Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 224 of 333
Found at i:73970523 original size:80 final size:81
Alignment explanation
Indices: 73970389--73970612 Score: 294
Period size: 80 Copynumber: 2.8 Consensus size: 81
73970379 TGGGATGAAT
* * * *
73970389 AAATGA-CTGAAATACCCCCATAGGTTAAAATAACCAAAATACCCCTATAGGGTAAAATGACTAA
1 AAATGATC-GAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTAA
73970453 AATACCCCCATA-GAGTA
65 AATACCCCCATATG-GTA
* * *
73970470 AAATGATCGAAATTCC-CTATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCT-A
1 AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGA-CTAA
73970533 AATACCCCCATATGGTA
65 AATACCCCCATATGGTA
* * * *
73970550 AAATGATCGAAATACCTCCATAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTA
1 AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTA
73970613 TTTTGCCCTT
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
80 71 0.57
81 53 0.42
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (81 bp):
AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTAAA
ATACCCCCATATGGTA
Found at i:73970578 original size:107 final size:107
Alignment explanation
Indices: 73970389--73970582 Score: 291
Period size: 107 Copynumber: 1.8 Consensus size: 107
73970379 TGGGATGAAT
* * *
73970389 AAATGACTGAAATACCCCCATAGGTTAAAATAACCAAAATACCCCTATAGGGTAAAATGACTAAA
1 AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACTAAA
73970454 ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
66 ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
* * * *
73970496 AAATGACCGAAATACCCCCATAGGGTAAAATGACCTAAATACCCCCATATGGTAAAATGA-TCGA
1 AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACT-AA
* *
73970560 AATACCTCCATAGGGTAAAATGA
65 AATACCCCCATAGAGTAAAATGA
73970583 CTGTAATACC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 1 0.01
107 76 0.99
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (107 bp):
AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACTAAA
ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
Found at i:73970632 original size:27 final size:27
Alignment explanation
Indices: 73970602--73970897 Score: 244
Period size: 27 Copynumber: 11.0 Consensus size: 27
73970592 CCCTGTAGGG
73970602 TAAAATGACTATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
73970629 TAAAATGACGATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGA
* * * * *
73970656 CAAAATGACTGTTTTGCCCTTGTATAA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
73970683 TAAAATGACGATTTTGTCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* * *
73970710 TAAAATGACGATTTTACCCTTATATGGA
1 TAAAATGACTATTTTGCCCTTATGT-GA
** **
73970738 -AAAATGACTGCTTTGCCC-T-TGTTT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
73970762 TAAAATGACTGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
73970789 TAAGATGAC-AGTTTTGTCCTTATGTTG-
1 TAAAATGACTA-TTTTGCCCTTATG-TGA
* ** *
73970816 TAAAATGA-TGGTTTTGCCCTTATAAGG
1 TAAAATGACT-ATTTTGCCCTTATGTGA
* *
73970843 TAAAATGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGA
** * *
73970870 TAGGATGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
73970897 T
1 T
73970898 GTATGTTCAT
Statistics
Matches: 213, Mismatches: 46, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
25 19 0.09
26 3 0.01
27 186 0.87
28 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:73970661 original size:54 final size:54
Alignment explanation
Indices: 73970600--73970897 Score: 286
Period size: 54 Copynumber: 5.6 Consensus size: 54
73970590 ACCCCTGTAG
* *
73970600 GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
* * * *
73970654 GGCAAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
* * *
73970708 GATAAAATGAC-GATTTTACCCTTATATGGA-AAAATGACTG-CTTTGCCC-T-TGT
1 GGTAAAATGACTG-TTTTGCCCTTATAT-GATAAAATGAC-GATTTTGCCCTTATGT
** * * * *
73970760 TTTAAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGTTTTGTCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGA-TTTTGCCCTTATGT
* * * * *
73970814 TGTAAAATGA-TGGTTTTGCCCTTATAAGGTAAAATGACTATTTTGCCTTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
** * *
73970868 GGTAGGATGACTGTTTTGCCCCTATGTGAT
1 GGTAAAATGACTGTTTTGCCCTTATATGAT
73970898 GTATGTTCAT
Statistics
Matches: 197, Mismatches: 35, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
51 1 0.01
52 37 0.19
53 5 0.03
54 150 0.76
55 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
Found at i:73970661 original size:81 final size:80
Alignment explanation
Indices: 73970576--73970895 Score: 324
Period size: 81 Copynumber: 4.0 Consensus size: 80
73970566 TCCATAGGGT
** * *
73970576 AAAATGACTGTAATACCCCTGTAGGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
1 AAAATGACTGTTTTGCCCTTGTA-GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
*
73970641 TTTGCCCTTATGTGGC
65 TTTGCCCTTATGTGGA
** * *
73970657 AAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATGTGATAAAATGACGAT
1 AAAATGACTGTTTTGCCCTTGTA-GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
* *
73970722 TTTACCCTTATATGGA
65 TTTGCCCTTATGTGGA
* ** * * *
73970738 AAAATGACTGCTTTGCCCTTGT-TTTAAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGT
1 AAAATGACTGTTTTGCCCTTGTAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGA-T
* * *
73970801 TTTGTCCTTATGTTGT
65 TTTGCCCTTATGTGGA
* * * **
73970817 AAAATGA-TGGTTTTGCCCTTATAAGGTAAAATGACTATTTTGCCTTTATGTGGTAGGATGACTG
1 AAAATGACT-GTTTTGCCCTTGT-AGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGAC-G
*
73970881 -TTTTGCCCCTATGTG
63 ATTTTGCCCTTATGTG
73970896 ATGTATGTTC
Statistics
Matches: 197, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
78 2 0.01
79 61 0.31
81 134 0.68
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (80 bp):
AAAATGACTGTTTTGCCCTTGTAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
TTGCCCTTATGTGGA
Found at i:73970812 original size:106 final size:106
Alignment explanation
Indices: 73970657--73970852 Score: 270
Period size: 106 Copynumber: 1.8 Consensus size: 106
73970647 CTTATGTGGC
*
