCTA
31962741 AACCCATAAT
1 AACCCATAAT
31962751 TCATCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 12 0.57
15 7 0.33
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCCTA
Found at i:31963072 original size:7 final size:7
Alignment explanation
Indices: 31962988--31963120 Score: 72
Period size: 7 Copynumber: 19.0 Consensus size: 7
31962978 ATCTAAATCA
31962988 TAAACTCC
1 TAAAC-CC
*
31962996 TAATCCC
1 TAAACCC
*
31963003 TAATCCC
1 TAAACCC
* *
31963010 TAATCTC
1 TAAACCC
*
31963017 TAATCCC
1 TAAACCC
*
31963024 TAAACCA
1 TAAACCC
*
31963031 TAAACCT
1 TAAACCC
*
31963038 TAAATCC
1 TAAACCC
* *
31963045 TAAAACA
1 TAAACCC
*
31963052 TAAACCT
1 TAAACCC
*
31963059 TTAACCC
1 TAAACCC
31963066 TAAACCCC
1 TAAA-CCC
*
31963074 T-ACCCC
1 TAAACCC
**
31963080 TAAACTT
1 TAAACCC
31963087 TAAACCC
1 TAAACCC
*
31963094 -CAACCC
1 TAAACCC
*
31963100 TAAACCG
1 TAAACCC
*
31963107 TAATCCC
1 TAAACCC
31963114 TAAACCC
1 TAAACCC
31963121 ATATTCCATA
Statistics
Matches: 95, Mismatches: 27, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
6 9 0.09
7 78 0.82
8 8 0.08
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:31963102 original size:20 final size:21
Alignment explanation
Indices: 31963066--31963104 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31963056 CCTTTAACCC
*
31963066 TAAACCCCTACCCCTAAACTT
1 TAAACCCCTAACCCTAAACTT
31963087 TAAACCCC-AACCCTAAAC
1 TAAACCCCTAACCCTAAAC
31963105 CGTAATCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACCCCTAACCCTAAACTT
Found at i:31967506 original size:26 final size:26
Alignment explanation
Indices: 31967475--31967582 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
31967465 TGAAATTCCC
*
31967475 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
31967501 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
31967527 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
31967553 GTCATGGAACATTTGCCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31967579 ATCA
1 ATCA
31967583 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31967755 original size:10 final size:10
Alignment explanation
Indices: 31967740--31967767 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31967730 TAACCTATAG
31967740 CATTTTCAAA
1 CATTTTCAAA
31967750 CATTTTCAAA
1 CATTTTCAAA
31967760 CATTTTCA
1 CATTTTCA
31967768 CATAGGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (10 bp):
CATTTTCAAA
Found at i:31969149 original size:45 final size:44
Alignment explanation
Indices: 31969080--31969169 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
31969070 TAGACATTTC
31969080 CCTACAAACTCCGTTACTTCTCGTTTAAGTCCAGGCCACCAGTA
1 CCTACAAACTCCGTTACTTCTCGTTTAAGTCCAGGCCACCAGTA
* *
31969124 CNCTACAAACTCTGTTACTTGTCGTTTAAGTCCAGGCCACCAGTA
1 C-CTACAAACTCCGTTACTTCTCGTTTAAGTCCAGGCCACCAGTA
31969169 C
1 C
31969170 AATTCTCGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.28
Consensus pattern (44 bp):
CCTACAAACTCCGTTACTTCTCGTTTAAGTCCAGGCCACCAGTA
Found at i:31972833 original size:64 final size:64
Alignment explanation
Indices: 31972760--31972970 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
31972750 CTGGGCCAGA
*
31972760 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** * *
31972824 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTATCAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
31972886 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
31972897 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
31972961 GCCCATTTCA
1 GCCCATTTCA
31972971 AAATACATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 34
0.62 0.18 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 10 0.10
68 5 0.05
69 5 0.05
70 10 0.10
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:31972972 original size:137 final size:137
Alignment explanation
Indices: 31972726--31973149 Score: 776
Period size: 137 Copynumber: 3.1 Consensus size: 137
31972716 CATTGGGCCT
** *
31972726 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
31972791 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
31972856 CATATGC
131 CATATGC
31972863 AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
31972928 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
31972993 CATATGC
131 CATATGC
31973000 AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
** ** *
31973065 AGCCCCTTATTCAGATAACAGTATGGCCCATAGTTCCATTTGGAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
31973130 CATATGC
131 CATATGC
31973137 AAGCCCATTTGGG
1 AAGCCCATTTGGG
31973150 GAGACTACTC
Statistics
Matches: 279, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 279 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTATCAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:31974305 original size:26 final size:26
Alignment explanation
Indices: 31974269--31974375 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
31974259 GAAATTCCCG
*
31974269 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
31974295 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* * *
31974321 TCATGGAATATTTACCTAATCCATTG
1 TCATGGAACATTTACCTAACCCATTA
31974347 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
31974373 TCA
1 TCA
31974376 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:31974548 original size:10 final size:10
Alignment explanation
Indices: 31974533--31974560 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31974523 TAGCCTATAG
31974533 CATTTTCAAA
1 CATTTTCAAA
31974543 CATTTTCAAA
1 CATTTTCAAA
31974553 CATTTTCA
1 CATTTTCA
31974561 CATAGGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (10 bp):
CATTTTCAAA
Found at i:31974847 original size:18 final size:18
Alignment explanation
Indices: 31974824--31974885 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
31974814 TTATTGTCGA
31974824 AAAATATATAAATATTAT
1 AAAATATATAAATATTAT
* * * *
31974842 AAAATA-ATTATTTTGTACGA
1 AAAATATATAAATAT-TA--T
31974862 AAAATATATAAATATTAT
1 AAAATATATAAATATTAT
31974880 AAAATA
1 AAAATA
31974886 ATTATTTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 5 0.16
18 14 0.44
20 8 0.25
21 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAATATATAAATATTAT
Found at i:31974865 original size:38 final size:38
Alignment explanation
Indices: 31974817--31974897 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
31974807 GGTAAAATTA
31974817 TTGT-CGAAAAATATATAAATATTATAAAATAATTATT
1 TTGTACGAAAAATATATAAATATTATAAAATAATTATT
31974854 TTGTACGAAAAATATATAAATATTATAAAATAATTATT
1 TTGTACGAAAAATATATAAATATTATAAAATAATTATT
31974892 TTGTAC
1 TTGTAC
31974898 TTAAATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (38 bp):
TTGTACGAAAAATATATAAATATTATAAAATAATTATT
Found at i:31974936 original size:22 final size:22
Alignment explanation
Indices: 31974911--31974954 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31974901 AATTATTAAC
*
31974911 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
* *
31974933 ATAATAAATTTTGATTATTTTT
1 ATAATAAATTTTAATTAATTTT
31974955 TATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:31975846 original size:9 final size:9
Alignment explanation
Indices: 31975832--31975858 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
31975822 TTTTGTTTGC
31975832 TAAAATTGT
1 TAAAATTGT
31975841 TAAAATTGT
1 TAAAATTGT
31975850 TAAAATTGT
1 TAAAATTGT
31975859 GTTTATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TAAAATTGT
Found at i:31977033 original size:23 final size:22
Alignment explanation
Indices: 31977010--31977054 Score: 54
Period size: 25 Copynumber: 1.9 Consensus size: 22
31977000 ATATTATTTA
31977010 TATTTGTTATATCTATTTACTTATT
1 TATTTGTTAT-TCT-TTTACTTA-T
*
31977035 TGTTTGTTATTCTTTTACTT
1 TATTTGTTATTCTTTTACTT
31977055 TTCAAATACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 7 0.37
24 3 0.16
25 9 0.47
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.67
Consensus pattern (22 bp):
TATTTGTTATTCTTTTACTTAT
Found at i:31977085 original size:73 final size:72
Alignment explanation
Indices: 31976934--31977358 Score: 438
Period size: 73 Copynumber: 6.1 Consensus size: 72
31976924 ATTTCATCTT
* * *
31976934 TTTATATTTGTTCTATTTATTTATTTATTTATTTATTATTC-TTTACTTTTTAACA-ACCTAAAT
1 TTTATATTTGTTATATCTATTTA-TTATTTATTTATTATTCTTTTACTTTTTAA-ATACTTAAAT
31976997 TTAATATTA
64 TTAATATTA
* * * *
31977006 TTTATATTTGTTATATCTATTTACTTATTTGTTTGTTATTCTTTTACTTTTCAAATACCTAAATT
1 TTTATATTTGTTATATCTATTTA-TTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATT
31977071 TAATATTA
65 TAATATTA
*
31977079 TTTATATTTG-T-T-T-TA--T-TTATTTATTTATTATTC-TTTAGCTTTTTAAAGACTTAAATT
1 TTTATATTTGTTATATCTATTTATTATTTATTTATTATTCTTTTA-CTTTTTAAATACTTAAATT
31977136 TAATATTA
65 TAATATTA
* *
31977144 TTTATATTTATTATATCTATTTATTAATTTGTTTATTATTCTTTTACTTTTTTAAATACTTAAAT
1 TTTATATTTGTTATATCTATTTATT-ATTTATTTATTATTCTTTTAC-TTTTTAAATACTTAAAT
*
31977209 TTAACATTA
64 TTAATATTA
* * ** * *
31977218 TTTGTATTTGTTTTATC--GCT-TTATTTATTTATTATTCTTTTAATTCTTAAATACTTAAATTT
1 TTTATATTTGTTATATCTATTTATTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
31977280 AATATTA
66 AATATTA
* * * * *
31977287 --TCTATTTGTTTTATCTATTTATTCATTTA-TTA-T-TT-TTTTACTCTTTAAATATTTTAATT
1 TTTATATTTGTTATATCTATTTATT-ATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATT
*
31977346 TGATATTA
65 TAATATTA
*
31977354 CTTAT
1 TTTAT
31977359 GCTTCCTTTT
Statistics
Matches: 300, Mismatches: 34, Indels: 41
0.80 0.09 0.11
Matches are distributed among these distances:
64 4 0.01
65 48 0.16
66 1 0.00
67 42 0.14
68 3 0.01
69 32 0.11
70 25 0.08
71 9 0.03
72 41 0.14
73 53 0.18
74 42 0.14
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (72 bp):
TTTATATTTGTTATATCTATTTATTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