73970657 AAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATG-TGATAAAATGACGA
1 AAAATGACTGTTTTGCCCTTATATAATAAAATGACGATTTTGTCCTTATGTTG-TAAAATGACGA
*
73970721 TTTTACCCTTATATGGAAAAATGACTGCTTTGCCCTTGTTTT
65 TTTTACCCTTATAAGGAAAAATGACTGCTTTGCCCTTGTTTT
* ** * * *
73970763 AAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGTTTTGTCCTTATGTTGTAAAATGATGG
1 AAAATGACTGTTTTGCCCTTATATAATAAAATGACGA-TTTTGTCCTTATGTTGTAAAATGACGA
* *
73970827 TTTTGCCCTTATAAGGTAAAATGACT
65 TTTTACCCTTATAAGGAAAAATGACT
73970853 ATTTTGCCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 75 0.96
107 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (106 bp):
AAAATGACTGTTTTGCCCTTATATAATAAAATGACGATTTTGTCCTTATGTTGTAAAATGACGAT
TTTACCCTTATAAGGAAAAATGACTGCTTTGCCCTTGTTTT
Found at i:73975294 original size:15 final size:15
Alignment explanation
Indices: 73975251--73975308 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
73975241 AGAATCAAAC
*
73975251 AAAAGAAAAAAAA-T
1 AAAATAAAAAAAATT
**
73975265 AAAAT-GTAAAAATT
1 AAAATAAAAAAAATT
73975279 -AAATAAAAAAATATT
1 AAAATAAAAAAA-ATT
73975294 AAAATAAAAATAAAT
1 AAAATAAAAA-AAAT
73975309 ATGGCTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
13 9 0.26
14 9 0.26
15 3 0.09
16 11 0.32
17 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAAAATT
Found at i:73977981 original size:46 final size:46
Alignment explanation
Indices: 73977929--73978192 Score: 397
Period size: 46 Copynumber: 5.7 Consensus size: 46
73977919 TGCTATAGTG
* * *
73977929 TCTTTCAACTATGGTCTTACTA-ATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTAC-ACA-TTTCATATCAGGTTGCCATGGTA
*
73977975 TCTTTCAAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
73978021 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
73978067 TCTTTCAACCATGGTCTTACACATTTCATATCAAGCTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
73978113 TCTTTCAACCATGGTCTTATACATTTCATATCAGGCTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
73978159 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
73978193 AGAGCACACT
Statistics
Matches: 201, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.02
46 196 0.98
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:73980645 original size:30 final size:29
Alignment explanation
Indices: 73980609--73980676 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
73980599 CACCCTTAAA
* * *
73980609 ATATTTACACTATTAGTCCTTTAACTTTTC
1 ATATTTACACT-TTAATCCTTCAAATTTTC
*
73980639 ATATTTACACTTTAATCCTTCAAATTTTG
1 ATATTTACACTTTAATCCTTCAAATTTTC
73980668 AGTATTTAC
1 A-TATTTAC
73980677 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACACTTTAATCCTTCAAATTTTC
Found at i:73985724 original size:40 final size:40
Alignment explanation
Indices: 73985668--73985958 Score: 320
Period size: 40 Copynumber: 7.3 Consensus size: 40
73985658 ATTTGAATGA
* * *
73985668 TATCCGGGCTAAGTCCCTAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
73985708 TATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
73985748 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
73985788 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
73985828 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
73985868 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
73985908 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
73985948 TATCC-GGCTAA
1 TATCCGGGCTAA
73985959 ATTCCGAAGA
Statistics
Matches: 219, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
39 9 0.04
40 205 0.94
41 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:73985884 original size:120 final size:120
Alignment explanation
Indices: 73985671--73985958 Score: 436
Period size: 120 Copynumber: 2.4 Consensus size: 120
73985661 TGAATGATAT
* * * * * * *
73985671 CCGGGCTAAGTCCCTAAGGCATTTATGCTAGTGATTTTATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
* *
73985736 TGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
*
73985791 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
73985856 TGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* * *
73985911 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
73985959 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
119 6 0.04
120 145 0.94
121 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (120 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:73988988 original size:50 final size:50
Alignment explanation
Indices: 73988929--73989023 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
73988919 TTTAGTTCTA
** * *
73988929 TCCATATGATGTCATAACCCACCAATTATGGTCTTATATGATATGTTATT
1 TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATGTTATT
* *
73988979 TCCATATGATACCATATCCCACCAGCTATGGTCTTACATGATATG
1 TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATG
73989024 GTGCCATGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (50 bp):
TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATGTTATT
Found at i:73989740 original size:17 final size:17
Alignment explanation
Indices: 73989718--73989751 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
73989708 CAACATAAAT
73989718 CATAACAATAATATTCA
1 CATAACAATAATATTCA
73989735 CATAACAATAATATTCA
1 CATAACAATAATATTCA
73989752 AACTCATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAACAATAATATTCA
Found at i:73996366 original size:40 final size:40
Alignment explanation
Indices: 73996322--73996451 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
73996312 GCTATCGATA
73996322 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
73996362 TAATATATATCCGGGTTAAATCCCACCGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
73996402 TAATATATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
73996444 TACTATAT
1 TAATATAT
73996452 TCGGACTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.54
41 2 0.02
42 35 0.43
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:73996410 original size:42 final size:42
Alignment explanation
Indices: 73996324--73996451 Score: 197
Period size: 42 Copynumber: 3.1 Consensus size: 42
73996314 TATCGATATA