AATATTA
Found at i:31977111 original size:65 final size:64
Alignment explanation
Indices: 31977025--31977358 Score: 294
Period size: 65 Copynumber: 4.9 Consensus size: 64
31977015 GTTATATCTA
* * * *
31977025 TTTACTTATTTGTTTGTTATTCTTTTACTTTTCAAATACCTAAATTTAATATTATTTATATTTGT
1 TTTATTTATTTATTTATTATTCTTTTACTTTT-AAATACTTAAATTTAATATTATTTATATTTGT
*
31977090 TTTATTTATTTATTTATTATTC-TTTAGCTTTTTAAAGACTTAAATTTAATATTATTTATATTTA
1 TTTATTTATTTATTTATTATTCTTTTA-C-TTTTAAATACTTAAATTTAATATTATTTATATTT-
*
31977154 TT
63 GT
* *
31977156 ATATCTATTTATTAATTTGTTTATTATTCTTTTACTTTTTTAAATACTTAAATTTAACATTATTT
1 -T-T-TA--T-TT-ATTTATTTATTATTCTTTTAC--TTTTAAATACTTAAATTTAATATTATTT
*
31977221 GTATTTGT
57 ATATTTGT
* *
31977229 TTTATCGCTTTATTTATTTATTATTCTTTTAATTCTTAAATACTTAAATTTAATATTATCTAT-T
1 TTTA----TTTATTTATTTATTATTCTTTTACTT-TTAAATACTTAAATTTAATATTATTTATAT
*
31977293 TGTTT
61 T-TGT
* * * * * *
31977298 TATCTATTTATTCATTTATTATTTTTTTACTCTTTAAATATTTTAATTTGATATTACTTAT
1 T-T-TATTTATTTATTTATTATTCTTTTACT-TTTAAATACTTAAATTTAATATTATTTAT
31977359 GCTTCCTTTT
Statistics
Matches: 223, Mismatches: 27, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
64 4 0.02
65 48 0.22
66 5 0.02
67 46 0.21
68 6 0.03
69 30 0.13
70 22 0.10
71 6 0.03
72 4 0.02
73 16 0.07
74 36 0.16
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (64 bp):
TTTATTTATTTATTTATTATTCTTTTACTTTTAAATACTTAAATTTAATATTATTTATATTTGT
Found at i:31977139 original size:138 final size:137
Alignment explanation
Indices: 31976953--31977314 Score: 498
Period size: 138 Copynumber: 2.6 Consensus size: 137
31976943 GTTCTATTTA
*
31976953 TTTATTTATTTATTTATTATTCTTTACTTTTTAACAACCTAAATTTAATATTATTTATATTTGTT
1 TTTATTTATTTATTTATTATTCTTTACTTTTTAA-AACTTAAATTTAATATTATTTATATTTGTT
* *
31977018 ATATCTATTTACTT-ATTTGTTTGTTATTCTTTTAC-TTTTCAAATACCTAAATTTAATATTATT
65 ATATCTATTTA-TTAATTTGTTTATTATTCTTTTACTTTTTCAAATACCTAAATTTAACATTATT
31977081 TATATTTGT
129 TATATTTGT
*
31977090 TTTATTTATTTATTTATTATTCTTTAGCTTTTTAAAGACTTAAATTTAATATTATTTATATTTAT
1 TTTATTTATTTATTTATTATTCTTTA-CTTTTTAAA-ACTTAAATTTAATATTATTTATATTTGT
* *
31977155 TATATCTATTTATTAATTTGTTTATTATTCTTTTACTTTTTTAAATACTTAAATTTAACATTATT
64 TATATCTATTTATTAATTTGTTTATTATTCTTTTACTTTTTCAAATACCTAAATTTAACATTATT
*
31977220 TGTATTTGT
129 TATATTTGT
* * *
31977229 TTTATCGCTTTATTTATTTATTATTCTTTTAATTCTTAAATACTTAAATTTAATATTA--TCTAT
1 TTTA----TTTATTTATTTATTATTC-TTTACTTTTTAAA-ACTTAAATTTAATATTATTTATAT
* *
31977292 TTGTTTTATCTATTTATTCATTT
60 TTGTTATATCTATTTATTAATTT
31977315 ATTATTTTTT
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
137 29 0.14
138 66 0.33
139 37 0.18
141 24 0.12
143 42 0.21
144 4 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (137 bp):
TTTATTTATTTATTTATTATTCTTTACTTTTTAAAACTTAAATTTAATATTATTTATATTTGTTA
TATCTATTTATTAATTTGTTTATTATTCTTTTACTTTTTCAAATACCTAAATTTAACATTATTTA
TATTTGT
Found at i:31984769 original size:22 final size:23
Alignment explanation
Indices: 31984731--31984775 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
31984721 GGATTTGTGG
31984731 GAGGAAAATAAAAGGGTGGTTAT
1 GAGGAAAATAAAAGGGTGGTTAT
31984754 GAGGAAAAT-AAAGGGTGGTTAT
1 GAGGAAAATAAAAGGGTGGTTAT
31984776 CTCATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (23 bp):
GAGGAAAATAAAAGGGTGGTTAT
Found at i:31989559 original size:53 final size:53
Alignment explanation
Indices: 31989479--31989586 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
31989469 ACTTGGGCAT
* **
31989479 TATAGCACGAAATGTCAATCTGTTGCCAATCAACTACGAGTCATGGTATCATA
1 TATAGCACAAAATACCAATCTGTTGCCAATCAACTACGAGTCATGGTATCATA
31989532 TATAGCACAAAATACCAATCTGTTGCCAATCAACTACGAGTCATGGTATCATA
1 TATAGCACAAAATACCAATCTGTTGCCAATCAACTACGAGTCATGGTATCATA
31989585 TA
1 TA
31989587 CCTGATAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (53 bp):
TATAGCACAAAATACCAATCTGTTGCCAATCAACTACGAGTCATGGTATCATA
Found at i:31990784 original size:63 final size:65
Alignment explanation
Indices: 31990685--31990819 Score: 177
Period size: 63 Copynumber: 2.1 Consensus size: 65
31990675 GCAAATTGCT
* * *
31990685 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGTAGAGGCTCAA-AGAAAATA-T-GAACTCCAGCT
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGC-AAACAGAAAATAGTCGAACTCCAGCT
31990747 A
65 A
* * *
31990748 CAACTTAAAGCGGATGTAGCAGCGAGGGAAGCAGAGGCAAACAGAAAATATGTCGAACTCCAGCT
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGCAAACAGAAAATA-GTCGAACTCCAGCT
31990813 A
65 A
31990814 CAACTT
1 CAACTT
31990820 CAGAATATGA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
62 2 0.03
63 41 0.66
65 1 0.02
66 18 0.29
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (65 bp):
CAACTTAAAGCGGAGGCAGCAGCGAGAGAAGCAGAGGCAAACAGAAAATAGTCGAACTCCAGCTA
Found at i:31999285 original size:37 final size:37
Alignment explanation
Indices: 31999244--31999314 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
31999234 CTGAGTTTCT
31999244 TGTGTGCTAATTTGGAAGATCAAATTCCCAAGTTGAA
1 TGTGTGCTAATTTGGAAGATCAAATTCCCAAGTTGAA
31999281 TGTGTGCTAATTTGGAAGATCAAATTCCCAAGTT
1 TGTGTGCTAATTTGGAAGATCAAATTCCCAAGTT
31999315 CCAGAAAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (37 bp):
TGTGTGCTAATTTGGAAGATCAAATTCCCAAGTTGAA
Found at i:32002289 original size:14 final size:14
Alignment explanation
Indices: 32002270--32002297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32002260 TCCCCAACCC
32002270 TGGTTAAAAGGCTA
1 TGGTTAAAAGGCTA
32002284 TGGTTAAAAGGCTA
1 TGGTTAAAAGGCTA
32002298 GGCAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
TGGTTAAAAGGCTA
Found at i:32004417 original size:17 final size:17
Alignment explanation
Indices: 32004377--32004409 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32004367 CTCCAAAAGT
32004377 GCTTTTGGAAAAAAATA
1 GCTTTTGGAAAAAAATA
*
32004394 GCTTTTGTAAAAAAAT
1 GCTTTTGGAAAAAAAT
32004410 CACTTTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
GCTTTTGGAAAAAAATA
Found at i:32017846 original size:74 final size:74
Alignment explanation
Indices: 32017725--32017872 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
32017715 AACAGATACA
* * *
32017725 CAAAAGAACCATCACTGTTTTTCTTAAAGTAAACACAACTTTCAAAACTACTTCTTTTGAAATCA
1 CAAAAGAACCATCAATGTTTTTCTTAAAGTAAACACAACTGTCAAAACTACTTCTTTTAAAATCA
32017790 TGAGAAGTC
66 TGAGAAGTC
32017799 CAAAAGAACCATCAATGTTTTTCTTAAAGTAAACACAACTGTCAAAACTACTTCTTTTAAAATCA
1 CAAAAGAACCATCAATGTTTTTCTTAAAGTAAACACAACTGTCAAAACTACTTCTTTTAAAATCA
32017864 TGAGAAGTC
66 TGAGAAGTC
32017873 ATAAATGAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (74 bp):
CAAAAGAACCATCAATGTTTTTCTTAAAGTAAACACAACTGTCAAAACTACTTCTTTTAAAATCA
TGAGAAGTC
Found at i:32023248 original size:35 final size:35
Alignment explanation
Indices: 32023209--32023284 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
32023199 CCCCTTTCGA
** ** *
32023209 GGTGTCGCCTTAAAGGACTTGTATACCATTTACAT
1 GGTGTCGCCCCAAAGGACTTACATACCATTTACAC
*
32023244 GGTGTCGCCCCGAAGGACTTACATACCATTTACAC
1 GGTGTCGCCCCAAAGGACTTACATACCATTTACAC
32023279 GGTGTC
1 GGTGTC
32023285 ACGTCGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (35 bp):
GGTGTCGCCCCAAAGGACTTACATACCATTTACAC
Found at i:32033389 original size:19 final size:19
Alignment explanation
Indices: 32033365--32033445 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
32033355 AATCTTTAAG
*
32033365 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
32033384 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32033403 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32033422 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
32033443 GAT
1 GAT
32033446 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 50 0.85
21 9 0.15
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32039036 original size:8 final size:7
Alignment explanation
Indices: 32039023--32039091 Score: 61
Period size: 7 Copynumber: 9.7 Consensus size: 7
32039013 CTATTTCAAA
32039023 AAAAAAG
1 AAAAAAG
*
32039030 GAAAAA-
1 AAAAAAG
*
32039036 AAGAAA-
1 AAAAAAG
*
32039042 AAAAGAG
1 AAAAAAG
*
32039049 AAAAAAA
1 AAAAAAG
32039056 ATAAAAAG
1 A-AAAAAG
32039064 AAAAAAG
1 AAAAAAG
32039071 AGAAAAATG
1 A-AAAAA-G
32039080 AAAAAAG
1 AAAAAAG
32039087 AAAAA
1 AAAAA
32039092 TGGAGAGGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 8 0.16
7 24 0.48
8 16 0.32
9 2 0.04
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:32039061 original size:9 final size:9
Alignment explanation
Indices: 32039021--32039077 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
32039011 TTCTATTTCA
32039021 AAAAAAAAG
1 AAAAAAAAG
*
32039030 GAAAAAAAG
1 AAAAAAAAG
32039039 -AAAAAAAG
1 AAAAAAAAG
*
32039047 AGAAAAAA-
1 AAAAAAAAG
*
32039055 AATAAAAAG
1 AAAAAAAAG
*
32039064 AAAAAAGAG
1 AAAAAAAAG
32039073 AAAAA
1 AAAAA
32039078 TGAAAAAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 14 0.35
9 26 0.65
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:32039061 original size:24 final size:24
Alignment explanation
Indices: 32039031--32039091 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
32039021 AAAAAAAAGG
*
32039031 AAAAAAAGAAAAAAAGAGAAAAAA
1 AAAAAAAGAAAAAAAGAGAAAAAT
32039055 AATAAAAAG-AAAAAAGAGAAAAAT
1 AA-AAAAAGAAAAAAAGAGAAAAAT
*
32039079 GAAAAAAGAAAAA
1 AAAAAAAGAAAAA
32039092 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 6 0.18
24 21 0.64
25 6 0.18
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAGAGAAAAAT
Found at i:32039085 original size:9 final size:8
Alignment explanation
Indices: 32039022--32039091 Score: 74
Period size: 8 Copynumber: 8.6 Consensus size: 8
32039012 TCTATTTCAA
32039022 AAAAAAAGG
1 AAAAAAA-G
32039031 AAAAAAAG
1 AAAAAAAG
32039039 AAAAAAAG
1 AAAAAAAG