73996324 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
73996364 ATATATATCCGGGTTAAATCCCACCGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
73996406 ATATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
73996448 ATAT
1 ATAT
73996452 TCGGACTTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 37 0.47
41 1 0.01
42 41 0.52
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:74009908 original size:54 final size:53
Alignment explanation
Indices: 74009788--74009940 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 53
74009778 TTAGTTTACC
* * * * * *
74009788 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCTCGACTTGTAAAATTACCAAAGTACCCTCAGTTTAGA
** * *
74009841 AAATTACACAAATATCCTCGATTTGTAAAATTACCGAAA-TACCCTCAGTTTGGA
1 AAATTACTGAAATA-CCTCGACTTGTAAAATTACC-AAAGTACCCTCAGTTTAGA
* * *
74009895 AAATTACTGAAATACCCTTGACATGTAAAATTATCAAAGTACCCTC
1 AAATTACTGAAATA-CCTCGACTTGTAAAATTACCAAAGTACCCTC
74009941 GAATTACAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
53 15 0.19
54 63 0.78
55 3 0.04
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (53 bp):
AAATTACTGAAATACCTCGACTTGTAAAATTACCAAAGTACCCTCAGTTTAGA
Found at i:74009912 original size:27 final size:27
Alignment explanation
Indices: 74009788--74009912 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
74009778 TTAGTTTACC
*
74009788 AAATTACTGAAATACCCCCAG-TTGTA
1 AAATTACTGAAATACCCTCAGTTTGTA
* * * *
74009814 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCAGTTTGTA
** *
74009841 AAATTACACAAATATCCTC-GATTTGTA
1 AAATTACTGAAATACCCTCAG-TTTGTA
* *
74009868 AAATTACCGAAATACCCTCAGTTTGGA
1 AAATTACTGAAATACCCTCAGTTTGTA
74009895 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
74009913 TGACATGTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
25 3 0.04
26 16 0.19
27 59 0.71
28 5 0.06
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAGTTTGTA
Found at i:74010233 original size:27 final size:27
Alignment explanation
Indices: 74009934--74010226 Score: 372
Period size: 27 Copynumber: 10.8 Consensus size: 27
74009924 ATTATCAAAG
*
74009934 TACCCTCGAATTACAAAAATTACTGTTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* * *
74009962 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
74009989 TACCCTCGATTTATAAAATTA-TCGATT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
74010016 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
74010043 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
74010070 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
74010097 TACCCTCGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
74010124 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
74010151 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
74010178 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
74010205 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAAAATTAC
74010227 CATTTTATCC
Statistics
Matches: 233, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 219 0.94
28 13 0.06
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:74010783 original size:31 final size:31
Alignment explanation
Indices: 74010741--74010820 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
74010731 TTGCATTCAC
*
74010741 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
* *
74010772 ATTTTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTG
*
74010803 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
74010821 ATTCTGATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTG
Found at i:74010803 original size:6 final size:6
Alignment explanation
Indices: 74010741--74010840 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
74010731 TTGCATTCAC
* * * *
74010741 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
74010790 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
74010839 AT
1 AT
74010841 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.05
6 65 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:74013437 original size:48 final size:48
Alignment explanation
Indices: 74013356--74013622 Score: 286
Period size: 48 Copynumber: 5.5 Consensus size: 48
74013346 GTACCAATGA
* * ** * *
74013356 CATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGTCTATGC
1 CATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCGCCGATGC
* * *
74013404 CATGTCCTAGACATGGTCTTACACTGGCACACATATCATTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * * * * *
74013452 CATGTCCAAGACACGGTCTTACACTGGCACATATATGATCGCTGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * * **
74013500 CATGCCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATAA
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * *
74013548 CATGTCCCAGACATGGTCCTACACAGGCACACATCTCAGAT-GTCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATC--ATCGCCGATGC
74013597 CATGTCCCAGACATGGTCTTACACAG
1 CATGTCCCAGACATGGTCTTACACAG
74013623 AATCTCATTT
Statistics
Matches: 183, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 151 0.83
49 29 0.16
50 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
Found at i:74014026 original size:36 final size:36
Alignment explanation
Indices: 74013979--74014051 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
74013969 GTTTTCTTTG
74013979 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
1 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
74014015 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
1 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
74014051 T
1 T
74014052 TATTCGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (36 bp):
TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
Found at i:74014421 original size:5 final size:5
Alignment explanation
Indices: 74014411--74014437 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
74014401 GTGAGCATTC
74014411 AATCG AATCG AATCG AATCG AATCG AA
1 AATCG AATCG AATCG AATCG AATCG AA
74014438 AATTTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AATCG
Found at i:74017932 original size:15 final size:15
Alignment explanation