32039047 AGAAAAAA-
1 A-AAAAAAG
32039055 AATAAAAAG
1 AA-AAAAAG
32039064 -AAAAAAG
1 AAAAAAAG
*
32039071 AGAAAAATG
1 A-AAAAAAG
32039080 -AAAAAAG
1 AAAAAAAG
32039087 AAAAA
1 AAAAA
32039092 TGGAGAGGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
7 13 0.25
8 21 0.40
9 19 0.36
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:32040143 original size:44 final size:44
Alignment explanation
Indices: 32040035--32040547 Score: 443
Period size: 44 Copynumber: 11.7 Consensus size: 44
32040025 GAAGATTTAA
**
32040035 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* *
32040079 -CATGGCATCCCTGTGTTTATAGAGAACAAGTTGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* *
32040122 ACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* * * * * * **
32040166 A-TCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAG
1 ACT-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG
*
32040211 -CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* * *
32040254 ACTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
** * * * * * **
32040298 A-TCTAACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAG
1 ACT-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG
*
32040343 -CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* * * * *
32040386 ATTTGGCATCCCTGTGTTTATAGGAAACAAATCGAAGATAGCAT
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* * * * * **
32040430 A-TCTGACATTCCTGTGCTTACAGCGAAGC-AGATTGAAGATTTCAG
1 ACT-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG
* * *
32040475 -CATGGTATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
1 ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* * * * *
32040518 ATTTGGCATCCTTGTGCTTACAAGGAACAA
1 ACTTGGCATCCCTGTGTTTATAGGGAACAA
32040548 ATCGAAGACA
Statistics
Matches: 368, Mismatches: 82, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
43 76 0.21
44 258 0.70
45 34 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
ACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
Found at i:32040231 original size:132 final size:132
Alignment explanation
Indices: 32040068--32040555 Score: 852
Period size: 132 Copynumber: 3.7 Consensus size: 132
32040058 GGAACAAGTT
*
32040068 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGAGAACAAGTTGAAGATAGCAGACTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
*
32040133 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
66 CTGTGTTTATAAGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
32040198 TC
131 TC
32040200 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
*
32040265 CTGTGTTTATAAGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGCGAAGCAGA
66 CTGTGTTTATAAGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
32040330 TC
131 TC
*
32040332 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
*
32040397 CTGTGTTTAT-AGGAAACAAATCGAAGATAGCATATCTGACATTCCTGTGCTTACAGCGAAGCAG
66 CTGTGTTTATAAGG-AACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAG
*
32040461 ATT
130 ATC
* * *
32040464 GAAGATTTCAGCATGGTATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
* * *
32040529 TTGTGCTTACAAGGAACAAATCGAAGA
66 CTGTGTTTATAAGGAACAAATCGAAGA
32040556 CATAACTGAT
Statistics
Matches: 342, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
131 3 0.01
132 336 0.98
133 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGACTTGGCATCC
CTGTGTTTATAAGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
TC
Found at i:32040238 original size:88 final size:87
Alignment explanation
Indices: 32039950--32040555 Score: 480
Period size: 88 Copynumber: 6.9 Consensus size: 87
32039940 AAACAAGATT
* * * * *
32039950 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTGCAAC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACAGC
*** * *
32040015 GAAGCAGATCGAAGATTTAAACT
66 GAA-CAGATCGAAGATAGCAGCA
* * ** * * *
32040038 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAG--CATGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC-TGGCATTCCTGTGCTTACAG
* * *
32040101 AGAACA-AGTTGAAGATAGCAGACT
65 CGAACAGA-TCGAAGATAGCAG-CA
*
32040125 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACAGC
**
32040190 GAAGCAGATCGAAGATTTCAGCA
66 GAA-CAGATCGAAGATAGCAGCA
* * * * *
32040213 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-CTTGGCATCCCTGTGTTTATAA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC-TGGCATTCCTGTGCTTA-CA
*
32040277 G-GAACAAATCGAAGATAGCAG-A
64 GCGAACAGATCGAAGATAGCAGCA
** * * * * * ** * *
32040299 TCTAACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTA
1 --TGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGGCATTCCTGTGCTTA
* * *
32040362 TAGGGAACA-AGTTGAAGATAGCAG-A
62 CAGCGAACAGA-TCGAAGATAGCAGCA
* * *
32040387 TTTGGCATCCCTGTGTTTATAGGAAACAAATCGAAGATAGCATATCTGACATTCCTGTGCTTACA
1 --TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACA
* **
32040452 GCGAAGCAGATTGAAGATTTCAGCA
64 GCGAA-CAGATCGAAGATAGCAGCA
* * * * *
32040477 TGGTATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCA-TCCTTGTGCTTACAA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATTCC-TGTGCTTAC-A
*
32040541 G-GAACAAATCGAAGA
64 GCGAACAGATCGAAGA
32040556 CATAACTGAT
Statistics
Matches: 414, Mismatches: 83, Indels: 43
0.77 0.15 0.08
Matches are distributed among these distances:
85 1 0.00
86 12 0.03
87 97 0.23
88 258 0.62
89 43 0.10
90 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (87 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGGCATTCCTGTGCTTACAGC
GAACAGATCGAAGATAGCAGCA
Found at i:32040240 original size:175 final size:176
Alignment explanation
Indices: 32039949--32040298 Score: 569
Period size: 175 Copynumber: 2.0 Consensus size: 176
32039939 GAAACAAGAT
*
32039949 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTGCAA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACAA
* **
32040014 CGAAGCAGATCGAAGATTTAAACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAG
66 CGAAGCAGATCGAAGATTTAAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
* *
32040079 -CATGGCATCCCTGTGTTTAT-AGAGAACAAGTTGAAGATAGCAGAC
131 ACATGGCATCCCTGTGTTTATAAG-GAACAAATCGAAGATAGCAGAC
* * *
32040124 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACAA
* *
32040189 CGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
66 CGAAGCAGATCGAAGATTTAAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
*
32040254 ACTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGCAGA
131 ACATGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGCAGA
32040299 TCTAACATTC
Statistics
Matches: 161, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
175 121 0.75
176 38 0.24
177 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (176 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTTACAA
CGAAGCAGATCGAAGATTTAAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
ACATGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGCAGAC
Found at i:32040555 original size:44 final size:44
Alignment explanation
Indices: 32039945--32040555 Score: 415
Period size: 44 Copynumber: 13.9 Consensus size: 44
32039935 CAAAGAAACA
*
32039945 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
* * * * ** * * **
32039989 AGATCTGACA-CTCCTATGCTTGCAACGAAGCAGATCGAAGAT-TT
1 AGATTTGGCATC-CCTGTGTTTATAAGGAA-CAAATCGAAGATAGC
* * * * * **
32040033 AAACTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
* *
32040077 AGCA--TGGCATCCCTGTGTTTAT-AGAGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAAG-GAACAAATCGAAGATAGC
* *
32040120 AGACTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
* * * * * * **
32040164 AGATCTGACATTCCTGTGCTTA-CAGCGAAGCAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAAG-GAA-CAAATCGAAGATAGC
* * *
32040209 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
*
32040252 AGACTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
* ** * * * * **
32040296 AGATCTAACATTCCTGTGCTTA-CAGCGAAGCAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAAG-GAA-CAAATCGAAGATAGC
* * *
32040341 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
32040384 AGATTTGGCATCCCTGTGTTTAT-AGGAAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAAGG-AACAAATCGAAGATAGC
* * * * * * * * **
32040428 ATATCTGACATTCCTGTGCTTA-CAGCGAAGCAGATTGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAAG-GAA-CAAATCGAAGATAGC
* * * * *
32040473 AGCA--TGGTATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
* * *
32040516 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGA
32040556 CATAACTGAT
Statistics
Matches: 432, Mismatches: 106, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
42 5 0.01
43 88 0.20
44 278 0.64
45 58 0.13
46 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAAGGAACAAATCGAAGATAGC
Found at i:32041150 original size:206 final size:206
Alignment explanation
Indices: 32040517--32041463 Score: 1488
Period size: 206 Copynumber: 4.6 Consensus size: 206
32040507 GAAGATAGCA
*
32040517 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTGATTTGGATTTCACAGT--
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCAC-GTGC
* *
32040580 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTTTG
65 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* *
32040645 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAG
130 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
*
32040710 CAGATCCAAGGT
195 CAGATCCAAGAT
* * *
32040722 GATTTGGCATCCTTGTACTTACAAGGAACAAATCGAAGACATAACTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
*
32040787 TACAATGAAGCAAATCTAAGATGATTT-GCATC-CTTGTATTGTCAGAGAACAAATCGAAGTTTG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTC-TGTATTGTCAGAGAACAAATCGAAGTTTG
* ** *
32040850 GCGTCTCCACATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAG
130 GCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAG
*
32040915 CAGATCCAAGGT
195 CAGATCCAAGAT
32040927 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
* *
32040992 TACGATGAAGCAAATCTGAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * **
32041057 TGTCTCCATATTTGACGGAGAGTGGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
32041122 AGATCCAAGAT
196 AGATCCAAGAT
* * * *
32041133 GATTGGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACTTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
*
32041198 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
32041263 CGTCTCCATATTCGACTGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
32041328 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * * * *
32041339 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGTTAATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
* *
32041404 TACGATGAAGCAAATCTAAGATGATTTTGCATCTCTGTATTGTCAGAAAACAAATCGAAG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
32041464 ATAACAGATT
Statistics
Matches: 686, Mismatches: 51, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
204 3 0.00
205 253 0.37
206 429 0.63
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGATTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:32041871 original size:19 final size:19
Alignment explanation
Indices: 32041847--32041914 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
32041837 AATCTTTAAG
32041847 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
32041866 GATATGGAATCCTAGATAT
1 GATATGCAATCTTAGATAT
32041885 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32041902 GATATGCAGTCTT
1 GATATGCAATCTT
32041915 GAAAATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 15 0.36
19 27 0.64
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32045971 original size:13 final size:13
Alignment explanation
Indices: 32045935--32045995 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
32045925 TCTTCATTGC
32045935 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
* *
32045948 TGTGGAAAAGTGT
1 TTTTGAAAAGTGT
* **
32045961 TTTTGAGAAGTAC
1 TTTTGAAAAGTGT
*
32045974 TTTTGAGAAGTGT
1 TTTTGAAAAGTGT
*
32045987 TTTGGAAAA
1 TTTTGAAAA
32045996 ATTTAAGTGT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.39
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:32053403 original size:11 final size:11
Alignment explanation
Indices: 32053387--32053417 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32053377 NNNNNNATAC
32053387 CCCATACCTTG
1 CCCATACCTTG
*
32053398 CCCATACCTTT
1 CCCATACCTTG
32053409 CCCATACCT
1 CCCATACCT
32053418 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:32060551 original size:39 final size:39
Alignment explanation
Indices: 32060493--32060580 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
32060483 TTTGAAATGG
*
32060493 CCGGACTTAAGATCCGCAGGCTTCGTGCTGGTACTATAT
1 CCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATAT
* *
32060532 CCGGACTTAAGGTCTGCAGGCTTCGTACTGGTACTATAT
1 CCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATAT
*
32060571 CCGGGCTTAA
1 CCGGACTTAA
32060581 AGTCCCGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.28
Consensus pattern (39 bp):
CCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATAT
Found at i:32071076 original size:12 final size:12
Alignment explanation
Indices: 32071059--32071087 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32071049 ATTTTTCATT
32071059 AAAACGCCGCTA
1 AAAACGCCGCTA
32071071 AAAACGCCGCTA
1 AAAACGCCGCTA
32071083 AAAAC
1 AAAAC
32071088 CTATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.31, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:32077625 original size:18 final size:19
Alignment explanation
Indices: 32077599--32077636 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32077589 AGCAATGTGT
32077599 ATACCCCACAAC-AAATGG
1 ATACCCCACAACAAAATGG
*
32077617 ATACTCCACAACAAAATGG
1 ATACCCCACAACAAAATGG
32077636 A
1 A
32077637 GTGACTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.47, C:0.29, G:0.11, T:0.13
Consensus pattern (19 bp):
ATACCCCACAACAAAATGG
Found at i:32081364 original size:19 final size:19
Alignment explanation
Indices: 32081318--32081365 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
32081308 GTATATATTT
32081318 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
32081336 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
32081355 TAAGTTTTATT
1 TAAATTTTATT
32081366 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:32081427 original size:43 final size:43
Alignment explanation
Indices: 32081379--32081471 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
32081369 ATTCTAGAAA
32081379 TATTTT-TATTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
* * *
32081422 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
32081465 TATTTTC
1 TATTTTC
32081472 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
Found at i:32086104 original size:19 final size:19
Alignment explanation
Indices: 32086058--32086105 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
32086048 GTATATATTT
32086058 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
32086076 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
32086095 TAAGTTTTATT
1 TAAATTTTATT
32086106 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:32086167 original size:43 final size:43
Alignment explanation
Indices: 32086119--32086211 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
32086109 ATTCTAGAAA
*
32086119 TATTTT-TATTTTATCTTTTATTAGTTTACTAAAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
* * **
32086162 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGGATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
32086205 TATTTTC
1 TATTTTC
32086212 CCAATTAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAAAATAAGGGAAC
Found at i:32090726 original size:21 final size:21
Alignment explanation
Indices: 32090690--32090753 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
32090680 TTTGGTTGGA
* *
32090690 TCAACTCTTTTAAGCTTCTGT
1 TCAACTCTTATGAGCTTCTGT
* * *
32090711 TTAATTCTTATGAGCTTTTGT
1 TCAACTCTTATGAGCTTCTGT
*
32090732 TCAACTCTTTTGAGCTTCTGT
1 TCAACTCTTATGAGCTTCTGT
32090753 T
1 T
32090754 GACGATGTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (21 bp):
TCAACTCTTATGAGCTTCTGT
Found at i:32097649 original size:3 final size:3
Alignment explanation
Indices: 32097629--32097711 Score: 57
Period size: 3 Copynumber: 28.3 Consensus size: 3
32097619 GCATCTCTAT
* * * *
32097629 TTC TTC TCC TCC TT- TTC TTC TTC TTC TTT TTC -TC TTT TTC TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
32097674 CTA TTC TTC TTC TTC TTC TTT TTAGC -TC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TT--C TTC TTC TTC TTC T
32097712 ACTACCTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 7 0.11
3 55 0.87
4 1 0.02
ACGTcount: A:0.02, C:0.31, G:0.01, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:32097651 original size:17 final size:17
Alignment explanation
Indices: 32097629--32097695 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
32097619 GCATCTCTAT
*
32097629 TTCTTCTCCTCCTTTTC
1 TTCTTCTTCTCCTTTTC
*
32097646 TTCTTCTTCT-TTTTCTC
1 TTCTTCTTCTCCTTT-TC
* *
32097663 TTTTTCTTCTCCTATTC
1 TTCTTCTTCTCCTTTTC
*
32097680 TTCTTCTTCTTCTTTT
1 TTCTTCTTCTCCTTTT
32097696 TAGCTCTTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 3 0.08
17 35 0.88
18 2 0.05
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTCTTCTCCTTTTC
Found at i:32097657 original size:14 final size:14
Alignment explanation
Indices: 32097628--32097693 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
32097618 GGCATCTCTA
* *
32097628 TTTCTTCTCCTCCT
1 TTTCTTCTTCTTCT
32097642 TTTCTTCTTCTTCT
1 TTTCTTCTTCTTCT
*
32097656 TTT-TCTCTTTTTCT
1 TTTCT-TCTTCTTCT
* * *
32097670 TCTCCTATTCTTCT
1 TTTCTTCTTCTTCT
32097684 TCTTCTTCTT
1 T-TTCTTCTT
32097694 TTTAGCTCTT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 1 0.03
14 33 0.85
15 5 0.13
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTCTTCTTCTTCT
Found at i:32097672 original size:37 final size:37
Alignment explanation
Indices: 32097622--32097711 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
32097612 AAGGTTGGCA
* *
32097622 TCTCTATTTCTTCTCCTCCTT-TTCTTCTTCTTCTTTT
1 TCTCTTTTTCTTCTCCT-ATTCTTCTTCTTCTTCTTTT
32097659 TCTCTTTTTCTTCTCCTATTCTTCTTCTTCTTCTTTT
1 TCTCTTTTTCTTCTCCTATTCTTCTTCTTCTTCTTTT
*
32097696 TAGCTCTTCTTCTTCT
1 T--CTCTTTTTCTTCT
32097712 ACTACCTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
36 2 0.04
37 33 0.70
39 12 0.26
ACGTcount: A:0.03, C:0.31, G:0.01, T:0.64
Consensus pattern (37 bp):
TCTCTTTTTCTTCTCCTATTCTTCTTCTTCTTCTTTT
Found at i:32097708 original size:28 final size:28
Alignment explanation
Indices: 32097644--32097711 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
32097634 CTCCTCCTTT
* **
32097644 TCTTCTTCTTCTTTTTCTCTTTTTCTTC
1 TCTTCTTCTTCTTCTTCTCTTTTTCAGC
* *
32097672 TCCTATTCTTCTTCTTCTTCTTTTT-AGC
1 TCTTCTTCTTCTTCTTC-TCTTTTTCAGC
32097700 TCTTCTTCTTCT
1 TCTTCTTCTTCT
32097712 ACTACCTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.03, C:0.29, G:0.01, T:0.66
Consensus pattern (28 bp):
TCTTCTTCTTCTTCTTCTCTTTTTCAGC
Found at i:32099053 original size:27 final size:27
Alignment explanation
Indices: 32098986--32099046 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
32098976 TCATCAAATA
* *
32098986 AGTTTTTTGTAGTGGATTGTAGATGAG
1 AGTTTTTTGTAGTGGACTATAGATGAG
32099013 AGTTTTTTGTAGTGGACTATAGATGAG
1 AGTTTTTTGTAGTGGACTATAGATGAG
32099040 AGTTTTT