Indices: 74017920--74017952 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
74017910 ATAGAGAAGA
74017920 CCAAGACAAAGAAAT
1 CCAAGACAAAGAAAT
74017935 CCAAGACAAAGAAAT
1 CCAAGACAAAGAAAT
74017950 CCA
1 CCA
74017953 TGATAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (15 bp):
CCAAGACAAAGAAAT
Found at i:74021693 original size:48 final size:48
Alignment explanation
Indices: 74021607--74021828 Score: 216
Period size: 48 Copynumber: 4.6 Consensus size: 48
74021597 ATAAAGTACT
* * * * *
74021607 AATGCCATGTCCCCGACATGATCTTACA-T-GAATCCACATATCATTGCC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCC
**
74021655 AATGACATGTCATAGACATGGTCTTACACTGGCACACATATCATCGCC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * * * *
74021703 GATGCCATGTCCTAGACATGGTCTTACAATGGCACATATATCATCACC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * * *
74021751 GATGATATGTCCCAGACATGGTCTTACACAGGCACACATCTCAAAT-GTC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATC--ATCGCC
*
74021800 AATGCCATGTCCCAGACATGGTCTTACAC
1 AATGACATGTCCCAGACATGGTCTTACAC
74021829 GGAATCTCAT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 113 0.78
49 28 0.19
50 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (48 bp):
AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
Found at i:74022447 original size:28 final size:28
Alignment explanation
Indices: 74022415--74022508 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
74022405 AAACATCATG
74022415 CAGTAACAGTTTGGGCCTTAGCCCTATA
1 CAGTAACAGTTTGGGCCTTAGCCCTATA
74022443 CAGTAATAGTGCAGTTTGGGCCTTAGCCCTATA
1 CAGT-A-A---CAGTTTGGGCCTTAGCCCTATA
* * *
74022476 CAGTAACTA-TGTGGGCCTAAGCCCAATA
1 CAGTAAC-AGTTTGGGCCTTAGCCCTATA
74022504 CAGTA
1 CAGTA
74022509 TTAGAACAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 26 0.46
29 2 0.04
30 1 0.02
31 1 0.02
32 1 0.02
33 26 0.46
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTTTGGGCCTTAGCCCTATA
Found at i:74022668 original size:27 final size:27
Alignment explanation
Indices: 74022638--74022729 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
74022628 AGCAAAGTTG
* * *
74022638 CCAGAAACAGTAAACGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* *
74022665 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* *
74022692 CCAGTAACAGTGAATGTGACATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
74022719 CCAGT-ACAGTA
1 CCAGTAACAGTA
74022730 CTTCCTCCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.09
27 50 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCATAGCCA
Found at i:74022951 original size:27 final size:27
Alignment explanation
Indices: 74022900--74022951 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
74022890 TCGGTCATTT
*
74022900 TACCCTATAGGGGTATTATGGTAATCC
1 TACCCTATAGGGGTATTATGATAATCC
74022927 TACCCTATAGGGGTATT-TCGATAAT
1 TACCCTATAGGGGTATTAT-GATAAT
74022952 TTTGCAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
TACCCTATAGGGGTATTATGATAATCC
Found at i:74022993 original size:54 final size:54
Alignment explanation
Indices: 74022935--74023048 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
74022925 CCTACCCTAT
** *
74022935 AGGGGTATTTCGATAATTTTGCAAACC-GGGGCTATTTTAGTAATTTCACAAATC
1 AGGGGTATTTCGATAAGCTTAC-AACCTGGGGCTATTTTAGTAATTTCACAAATC
* * * *
74022989 AGGGGTATTTCGGTAAGCTTACAACCTGGGGGTATTTTGGTAATTTCATAAATC
1 AGGGGTATTTCGATAAGCTTACAACCTGGGGCTATTTTAGTAATTTCACAAATC
*
74023043 AAGGGT
1 AGGGGT
74023049 CTTAACGACC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (54 bp):
AGGGGTATTTCGATAAGCTTACAACCTGGGGCTATTTTAGTAATTTCACAAATC
Found at i:74023004 original size:27 final size:27
Alignment explanation
Indices: 74022935--74023048 Score: 72
Period size: 27 Copynumber: 4.2 Consensus size: 27
74022925 CCTACCCTAT
* **
74022935 AGGGGTATTTCGATAATTTTGCAAA-C
1 AGGGGTATTTCGGTAATTTCACAAATC
* **
74022961 CGGGGCTATTTTAGTAATTTCACAAATC
1 AGGGG-TATTTCGGTAATTTCACAAATC
* *
74022989 AGGGGTATTTCGGTAAGCTT-AC-AACC
1 AGGGGTATTTCGGTAA-TTTCACAAATC
* * *
74023015 TGGGGGTATTTTGGTAATTTCATAAATC
1 -AGGGGTATTTCGGTAATTTCACAAATC
*
74023043 AAGGGT
1 AGGGGT
74023049 CTTAACGACC
Statistics
Matches: 64, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
26 9 0.14
27 45 0.70
28 10 0.16
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAATC
Found at i:74024981 original size:106 final size:106
Alignment explanation
Indices: 74024796--74025007 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 106
74024786 AAATAAATAC
*
74024796 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACATGCCACCTTGCCAC
1 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
**
74024861 TACTGTAACATCCCAAAATAGGGCCTAGTTGAATAGTGGTT
66 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
*
74024902 CTCGTTTGTGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
1 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
74024967 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
66 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
74025008 TGGGGACCAC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (106 bp):
CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
Found at i:74033337 original size:11 final size:11
Alignment explanation
Indices: 74033321--74033360 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
74033311 GCCACTTTTC
74033321 ATAATTAATTA
1 ATAATTAATTA
*
74033332 ATAATT--TTC
1 ATAATTAATTA
74033341 ATAATTAATTA
1 ATAATTAATTA
74033352 ATAA-TAATT
1 ATAATTAATT
74033361 TATTTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 5 0.20
11 12 0.48
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTAATTA
Found at i:74033341 original size:20 final size:20
Alignment explanation
Indices: 74033316--74033356 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
74033306 ACTGGGCCAC
74033316 TTTTCATAATTAATTAATAA
1 TTTTCATAATTAATTAATAA
74033336 TTTTCATAATTAATTAATAA
1 TTTTCATAATTAATTAATAA
74033356 T
1 T
74033357 AATTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTCATAATTAATTAATAA
Found at i:74033413 original size:22 final size:22