1 AGTTTTT
32099047 CATAGTGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (27 bp):
AGTTTTTTGTAGTGGACTATAGATGAG
Found at i:32110706 original size:12 final size:12
Alignment explanation
Indices: 32110686--32110735 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
32110676 ACCTTTTTTT
*
32110686 TTTTCATTTCTA
1 TTTTAATTTCTA
*
32110698 TTTTAATTTCCA
1 TTTTAATTTCTA
*
32110710 -TTTCATTTC-A
1 TTTTAATTTCTA
*
32110720 TTTTAATTTATA
1 TTTTAATTTCTA
32110732 TTTT
1 TTTT
32110736 CCATTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 15 0.48
12 15 0.48
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTAATTTCTA
Found at i:32110719 original size:28 final size:29
Alignment explanation
Indices: 32110687--32110793 Score: 82
Period size: 28 Copynumber: 3.7 Consensus size: 29
32110677 CCTTTTTTTT
32110687 TTTCATTTCT-ATTT-TAATTTCCATTTCA
1 TTTCATTT-TAATTTATAATTTCCATTTCA
* *
32110715 TTTCATTTTAATTTATATTTTCCATTTTAA
1 TTTCATTTTAATTTATAATTTCCA-TTTCA
* *
32110745 TTT-A-TTT-ATTTATCATTT-CAGTTTTTA
1 TTTCATTTTAATTTATAATTTCCA--TTTCA
*
32110772 TTTTCATTTAAATTTATAATTT
1 -TTTCATTTTAATTTATAATTT
32110794 ATTTTCATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
26 2 0.03
27 15 0.23
28 18 0.28
29 10 0.16
30 9 0.14
31 10 0.16
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTCATTTTAATTTATAATTTCCATTTCA
Found at i:32110742 original size:19 final size:18
Alignment explanation
Indices: 32110715--32110804 Score: 83
Period size: 18 Copynumber: 4.8 Consensus size: 18
32110705 TTCCATTTCA
32110715 TTTCATTTTAATTTATAT
1 TTTCATTTTAATTTATAT
32110733 TTTCCATTTTAATTTATTTAT
1 TTT-CATTTTAATTTA--TAT
* * *
32110754 TTATCATTTCAGTTTTTAT
1 TT-TCATTTTAATTTATAT
* *
32110773 TTTCATTTAAATTTATAA
1 TTTCATTTTAATTTATAT
*
32110791 TTT-ATTTTCATTTA
1 TTTCATTTTAATTTA
32110805 AACTTTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.15
18 18 0.31
19 17 0.29
21 14 0.24
22 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTCATTTTAATTTATAT
Found at i:32110838 original size:5 final size:5
Alignment explanation
Indices: 32110828--32110905 Score: 66
Period size: 5 Copynumber: 14.0 Consensus size: 5
32110818 TTTCATAATA
* *
32110828 TCATT TCATT TCATT TCATAT TCATT ACAAATT ACATT TCATT TCATAT
1 TCATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT TCATT TCAT-T
32110877 TCATATT TCATT TAACATT TCATT TCATT
1 TC--ATT TCATT T--CATT TCATT TCATT
32110906 AAATTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
5 40 0.63
6 8 0.13
7 13 0.21
8 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (5 bp):
TCATT
Found at i:32110888 original size:23 final size:24
Alignment explanation
Indices: 32110816--32110904 Score: 76
Period size: 28 Copynumber: 3.6 Consensus size: 24
32110806 ACTTTTATTC
* *
32110816 CATTTCATAAT-ATCATTTCATTT
1 CATTTCATATTCATAATTTCATTT
*
32110839 CATTTCATATTCATTACAAATTACATTT
1 CATTTCATATTCA-T---AATTTCATTT
32110867 CATTTCATATTCAT-ATTTCATTT
1 CATTTCATATTCATAATTTCATTT
32110890 AACATTTCAT-TTCAT
1 --CATTTCATATTCAT
32110905 TAAATTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
23 18 0.33
24 6 0.11
25 9 0.16
27 1 0.02
28 21 0.38
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (24 bp):
CATTTCATATTCATAATTTCATTT
Found at i:32110932 original size:16 final size:16
Alignment explanation
Indices: 32110882--32110932 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
32110872 CATATTCATA
32110882 TTTCATTTAACATTTCA-
1 TTTCATTTAA-ATTT-AT
*
32110899 TTTCA-TTAAATTTTT
1 TTTCATTTAAATTTAT
32110914 TTTCATTTAAATTTAT
1 TTTCATTTAAATTTAT
32110930 TTT
1 TTT
32110933 TTTCCTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 9 0.30
16 16 0.53
17 5 0.17
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTCATTTAAATTTAT
Found at i:32111088 original size:21 final size:21
Alignment explanation
Indices: 32111046--32111088 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
32111036 TATCAGGGTC
*
32111046 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
32111067 ATTT-AAATTTTTCGTCAATTT
1 ATTTAAAATTTTTCAT-AATTT
32111088 A
1 A
32111089 AATATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:32111226 original size:54 final size:56
Alignment explanation
Indices: 32111138--32111244 Score: 157
Period size: 54 Copynumber: 1.9 Consensus size: 56
32111128 TAAAAAAAAT
32111138 TCTCATTTAATTTTTTTTCGTGCTGGTGCCGGCCAATGCCAACCCA-TTCTCAGGCC
1 TCTCATTTAATTTTTTTTC-TGCTGGTGCCGGCCAATGCCAACCCATTTCTCAGGCC
* *
32111194 TCTCATTTCACTTTTTTTT-TG-TGGTGCTGGCCAATGCCAACCCATTTCTCA
1 TCTCATTT-AATTTTTTTTCTGCTGGTGCCGGCCAATGCCAACCCATTTCTCA
32111245 TGCTGGCGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
54 22 0.47
55 8 0.17
56 8 0.17
57 9 0.19
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (56 bp):
TCTCATTTAATTTTTTTTCTGCTGGTGCCGGCCAATGCCAACCCATTTCTCAGGCC
Found at i:32111304 original size:11 final size:11
Alignment explanation
Indices: 32111284--32111368 Score: 64
Period size: 11 Copynumber: 7.7 Consensus size: 11
32111274 TCACTTTTTT
32111284 TTTC-ATTTCA
1 TTTCAATTTCA
*
32111294 TTTAAATTTCA
1 TTTCAATTTCA
* * *
32111305 ATTCTATTTAA
1 TTTCAATTTCA
*
32111316 TTTGAATTTCTA
1 TTTCAATTTC-A
* *
32111328 TTTCTATTCCA
1 TTTCAATTTCA
*
32111339 TTTCATTTTCA
1 TTTCAATTTCA
*
32111350 TTTCTATTTCA
1 TTTCAATTTCA
*
32111361 TTTAAATT
1 TTTCAATT
32111369 ATATTTTTCT
Statistics
Matches: 54, Mismatches: 19, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
10 3 0.06
11 43 0.80
12 8 0.15
ACGTcount: A:0.26, C:0.14, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTCAATTTCA
Found at i:32111315 original size:17 final size:16
Alignment explanation
Indices: 32111284--32111330 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
32111274 TCACTTTTTT
*
32111284 TTTCATTTC-ATTTAAA
1 TTTCAATTCTATTT-AA
32111300 TTTCAATTCTATTTAA
1 TTTCAATTCTATTTAA
*
32111316 TTTGAATTTCTATTT
1 TTTCAA-TTCTATTT
32111331 CTATTCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCAATTCTATTTAA
Found at i:32111330 original size:28 final size:28
Alignment explanation
Indices: 32111299--32111360 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
32111289 TTTCATTTAA
*
32111299 ATTTCAATTCTATTTAATTTGAATTTCT
1 ATTTCAATTCCATTTAATTTGAATTTCT
* * **
32111327 ATTTCTATTCCATTTCATTTTCATTTCT
1 ATTTCAATTCCATTTAATTTGAATTTCT
32111355 ATTTCA
1 ATTTCA
32111361 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTCAATTCCATTTAATTTGAATTTCT
Found at i:32111374 original size:22 final size:22
Alignment explanation
Indices: 32111284--32111601 Score: 95
Period size: 23 Copynumber: 13.9 Consensus size: 22
32111274 TCACTTTTTT
32111284 TTTC-ATTTCATTTAAATT-TCA
1 TTTCTATTTCATTTAAATTAT-A
* * * *
32111305 ATTCTATTTAATTTGAATTTCTA
1 TTTCTATTTCATTT-AAATTATA
* * *
32111328 TTTCTATTCCATTT-CATTTTCA
1 TTTCTATTTCATTTAAATTAT-A
32111350 TTTCTATTTCATTTAAATTATA
1 TTTCTATTTCATTTAAATTATA
* * *
32111372 TTTTTCTCCATTTAAATTT-AATTTTT
1 --TTTCT--ATTT-CATTTAAATTATA
**
32111398 TTTCTCATTTCATTTAGTTTATCTA
1 TTTCT-ATTTCATTTAAATTA--TA
* *
32111423 TCTTCCTATTTAAATTT-AATT-TT
1 T-TT-CTATTT-CATTTAAATTATA
* *
32111446 TTTCTCATTTCATTTATATTATT
1 TTTCT-ATTTCATTTAAATTATA
* * *
32111469 TTTTTCATTTAAATTTAAATTATC
1 TTTCT-ATTT-CATTTAAATTATA
* * *
32111493 TATCT-TTCCAGTTTAATTTA-A
1 TTTCTATTTCA-TTTAAATTATA
*
32111514 TTT-T-TTTCACATTTAATTTATA
1 TTTCTATTT--CATTTAAATTATA
32111536 TATT-T-TTTCATTTAAATTTAATA
1 T-TTCTATTTCATTTAAA-TT-ATA
*
32111559 TTTTCCTCATTTCATTTAAATTATC
1 -TTT-CT-ATTTCATTTAAATTATA
32111584 TTTCT-TTTCATTTAAATT
1 TTTCTATTTCATTTAAATT
32111602 TAATTTTTTT
Statistics
Matches: 225, Mismatches: 40, Indels: 64
0.68 0.12 0.19
Matches are distributed among these distances:
20 3 0.01
21 44 0.20
22 52 0.23
23 53 0.24
24 28 0.12
25 5 0.02
26 19 0.08
27 21 0.09
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTCTATTTCATTTAAATTATA
Found at i:32111521 original size:21 final size:20
Alignment explanation
Indices: 32111359--32111628 Score: 110
Period size: 22 Copynumber: 11.8 Consensus size: 20
32111349 ATTTCTATTT
* *
32111359 CATTTAAATTATATTTTTCTC
1 CATTTAATTTA-ATTTTTTTC
32111380 CATTTAAATTTAATTTTTTTTC
1 CATTT-AATTTAA-TTTTTTTC
* *
32111402 TCATTTCATTTAGTTTATCTATCTTC
1 -CATTTAATTTA-ATT-T-T-T-TTC
32111428 CTATTTAAATTTAATTTTTTTC
1 C-ATTT-AATTTAATTTTTTTC
* *
32111450 TCATTTCATTTATATTATTTTTTT
1 -CATTTAATTTA-A-T-TTTTTTC
32111474 CATTTAAATTTAAATTATCTATCTTTC
1 CATTT-AATTT-AA-T-T-T-T-TTTC
32111501 CAGTTTAATTTAATTTTTTTC
1 CA-TTTAATTTAATTTTTTTC
32111522 ACATTTAATTTATATATTTTTT-
1 -CATTTAATTTA-AT-TTTTTTC
* *
32111544 CATTTAAATTTAATATTTTCC
1 CATTT-AATTTAATTTTTTTC
* *
32111565 TCATTTCATTTAAATTATCTTTCTTTT
1 -CATTTAATTT--A--AT-TTT-TTTC
32111592 CATTTAAATTTAATTTTTTTC
1 CATTT-AATTTAATTTTTTTC
*
32111613 TCATTTCATTTAATTT
1 -CATTTAATTTAATTT
32111629 ATCTATCTTC
Statistics
Matches: 196, Mismatches: 19, Indels: 68
0.69 0.07 0.24
Matches are distributed among these distances:
20 4 0.02
21 47 0.24
22 51 0.26
23 24 0.12
24 18 0.09
25 9 0.05
26 19 0.10
27 21 0.11
28 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.01, T:0.61
Consensus pattern (20 bp):
CATTTAATTTAATTTTTTTC
Found at i:32111556 original size:48 final size:48
Alignment explanation
Indices: 32111481--32111676 Score: 121
Period size: 48 Copynumber: 4.2 Consensus size: 48
32111471 TTTCATTTAA
* * *
32111481 ATTTAAATTATCTATCTTTCCAGTTT-AATTTAA-TT-TTTT--TCA-C
1 ATTTAAATTATATTTCTTTTCA-TTTAAATTTAATTTATTTTCCTCATC
*
32111524 ATTTAATTTATATATT-TTTTCATTTAAATTTAA--TATTTTCCTCATTTC
1 ATTTAAATTATAT-TTCTTTTCATTTAAATTTAATTTATTTTCCTCA--TC
*
32111572 ATTTAAATTATCTTTCTTTTCATTTAAATTTAATTT-TTTT-CTCATTTC
1 ATTTAAATTATATTTCTTTTCATTTAAATTTAATTTATTTTCCTCA--TC
* * * ** * *