Alignment explanation
Indices: 74033371--74033415 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
74033361 TATTTAACCC
*
74033371 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
74033393 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
74033415 A
1 A
74033416 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:74033579 original size:22 final size:22
Alignment explanation
Indices: 74033554--74033595 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
74033544 AAAAAACCAA
74033554 AATTAATCAAAATTAATTATAG
1 AATTAATCAAAATTAATTATAG
* *
74033576 AATTAATTAAAATTCATTAT
1 AATTAATCAAAATTAATTAT
74033596 GTTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAATCAAAATTAATTATAG
Found at i:74033594 original size:10 final size:10
Alignment explanation
Indices: 74033552--74033594 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
74033542 GAAAAAAACC
*
74033552 AAAATTAATC
1 AAAATTAATT
74033562 AAAATTAATT
1 AAAATTAATT
74033572 ATAGAATTAATT
1 A-A-AATTAATT
*
74033584 AAAATTCATT
1 AAAATTAATT
74033594 A
1 A
74033595 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 18 0.62
11 2 0.07
12 9 0.31
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:74038471 original size:79 final size:79
Alignment explanation
Indices: 74038340--74038500 Score: 232
Period size: 79 Copynumber: 2.0 Consensus size: 79
74038330 GCCTGTGTGT
* * *
74038340 CCAGGCCGTGCCAAACCTGTAGGGTATATTGACTTAATTCGTAGGGCTACCCCAAGGGAGACACA
1 CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
*
74038405 ACCTTGTAACATGA
66 ACCGTGTAACATGA
* * * * *
74038419 CCAGGCCATGTCAAACCTGTAGGTTATATTGTCTTAATTCATAGGGCTACCCCAGGGGACACACG
1 CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
*
74038484 GCCGTGTAACATGA
66 ACCGTGTAACATGA
74038498 CCA
1 CCA
74038501 TGTGTCGCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (79 bp):
CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
ACCGTGTAACATGA
Found at i:74039467 original size:47 final size:48
Alignment explanation
Indices: 74039390--74039521 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 48
74039380 CACAATCGAT
* * * ***
74039390 AAGTACTTATACCATGGCCTATAGCTAAATCAAGGTAACTTAT-CTTG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
* * *
74039437 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCCCAA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
* *
74039485 AAATACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
74039522 TTATTTGCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 37 0.52
48 34 0.48
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
Found at i:74043131 original size:24 final size:25
Alignment explanation
Indices: 74043103--74043215 Score: 90
Period size: 25 Copynumber: 4.5 Consensus size: 25
74043093 TGAGCTTTTC
*
74043103 GATTATGGCTCTTCGTGAGTTTCCT
1 GATTATGGCTCTTCGTGAGCTTCCT
*
74043128 -ATTAATTGGCTCTTTGTGAGCTTCCT
1 GATT-A-TGGCTCTTCGTGAGCTTCCT
* * *
74043154 GA-TATGGCTC-TCTTGAACTTCCC
1 GATTATGGCTCTTCGTGAGCTTCCT
* * *
74043177 GATATATGGCTC-TCCTGAGATCCCT
1 GAT-TATGGCTCTTCGTGAGCTTCCT
74043202 GATTACTGGCTCTT
1 GATTA-TGGCTCTT
74043216 TAGAGCTACC
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
23 11 0.16
24 11 0.16
25 27 0.39
26 20 0.29
27 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (25 bp):
GATTATGGCTCTTCGTGAGCTTCCT
Found at i:74043641 original size:49 final size:49
Alignment explanation
Indices: 74043569--74043667 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
74043559 TCAGTATTTA
74043569 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
1 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
*
74043618 TATGAACTATATAACTAACATGCTTGATGAGGATTTCTGTGTGATTAGG
1 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
74043667 T
1 T
74043668 TATTGATTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (49 bp):
TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
Found at i:74050962 original size:57 final size:58
Alignment explanation
Indices: 74050893--74051041 Score: 178
Period size: 57 Copynumber: 2.6 Consensus size: 58
74050883 ATAGTATAAC
* *
74050893 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAAAAGAG-CTCA-ATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATACTCAAAAG-GTATCATATT
* * * * *
74050950 AGGATTACCAGTCCAGGCTAAA-CCCTAATCATAACGTATACTCGAGAGGTATTATATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTAT-ATAACGTATACTCAAAAGGTATCATATT
* *
74051008 AGGATTACCAGTCCAGGCTAAATTCTTTCTATAA
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAA
74051042 TGAGTTCGAT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
56 6 0.08
57 39 0.51
58 29 0.38
59 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATACTCAAAAGGTATCATATT
Found at i:74062453 original size:47 final size:47
Alignment explanation
Indices: 74062384--74062509 Score: 180
Period size: 47 Copynumber: 2.7 Consensus size: 47
74062374 TCAATAAGTG
* *
74062384 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCGGAGTA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
* * * ***
74062431 CCTATACCATGGCCCGTAGCCAAATTAAGGTAACTCCTCTTTGAATA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
74062478 CCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTA
74062510 CCATTCGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
Found at i:74073535 original size:43 final size:42
Alignment explanation
Indices: 74073488--74073589 Score: 98
Period size: 43 Copynumber: 2.4 Consensus size: 42
74073478 GGATAGGATC
* * *
74073488 TTACATGAAATCAATTAACGATGCCAATGTCCCAGACATGGTA
1 TTACATGAAATCAAAT-ACAATGCCAATATCCCAGACATGGTA
* * * *
74073531 TTACA-CATAATCACAATACAATGCGAATATCCTAGACATGGTC
1 TTACATGA-AATCA-AATACAATGCCAATATCCCAGACATGGTA
*
74073574 TTACATGTAATCAAAT
1 TTACATGAAATCAAAT
74073590 CTCGATAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.09
43 41 0.87
44 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (42 bp):
TTACATGAAATCAAATACAATGCCAATATCCCAGACATGGTA
Found at i:74075947 original size:15 final size:15
Alignment explanation