32111620 ATTTAATTTATCTATCTTCCCTTTTTAATTTAATTT-TTTT-CTCATTTC
1 ATTTAAATTATATTTCTTTTCATTTAAATTTAATTTATTTTCCTCA--TC
32111668 ATTTAAATT
1 ATTTAAATT
32111677 TAATTTTTTT
Statistics
Matches: 129, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
42 4 0.03
43 27 0.21
44 1 0.01
45 3 0.02
47 2 0.02
48 87 0.67
49 4 0.03
50 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.60
Consensus pattern (48 bp):
ATTTAAATTATATTTCTTTTCATTTAAATTTAATTTATTTTCCTCATC
Found at i:32111695 original size:28 final size:27
Alignment explanation
Indices: 32111541--32111704 Score: 156
Period size: 27 Copynumber: 6.5 Consensus size: 27
32111531 TTATATATTT
* *
32111541 TTTCATTTAAATTTAATATTTTCCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
*
32111568 TTTCATTTAAA-TT-A--TCTTTCT--
1 TTTCATTTAAATTTAATTTTTTTCTCA
32111589 TTTCATTTAAATTTAATTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
* *
32111616 TTTCATTT-AATTT-ATCTATCTTC-C-
1 TTTCATTTAAATTTAAT-TTTTTTCTCA
*
32111640 CTT--TTT-AATTTAATTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTCTCA
*
32111664 TTTCATTTAAATTTAATTTTTTTTCTCT
1 TTTCATTTAAATTTAA-TTTTTTTCTCA
32111692 TTTCATTTAAATT
1 TTTCATTTAAATT
32111705 ATCTTTCTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
21 11 0.10
22 15 0.13
23 9 0.08
24 4 0.04
25 10 0.09
26 15 0.13
27 26 0.23
28 23 0.20
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTCATTTAAATTTAATTTTTTTCTCA
Found at i:32111726 original size:27 final size:26
Alignment explanation
Indices: 32111430--32111737 Score: 100
Period size: 27 Copynumber: 12.6 Consensus size: 26
32111420 CTATCTTCCT
*
32111430 ATTTAAATTTAATTTT-TTTCTCA-TTTC
1 ATTTAAA-TT-ATTTTCTTTC-CATTTTA
* *
32111457 ATTTATATTATTTT-TTT-CATTTAA
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
32111481 ATTTAAATTATCTATCTTTCCAGTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
32111508 ATTT--A--ATTTT-TTTCACA-TTTA
1 ATTTAAATTATTTTCTTTC-CATTTTA
* *
32111529 ATTTATA-TA-TTT-TTT-CATTTAA
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
32111551 ATTT-AA-TATTTTC-CT-CA-TTTC
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
32111572 ATTTAAATTATCTTTCTTTTCATTTAA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
* *
32111599 ATTT-AATT-TTTT-TCT-CA-TTTC
1 ATTTAAATTATTTTCTTTCCATTTTA
* * * *
32111620 ATTTAATTTATCTATCTTCCCTTTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
* *
32111647 ATTT-AATT-TTTT-TCT-CA-TTTC
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
32111668 ATTTAAATTTAATTTTTTTTCTC-TTTTC
1 ATTTAAA-TT-ATTTTCTTTC-CATTTTA
32111696 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
* *
32111723 ATTTACATTTTTTTC
1 ATTTAAATTATTTTC
32111738 ATATTAATTT
Statistics
Matches: 212, Mismatches: 36, Indels: 67
0.67 0.11 0.21
Matches are distributed among these distances:
21 36 0.17
22 27 0.13
23 20 0.09
24 24 0.11
25 19 0.09
26 24 0.11
27 50 0.24
28 12 0.06
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTAAATTATTTTCTTTCCATTTTA
Found at i:32125413 original size:37 final size:35
Alignment explanation
Indices: 32125358--32125431 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
32125348 ATTTATACAT
*
32125358 TTTTTATATATTACGTATATATATCTTTTAATATTATA
1 TTTTTATATATTACG--TATATATC-TTTAACATTATA
*
32125396 TTTTTAT-TATTATGTATATATCTTTAACATTATA
1 TTTTTATATATTACGTATATATCTTTAACATTATA
32125430 TT
1 TT
32125432 ATATTTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 13 0.38
35 8 0.24
37 6 0.18
38 7 0.21
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (35 bp):
TTTTTATATATTACGTATATATCTTTAACATTATA
Found at i:32125442 original size:20 final size:20
Alignment explanation
Indices: 32125388--32125442 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
32125378 ATATCTTTTA
**
32125388 ATATTATATTT-TTATTATT
1 ATATTATATTTCTTAACATT
* *
32125407 AT-GTATATATCTTTAACATT
1 ATATTATATTTC-TTAACATT
32125427 ATATTATATTTCTTAA
1 ATATTATATTTCTTAA
32125443 TACCGTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 12 0.44
21 7 0.26
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTATATTTCTTAACATT
Found at i:32125563 original size:21 final size:22
Alignment explanation
Indices: 32125537--32125578 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
32125527 ATATATATAC
32125537 TTTTTATATAT-AATATTATTT
1 TTTTTATATATCAATATTATTT
*
32125558 TTTTTATATATCATTATTATT
1 TTTTTATATATCAATATTATT
32125579 ATACTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATATATCAATATTATTT
Found at i:32131147 original size:23 final size:23
Alignment explanation
Indices: 32131117--32131165 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
32131107 ACAAGGTAGT
32131117 GGTGACTTGATCGATGTGAATCC
1 GGTGACTTGATCGATGTGAATCC
32131140 GGTGACTTGATCGATGTGAATCC
1 GGTGACTTGATCGATGTGAATCC
32131163 GGT
1 GGT
32131166 TCCCCTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (23 bp):
GGTGACTTGATCGATGTGAATCC
Found at i:32131861 original size:23 final size:25
Alignment explanation
Indices: 32131807--32131857 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
32131797 GTTGCACAAG
32131807 GGAAAGAGGACTATGTGTGCAGATT
1 GGAAAGAGGACTATGTGTGCAGATT
32131832 GGAAAGAGGACTATGTGTGCAGATT
1 GGAAAGAGGACTATGTGTGCAGATT
32131857 G
1 G
32131858 AAGAAGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.37, T:0.24
Consensus pattern (25 bp):
GGAAAGAGGACTATGTGTGCAGATT
Found at i:32131873 original size:27 final size:25
Alignment explanation
Indices: 32131809--32131865 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
32131799 TGCACAAGGG
*
32131809 AAAGAGGACTATGTGTGCAGATTGG
1 AAAGAGGACTATGTGTGCAGATTGA
32131834 AAAGAGGACTATGTGTGCAGATTGA
1 AAAGAGGACTATGTGTGCAGATTGA
32131859 AGAAGAG
1 A-AAGAG
32131866 CTTGTATGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (25 bp):
AAAGAGGACTATGTGTGCAGATTGA
Found at i:32135448 original size:74 final size:74
Alignment explanation
Indices: 32135319--32135460 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 74
32135309 TGAAATACTG
*
32135319 GATTCTATGCAAAATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
32135384 ACAGGGCAT
66 ACAGGGCAT
* * ** *
32135393 GATTCTATTCAATATGCAAAACAGATTGACTATCACAAAATAAATTAATAGCTTTAGGATGATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
32135458 ACA
66 ACA
32135461 CCTAAGCTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (74 bp):
GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
ACAGGGCAT
Found at i:32135640 original size:42 final size:43
Alignment explanation
Indices: 32135581--32135730 Score: 221
Period size: 43 Copynumber: 3.5 Consensus size: 43
32135571 CGCTATAGGT
*
32135581 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCAGCGC-TTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
* * *
32135623 CCCACAAACGCCGCTAAAAGTCAGGGCTTTTAGCGGCGCTTTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
** * *
32135666 CCCACAAATACTGCTAAAGGTCGGGGTCTTTAGCGGCGCTTTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
32135709 CCCACAAACGCCGCTAAAGGTC
1 CCCACAAACGCCGCTAAAGGTC
32135731 ATAAAATTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 35 0.38
43 58 0.62
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.19
Consensus pattern (43 bp):
CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
Found at i:32136446 original size:43 final size:43
Alignment explanation
Indices: 32136374--32136551 Score: 259
Period size: 43 Copynumber: 4.1 Consensus size: 43
32136364 AAAAATTTGT
* *
32136374 GGCGTTTATGGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGT-GGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
32136419 GGCATTTGTGGGAAAACCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
32136462 GGCGTTTGTGAGAAAAGCGCTGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
32136505 GGCGTTTG-GGATAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGG-GAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
32136548 GGCG
1 GGCG
32136552 CTTTTTTTAC
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 111 0.91
44 3 0.02
45 7 0.06
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:32142617 original size:9 final size:9
Alignment explanation
Indices: 32142603--32142783 Score: 98
Period size: 9 Copynumber: 19.6 Consensus size: 9
32142593 TATTTAAGTA
32142603 TTATGTAAG
1 TTATGTAAG
32142612 TTATGTAAG
1 TTATGTAAG
*
32142621 TTATGATATG
1 TTATG-TAAG
* * *
32142631 ATATAT-AT
1 TTATGTAAG
*
32142639 TTATGTAAA
1 TTATGTAAG
* *
32142648 TTATAT-AT
1 TTATGTAAG
*
32142656 TTATCTAAG
1 TTATGTAAG
32142665 TTATGTAAG
1 TTATGTAAG
*
32142674 TTATGTAAA
1 TTATGTAAG
*
32142683 TTATGATATAAAA
1 TTATG---T-AAG
*
32142696 TATATTTAAG
1 T-TATGTAAG
32142706 TATTATGTAAG
1 --TTATGTAAG
32142717 TTATGTAAG
1 TTATGTAAG
* *
32142726 TTATAT-AT
1 TTATGTAAG
*
32142734 TTATCTAAG
1 TTATGTAAG
*
32142743 TTATATAAG
1 TTATGTAAG
*
32142752 TTATGTACG
1 TTATGTAAG
*
32142761 TTTTGTAAG
1 TTATGTAAG
* *
32142770 TTATATAAA
1 TTATGTAAG
32142779 TTATG
1 TTATG
32142784 ATATCAAATA
Statistics
Matches: 131, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
8 16 0.12
9 90 0.69
10 8 0.06
11 8 0.06
12 2 0.02
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:32142654 original size:17 final size:17
Alignment explanation
Indices: 32142632--32142691 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
32142622 TATGATATGA
32142632 TATATATTTATGTAAAT
1 TATATATTTATGTAAAT
* *
32142649 TATATATTTATCTAAGT
1 TATATATTTATGTAAAT
* *
32142666 TATGTAAGTTATGTAAAT
1 TATAT-ATTTATGTAAAT
32142684 TATGATAT
1 TAT-ATAT
32142692 AAAATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 19 0.58
18 13 0.39
19 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (17 bp):
TATATATTTATGTAAAT