Indices: 74075927--74076012 Score: 64
Period size: 15 Copynumber: 6.2 Consensus size: 15
74075917 CTTCCCATCC
74075927 TCTTCTTATTCTCCT
1 TCTTCTTATTCTCCT
*
74075942 TCTTCTCA-T-T-C-
1 TCTTCTTATTCTCCT
74075953 TC-T-TTATTCTCCT
1 TCTTCTTATTCTCCT
74075966 TCTTCTTA-T-T-CT
1 TCTTCTTATTCTCCT
*
74075978 TCTTCTTTTTCTTCCT
1 TCTTCTTATTC-TCCT
*
74075994 CTCTTCTTATTCTTCT
1 -TCTTCTTATTCTCCT
74076010 TCT
1 TCT
74076013 ATTGTCACAC
Statistics
Matches: 55, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 3 0.05
12 11 0.20
13 5 0.09
14 3 0.05
15 14 0.25
16 5 0.09
17 10 0.18
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTTCTTATTCTCCT
Found at i:74075964 original size:24 final size:26
Alignment explanation
Indices: 74075914--74076012 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 26
74075904 ATCTCCATTT
* *
74075914 CTTCTTCCCATCCTCTTCTTATTCTC
1 CTTCTTCTCATTCTCTTCTTATTCTC
74075940 CTTCTTCTCATTCTC-T-TTATTCTC
1 CTTCTTCTCATTCTCTTCTTATTCTC
* *
74075964 CTTCTTCTTATTCTTCTTCTTTTTCTTC
1 CTTCTTCTCATTC-TCTTCTTATTC-TC
*
74075992 CTCTCTTCTTATTCTTCTTCT
1 CT-TCTTCTCATTC-TCTTCT
74076013 ATTGTCACAC
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
24 20 0.31
25 3 0.05
26 14 0.22
27 5 0.08
28 4 0.06
29 18 0.28
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (26 bp):
CTTCTTCTCATTCTCTTCTTATTCTC
Found at i:74075977 original size:6 final size:6
Alignment explanation
Indices: 74075927--74076012 Score: 61
Period size: 6 Copynumber: 14.5 Consensus size: 6
74075917 CTTCCCATCC
* * * * *
74075927 TCTTCT TATTCT CCTTCT TC-TCAT TC-TCTT TATTCT CCTTCT TCTTAT
1 TCTTCT TCTTCT TCTTCT TCTTC-T TCTTC-T TCTTCT TCTTCT TCTTCT
* * *
74075975 TCTTCT TCTTTT TCTTCC TC-TCT TCTTAT TCTTCT TCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCT
74076013 ATTGTCACAC
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
5 6 0.10
6 52 0.87
7 2 0.03
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (6 bp):
TCTTCT
Found at i:74077440 original size:15 final size:15
Alignment explanation
Indices: 74077420--74077450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74077410 AAATATGAAA
74077420 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
74077435 GATATGTTTTGTATT
1 GATATGTTTTGGATT
74077450 G
1 G
74077451 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:74078556 original size:18 final size:17
Alignment explanation
Indices: 74078533--74078569 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
74078523 CTTGGCCCAT
74078533 TGCAGTAATAGTAAACAG
1 TGCAGTAATAGT-AACAG
74078551 TGCAGTAATAGTAACAG
1 TGCAGTAATAGTAACAG
74078568 TG
1 TG
74078570 TAATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (17 bp):
TGCAGTAATAGTAACAG
Found at i:74078945 original size:27 final size:27
Alignment explanation
Indices: 74078915--74079135 Score: 290
Period size: 27 Copynumber: 8.3 Consensus size: 27
74078905 GGTAAAACAA
* *
74078915 TCATCTTACCATAAAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
74078942 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
74078969 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
* * *
74078996 TCATTTTACCCTATAAGGACAAAATAA
1 TCATTTTACCATATAAGGGCAAAATAG
74079023 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
* *
74079050 TCATTTTATCATATAAGGGTAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
* *
74079077 TCA-TTTACCATATAAGGGTAAAACAG
1 TCATTTTACCATATAAGGGCAAAATAG
*
74079103 TCA-TTTACCACATAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
74079129 TCATTTT
1 TCATTTT
74079136 GTCTCATAAG
Statistics
Matches: 176, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 49 0.28
27 125 0.71
28 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAATAG
Found at i:74079055 original size:81 final size:81
Alignment explanation
Indices: 74078915--74079147 Score: 328
Period size: 81 Copynumber: 2.9 Consensus size: 81
74078905 GGTAAAACAA
* *
74078915 TCATCTTACCATAAAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
74078980 CATAAGGGCAAAATAG
66 CATAAGGGCAAAATAG
* * * *
74078996 TCATTTTACCCTATAAGGACAAAATAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTATCA
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTA-CC
*
74079061 T-ATAAGGGTAAAATAG
65 TCATAAGGGCAAAATAG
* * * **
74079077 TCA-TTTACCATATAAGGGTAAAACAGTCA-TTTACCACATAAGGGCAAAATAGTCATTTTGTCT
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
74079140 CATAAGGG
66 CATAAGGG
74079148 TTTAGGTACG
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 36 0.27
80 21 0.16
81 74 0.55
82 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (81 bp):
TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
CATAAGGGCAAAATAG
Found at i:74081333 original size:45 final size:41
Alignment explanation
Indices: 74081258--74081380 Score: 113
Period size: 41 Copynumber: 2.9 Consensus size: 41
74081248 ATATGTGTTC
* * * *
74081258 TCGTGTAAGACCACGTCTGGGGCGTTGGCATCGATATATGTGGT
1 TCGTGTAAGACCATGTCTGGGAC-ATGGCATCGATAT-T-TGAT
* *
74081302 TACGTGTAAGACCATGTCTAGGACATCGGCATTG-TATTTGAT
1 T-CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATTTGAT
* *
74081344 TCGTGTAAGACCCTGTATGGGACAGTGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGACA-TGGCATCGATAT
74081381 GAGATAGCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 26 0.40
42 8 0.12
43 1 0.02
44 5 0.08
45 25 0.38
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATGGCATCGATATTTGAT
Found at i:74084260 original size:30 final size:30
Alignment explanation
Indices: 74084245--74084437 Score: 305
Period size: 30 Copynumber: 6.4 Consensus size: 30
74084235 AAACCAAATG
* *
74084245 AGAATCAAAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
74084275 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
74084305 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
74084336 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
74084366 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
74084396 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
74084427 AGAATCAGAAT
1 AGAATCAGAAT
74084438 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
30 101 0.67
31 49 0.33
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:74084262 original size:6 final size:6
Alignment explanation
Indices: 74084245--74084437 Score: 191
Period size: 6 Copynumber: 31.8 Consensus size: 6
74084235 AAACCAAATG
* * *
74084245 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
74084293 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
74084342 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
74084390 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
74084438 GTGAATGCAA
Statistics
Matches: 155, Mismatches: 18, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
5 10 0.06
6 133 0.86
7 10 0.06
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:74084348 original size:91 final size:91
Alignment explanation
Indices: 74084245--74084437 Score: 377
Period size: 91 Copynumber: 2.1 Consensus size: 91
74084235 AAACCAAATG
*
74084245 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
74084310 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
74084336 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
74084401 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
74084427 AGAATCAGAAT
1 AGAATCAGAAT
74084438 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 101 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGACAGAATC
Found at i:74084592 original size:27 final size:26
Alignment explanation
Indices: 74084555--74084620 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
74084545 AGCATGGCTG
*
74084555 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
74084581 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
74084608 CCAGAATCAGATA
1 CCAGAA-CAGATA
74084621 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:74084625 original size:27 final size:27
Alignment explanation
Indices: 74084555--74084628 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
74084545 AGCATGGCTG
* *
74084555 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
74084581 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
74084608 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
74084629 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:74084635 original size:27 final size:27
Alignment explanation
Indices: 74084579--74084636 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
74084569 GTGACAGAGT
* * *
74084579 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
74084606 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
74084633 CACC
1 CACC
74084637 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:74084841 original size:22 final size:22
Alignment explanation
Indices: 74084793--74084851 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
74084783 GTAAATACGT
*
74084793 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
74084815 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
74084837 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
74084852 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:74085018 original size:27 final size:26
Alignment explanation
Indices: 74084939--74085021 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
74084929 TCGATCGGTT
* * *
74084939 AACAAATATTGTGGCAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
74084965 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
74084992 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
74085019 AAC
1 AAC
74085022 GCTTCCTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:74085250 original size:27 final size:27
Alignment explanation
Indices: 74085220--74085407 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
74085210 GGGGCAAAAT
* * * *
74085220 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74085247 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
74085274 AGTATTTCTACCCTACAATGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74085301 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74085328 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74085355 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74085382 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
74085408 TAGTAATTTC
Statistics
Matches: 134, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:74085357 original size:81 final size:82
Alignment explanation
Indices: 74085222--74085415 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 82
74085212 GGCAAAATGG
* * * * * * *
74085222 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
74085287 TACAATGGTGTTTC-GA
66 TACAAGGGTATTTCGGA
* *
74085303 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
74085368 TATAGGGGTATTTCGGA
66 TACAAGGGTATTTCGGA
*
74085385 -AATTCTACCCTACAGGGGTATTTTAGTAATT
1 TAATTCTACCCTACAGGGGTATTTTGGTAATT
74085416 TCACAATCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 96 0.98
82 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCGGA
Found at i:74085450 original size:27 final size:27
Alignment explanation
Indices: 74085420--74086076 Score: 745
Period size: 27 Copynumber: 24.3 Consensus size: 27
74085410 GTAATTTCAC
* *
74085420 AATCAAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
74085447 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085474 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
74085501 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
74085528 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
74085555 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
74085582 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
74085609 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085636 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
74085663 AATAGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
74085690 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085717 AATCGAAGGGTAAAACAGTAATTCTGTA
1 AATCG-AGGGTAAAACGGTAATTCTGTA
* *
74085745 AA-CTGAAGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