Found at i:32142717 original size:96 final size:96
Alignment explanation
Indices: 32142612--32142814 Score: 291
Period size: 96 Copynumber: 2.1 Consensus size: 96
32142602 ATTATGTAAG
* * *
32142612 TTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTTATGTAAGTT
1 TTATGTAAGTTATG-TAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTT
*
32142676 ATGTAAATTATGATATAAAATATATTTAAGTA
65 ATATAAATTATGATATAAAATATATTTAAGTA
* * * * *
32142708 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTA
1 TTATGTAAGTTATGTAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTTA
* *
32142773 TATAAATTATGATATCAAATATATTTATGTA
66 TATAAATTATGATATAAAATATATTTAAGTA
32142804 TTATGTAAGTT
1 TTATGTAAGTT
32142815 TTTTATTTCA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 23 0.24
96 72 0.76
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (96 bp):
TTATGTAAGTTATGTAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTTA
TATAAATTATGATATAAAATATATTTAAGTA
Found at i:32142742 original size:17 final size:17
Alignment explanation
Indices: 32142717--32142749 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32142707 ATTATGTAAG
*
32142717 TTATGTAAGTTATATAT
1 TTATCTAAGTTATATAT
32142734 TTATCTAAGTTATATA
1 TTATCTAAGTTATATA
32142750 AGTTATGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TTATCTAAGTTATATAT
Found at i:32142908 original size:15 final size:15
Alignment explanation
Indices: 32142888--32142917 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32142878 AAGTAGCAGG
32142888 ATTAAATAATATTTA
1 ATTAAATAATATTTA
32142903 ATTAAATAATATTTA
1 ATTAAATAATATTTA
32142918 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:32143562 original size:275 final size:275
Alignment explanation
Indices: 32143071--32143616 Score: 1092
Period size: 275 Copynumber: 2.0 Consensus size: 275
32143061 GCGTAATAAA
32143071 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
32143136 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
66 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
32143201 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
131 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
32143266 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
196 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
32143331 AAATATTTAAATATT
261 AAATATTTAAATATT
32143346 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
1 AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
32143411 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
66 AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
32143476 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
131 TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
32143541 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
196 TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
32143606 AAATATTTAAA
261 AAATATTTAAA
32143617 ATAAGGTTGG
Statistics
Matches: 271, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
275 271 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (275 bp):
AAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATCGT
AGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTATT
TTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCA
TTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTA
AAATATTTAAATATT
Found at i:32143898 original size:15 final size:15
Alignment explanation
Indices: 32143878--32143906 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32143868 AGAATTTTGA
32143878 AATAAAACGTACCTT
1 AATAAAACGTACCTT
32143893 AATAAAACGTACCT
1 AATAAAACGTACCT
32143907 GGTCTACTCC
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:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:32144415 original size:183 final size:183
Alignment explanation
Indices: 32144107--32144658 Score: 1014
Period size: 183 Copynumber: 3.0 Consensus size: 183
32144097 CCTAGAACAG
*
32144107 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATCTAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
32144172 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCCGTTGAACCAAAAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
32144237 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
32144290 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
32144355 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
32144420 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
* *
32144473 ATGTAAGACTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
32144538 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* * * *
32144603 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
32144656 ATG
1 ATG
32144659 GAACTATATC
Statistics
Matches: 358, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 358 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:32147495 original size:15 final size:15
Alignment explanation
Indices: 32147475--32147523 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
32147465 GGTAAAAATT
32147475 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
32147490 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
*
32147501 TTGAGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
32147516 TTGGGGGA
1 TTGGGGGA
32147524 AATCGGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 2 0.08
14 5 0.19
15 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:32147508 original size:26 final size:26
Alignment explanation
Indices: 32147474--32147526 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
32147464 GGGTAAAAAT
*
32147474 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
32147500 TTTGAGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
32147526 T
1 T
32147527 CGGGGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (26 bp):
TTTGAGGGAGAAGAAGTTGGGGGAAA
Found at i:32147836 original size:28 final size:28
Alignment explanation
Indices: 32147804--32147861 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
32147794 AATCAAAACT
*
32147804 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
32147832 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
32147860 CT
1 CT
32147862 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:32147862 original size:21 final size:21
Alignment explanation
Indices: 32147838--32147881 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32147828 ATCCCTATAA
* *
32147838 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
32147859 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
32147880 CC
1 CC
32147882 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:32148315 original size:41 final size:41
Alignment explanation
Indices: 32148228--32148446 Score: 309
Period size: 41 Copynumber: 5.4 Consensus size: 41
32148218 AATCCTAAAC
* *
32148228 TTTTTAGCGGCGTTTTACCAAAAACGCCGC-AATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
32148268 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* * *
32148309 TTTTTAGCGGCGCTTTACCAAAAGCGTCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
32148350 TTTTTAGTGGCGTTTAACCAAAAGCGCCGCTAATGCTCTTG-
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC-TGA
* *
32148391 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTATTGCTCTG-
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
*
32148431 CTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
32148447 TGGTAAAACG
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 45 0.28
41 117 0.72
42 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
Found at i:32148516 original size:12 final size:12
Alignment explanation
Indices: 32148501--32148526 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32148491 GTTTTTTGAG
32148501 AAAACGCCGCTA
1 AAAACGCCGCTA
32148513 AAAACGCCGCTA
1 AAAACGCCGCTA
32148525 AA
1 AA
32148527 GACCTGTTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:32148975 original size:21 final size:22
Alignment explanation
Indices: 32148943--32148995 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
32148933 CAACTTTCAG
32148943 ACACCATAAATTGT-AGCATTTA
1 ACACC-TAAATTGTCAGCATTTA
*
32148965 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTGTCAGCATTTA
*
32148987 ACACATAAA
1 ACACCTAAA
32148996 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (22 bp):
ACACCTAAATTGTCAGCATTTA
Found at i:32149430 original size:23 final size:23
Alignment explanation
Indices: 32149400--32149707 Score: 256
Period size: 23 Copynumber: 13.5 Consensus size: 23
32149390 GCTGCACTTT
32149400 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
*
32149423 AACACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
32149446 AACA-TCTCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * * *
32149469 TACACCTCAA-GTACAGCGA-TAA
1 AACACTTCAATTTACAGC-ATTTA
* * **
32149491 AACA-TCTCAATTTCCAACAACTA
1 AACACT-TCAATTTACAGCATTTA
** * *
32149514 AACACTTCAATTTGTAGTACTTA
1 AACACTTCAATTTACAGCATTTA
*
32149537 AACACTTCAATTTACAACATTTA
1 AACACTTCAATTTACAGCATTTA
*
32149560 AGCACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
* *
32149583 TACACTTCAATTTATAGCATTT-
1 AACACTTCAATTTACAGCATTTA
*
32149605 AACACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
32149628 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
**
32149651 AACACTTCAATTTGTAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
32149674 AACA-TCTCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* *
32149697 TACACCTCAAT
1 AACACTTCAAT
32149708 CAACATCTCA
Statistics
Matches: 225, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
22 41 0.18
23 177 0.79
24 7 0.03
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (23 bp):
AACACTTCAATTTACAGCATTTA
Found at i:32149456 original size:46 final size:46
Alignment explanation
Indices: 32149384--32149707 Score: 331
Period size: 46 Copynumber: 7.1 Consensus size: 46
32149374 CATAATTTGC
* *
32149384 TCAA-TTGCTGCACTTTAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACT
* * *
32149429 TCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACACC
1 TCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTAAACACT
* * ** * **
32149475 TCAA-GTACAGCGA-TAAAACA-TCTCAATTTCCAACAACTAAACACT
1 TCAATTTGCAGC-ACTTTAACACT-TCAATTTACAACATTTAAACACT
* * * *
32149520 TCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAGCACT
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACT
* * *
32149566 TCAATTTACAGCA-TTTATACACTTCAATTTATAGCATTT-AACACT
1 TCAATTTGCAGCACTTTA-ACACTTCAATTTACAACATTTAAACACT
*
32149611 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACT
* * * *
32149657 TCAATTTGTAGCACTTTAACA-TCTCAATTAACAACATTTATACACC
1 TCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTAAACACT
32149703 TCAAT
1 TCAAT
32149708 CAACATCTCA
Statistics
Matches: 231, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
45 80 0.35
46 150 0.65
47 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (46 bp):
TCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACT
Found at i:32149544 original size:114 final size:114
Alignment explanation
Indices: 32149394--32149707 Score: 386
Period size: 114 Copynumber: 2.8 Consensus size: 114
32149384 TCAATTGCTG
*
32149394 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
32149459 ACAACATTTATACACCTCAA-GTACAGCGATAAAACA-TCTCAATTTCCAA
66 ACAACATTTATACACCTCAATGTACAGC-ATAAAACACT-TCAATTTCCAA
** * * * *
32149508 CAAC-TAAACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACA-TTTAAGCA-CTTCAA
1 C-ACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA-CATC-TCAA
* * * * * ** * *
32149570 TTTACAGCATTTATACACTTCAATTTATAGCATTTAACACTTCAATTTGCAG
63 TTAACAACATTTATACACCTCAATGTACAGCATAAAACACTTCAATTTCCAA
* *
32149622 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACATCTCAATTA
1 CACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
32149687 ACAACATTTATACACCTCAAT
66 ACAACATTTATACACCTCAAT
32149708 CAACATCTCA
Statistics
Matches: 165, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
113 8 0.05
114 143 0.87
115 14 0.08
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (114 bp):
CACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
ACAACATTTATACACCTCAATGTACAGCATAAAACACTTCAATTTCCAA
Found at i:32149609 original size:91 final size:90
Alignment explanation
Indices: 32149397--32149707 Score: 310
Period size: 91 Copynumber: 3.4 Consensus size: 90
32149387 ATTGCTGCAC
*
32149397 TTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAAC
1 TTTAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTAC
* *
32149461 AACATTTATACACCTCAA-GTACAGCGA
64 AACATTTA-ACACTTCAATTTACAGCGA
** * * * * * * *
32149488 TAAAACA-TCTCAATTTCCAACAACTAAACACTTCAATTTGTAGTACTTAAACACTTCAATTTAC
1 TTTAACACT-TCAATTTACAGC-ATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTAC
32149552 AACATTTAAGCACTTCAATTTACAGC-A
64 AACATTTAA-CACTTCAATTTACAGCGA
*
32149579 TTTATACACTTCAATTTATAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
1 TTTA-ACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
* **
32149644 GCATTTAAACACTTCAATTTGTAGC-A
65 ACATTT-AACACTTCAATTTACAGCGA
* * *
32149670 CTTTAACA-TCTCAATTAACAACATTTATACACCTCAAT
1 -TTTAACACT-TCAATTTACAGCATTTA-ACACTTCAAT
32149708 CAACATCTCA
Statistics
Matches: 180, Mismatches: 29, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
90 3 0.02
91 140 0.78
92 36 0.20
93 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (90 bp):
TTTAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAA
CATTTAACACTTCAATTTACAGCGA
Found at i:32150889 original size:12 final size:12
Alignment explanation
Indices: 32150874--32150923 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
32150864 ACATACACAT
32150874 ATTAACATCTCA
1 ATTAACATCTCA
*
32150886 ATTAACA--ACA
1 ATTAACATCTCA
* *
32150896 TTTATACACCTCA
1 ATTA-ACATCTCA
32150909 ATTAACATCTCA
1 ATTAACATCTCA
32150921 ATT
1 ATT
32150924 TCCAGCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 17 0.57
13 5 0.17
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAACATCTCA
Found at i:32153037 original size:7 final size:7
Alignment explanation
Indices: 32153027--32153068 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
32153017 AAATATTAAT
32153027 TTTTTTA
1 TTTTTTA
32153034 TTTTTTA
1 TTTTTTA
32153041 TTTTTTA
1 TTTTTTA
32153048 TTTTTTA
1 TTTTTTA
32153055 TTTTTTA
1 TTTTTTA
32153062 TTTTTTA
1 TTTTTTA
32153069 AATTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:32153074 original size:21 final size:21
Alignment explanation
Indices: 32153029--32153078 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
32153019 ATATTAATTT
**
32153029 TTTTATTTTTTATTTTTTATT
1 TTTTATTTTTTATTTTTTAAA
32153050 TTTTATTTTTTATTTTTTAAA
1 TTTTATTTTTTATTTTTTAAA
32153071 TTTT-TTTT
1 TTTTATTTT
32153079 GAAGATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTATTTTTTATTTTTTAAA
Found at i:32153375 original size:45 final size:45
Alignment explanation
Indices: 32153325--32153426 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 45
32153315 CCCATTCCCT
* *
32153325 TAACCC-TAAAACCCCTAACACC-TAAATCCTAAACTCTAAACCATA
1 TAACCCAT-AAACCCCTAAC-CCTTAAACCCTAAACCCTAAACCATA
* * *
32153370 TAACCCATAAACCCGTAACCCTTAACCCCTAAACCCTAAGCCATA
1 TAACCCATAAACCCCTAACCCTTAAACCCTAAACCCTAAACCATA
*
32153415 -AA-ACATAAACCC
1 TAACCCATAAACCC
32153427 TAAACTTCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 9 0.18
44 4 0.08
45 35 0.71
46 1 0.02
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.18
Consensus pattern (45 bp):
TAACCCATAAACCCCTAACCCTTAAACCCTAAACCCTAAACCATA
Found at i:32153406 original size:7 final size:7
Alignment explanation
Indices: 32153299--32153431 Score: 72
Period size: 7 Copynumber: 18.3 Consensus size: 7
32153289 CACACTAATT
32153299 ACCCTAA
1 ACCCTAA
*
32153306 ACCCTTA
1 ACCCTAA
* *
32153313 ACCCCAT
1 ACCCTAA
* *
32153320 TCCCTTA
1 ACCCTAA
32153327 ACCCTAAA
1 ACCCT-AA
32153335 ACCCCT-A
1 A-CCCTAA
32153342 ACACCTAA
1 AC-CCTAA
*
32153350 ATCCTAA
1 ACCCTAA
*
32153357 ACTCTAA
1 ACCCTAA
*
32153364 ACCATATA
1 ACCCTA-A
32153372 ACCCATAA
1 ACCC-TAA
32153380 ACCCGT-A
1 ACCC-TAA
32153387 ACCCTTAA
1 ACCC-TAA
*
32153395 CCCCTAA
1 ACCCTAA
32153402 ACCCTAA
1 ACCCTAA
* *
32153409 GCCATAA
1 ACCCTAA
* *
32153416 AACATAA
1 ACCCTAA
32153423 ACCCTAA
1 ACCCTAA
32153430 AC
1 AC
32153432 TTCTACCCCT
Statistics
Matches: 93, Mismatches: 26, Indels: 14
0.70 0.20 0.11
Matches are distributed among these distances:
6 1 0.01
7 68 0.73
8 18 0.19
9 6 0.06
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:32153757 original size:7 final size:7
Alignment explanation
Indices: 32153745--32153801 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
32153735 CCAATGGCCA
32153745 TTAAACC
1 TTAAACC
32153752 TTAAACC
1 TTAAACC
*
32153759 ATAAAACC
1 -TTAAACC
* *
32153767 CTAGACC
1 TTAAACC
* *
32153774 ATAGACC
1 TTAAACC
32153781 TTAAACC
1 TTAAACC
32153788 TTAAACC
1 TTAAACC
*
32153795 CTAAACC
1 TTAAACC
32153802 CAAAAGTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.44, C:0.32, G:0.04, T:0.21
Consensus pattern (7 bp):
TTAAACC
Found at i:32153765 original size:15 final size:15
Alignment explanation
Indices: 32153742--32153801 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
32153732 ATACCAATGG
*
32153742 CCATTAAACCTTAAA
1 CCATTAAACCCTAAA
* *
32153757 CCATAAAACCCTAGA
1 CCATTAAACCCTAAA
* *
32153772 CCA-TAGACCTTAAA
1 CCATTAAACCCTAAA
32153786 CC-TTAAACCCTAAA
1 CCATTAAACCCTAAA
32153800 CC
1 CC
32153802 CAAAAGTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
14 20 0.57
15 15 0.43
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CCATTAAACCCTAAA
Found at i:32154030 original size:41 final size:40
Alignment explanation
Indices: 32153986--32154064 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
32153976 TTACCTCTGT
* * * *
32153986 TTTTTAGCTGCGTTTTACCAAAAGCGCCGTTAATGCTCTA
1 TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCTA
* *
32154026 TTTTTAGCGGCGCTTTACTAAAAACGCCGCTATTGCTCT
1 TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCT
32154065 GTGTTTTACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCTA
Found at i:32156639 original size:11 final size:11
Alignment explanation
Indices: 32156625--32156663 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32156615 TTGGTTTTGT
32156625 TTTTGTTTTTC
1 TTTTGTTTTTC
32156636 TTTT-TTTTTC
1 TTTTGTTTTTC
*
32156646 TTTTCTTTTTC
1 TTTTGTTTTTC
*
32156657 TTCTGTT
1 TTTTGTT
32156664 GGGGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTGTTTTTC
Found at i:32166507 original size:41 final size:40
Alignment explanation
Indices: 32166430--32166516 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
32166420 TCAAATACAT
32166430 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAA-TATA
* * * **
32166471 TTAAAACAATTATTAAAATAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATATA
*
32166511 ATAAAA
1 TTAAAA
32166517 AGTGATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.22
41 31 0.77
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATATA
Found at i:32178393 original size:24 final size:24
Alignment explanation
Indices: 32178360--32178406 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
32178350 CATAGAGAAT
* *
32178360 TTTGTGTTTACGTTTTGAGGGTTC
1 TTTGTGTTTAAGTTTTCAGGGTTC
*
32178384 TTTGTTTTTAAGTTTTCAGGGTT
1 TTTGTGTTTAAGTTTTCAGGGTT
32178407 TAGTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTAAGTTTTCAGGGTTC
Done.