74085772 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085799 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
74085826 AATTGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085853 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085880 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085907 AA-CTGAGGGTAAAATGGT-ATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
74085933 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
74085960 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
74085987 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
74086014 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
74086041 AATCGAGGCTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
74086068 AATCGAGGG
1 AATCGAGGG
74086077 CATTTCAGTA
Statistics
Matches: 539, Mismatches: 75, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 31 0.06
27 476 0.88
28 32 0.06
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:74086107 original size:26 final size:27
Alignment explanation
Indices: 74086057--74086118 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
74086047 GGCTAAAATG
* *
74086057 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGACGGCATTTCA
* **
74086084 GTAATTTTAC-AATCGACGGTATTTTG
1 GTAATTTTACAAATCGACGGCATTTCA
74086110 GTAATTTTA
1 GTAATTTTA
74086119 TAAACTGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGACGGCATTTCA
Found at i:74086137 original size:27 final size:26
Alignment explanation
Indices: 74086101--74086154 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
74086091 TACAATCGAC
*
74086101 GGTATTTTGGTAATTTTATAAACTGGG
1 GGTACTTTGGTAATTTTA-AAACTGGG
*
74086128 GGTACTTTGGTAATTTTACAACTGGG
1 GGTACTTTGGTAATTTTAAAACTGGG
74086154 G
1 G
74086155 TATTTTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (26 bp):
GGTACTTTGGTAATTTTAAAACTGGG
Found at i:74088102 original size:6 final size:6
Alignment explanation
Indices: 74088091--74088283 Score: 200
Period size: 6 Copynumber: 31.8 Consensus size: 6
74088081 AACCAAAATG
74088091 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
74088139 AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
74088188 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
74088236 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
74088284 GTGAATGCAA
Statistics
Matches: 157, Mismatches: 16, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
5 10 0.06
6 135 0.86
7 10 0.06
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:74088239 original size:85 final size:85
Alignment explanation
Indices: 74088096--74088283 Score: 344
Period size: 85 Copynumber: 2.2 Consensus size: 85
74088086 AAATGAGAAT
74088096 CAGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGA
1 CAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGA
74088160 ATCAGAATCAGAATTAGGTGA
65 ATCAGAATCAGAATTAGGTGA
74088181 CAGAATCAGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGA
1 CAGAATCAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGA
74088245 ATCAGAATCAGAATTAGGTGA
65 ATCAGAATCAGAATTAGGTGA
74088266 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
74088284 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
84 2 0.02
85 97 0.96
86 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (85 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAA
TCAGAATCAGAATTAGGTGA
Found at i:74088456 original size:27 final size:26
Alignment explanation
Indices: 74088401--74088474 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
74088391 AACATGGCTG
* * **
74088401 CCAGAACAGATATCGTGACAGAGTTA
1 CCAGAACAGATATTGTGGCAGAGCCA
74088427 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
74088454 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
74088475 AACCCACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:74088481 original size:27 final size:27
Alignment explanation
Indices: 74088426--74088482 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
74088416 TGACAGAGTT
* * *
74088426 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATAATGTGGCAAACCC
74088453 ACCAGA-ATCAGATAATGTGGCAAACCC
1 ACCAGATA-CAGATAATGTGGCAAACCC
74088480 ACC
1 ACC
74088483 TAACAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
ACCAGATACAGATAATGTGGCAAACCC
Found at i:74088687 original size:22 final size:22
Alignment explanation
Indices: 74088639--74088697 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
74088629 GTAAATACGT
*
74088639 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
74088661 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
74088683 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
74088698 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:74088832 original size:27 final size:26
Alignment explanation
Indices: 74088785--74088836 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
74088775 TCGATCGGTC
74088785 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
74088811 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGGCAGAGCCACCA
74088837 AAACGCTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:74089197 original size:81 final size:80
Alignment explanation
Indices: 74089042--74089233 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 80
74089032 GCAAAATGGT
* * * * * * * * *
74089042 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGTATTTCGGTATTTCTACCCTA
1 AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTAAAGGGTATTTCAGTAATTATACCCTA
*
74089107 TAAGGGTATTT-TGA
66 TAAGGGTATTTCGGA
* *
74089121 TAATTCTACCCTTCAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTATACCC
1 -AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTA-AAGGGTATTTCAGTAATTATACCC
*
74089186 TATAGGGGTATTTCGGA
64 TATAAGGGTATTTCGGA
*
74089203 AATTCTACCCTACAGGGGTATTTTAGTAATT
1 AATTCTACCCTACAGGGGTATTTTGGTAATT
74089234 TCACAATCAA
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 32 0.34
81 61 0.64
82 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (80 bp):
AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTAAAGGGTATTTCAGTAATTATACCCTA
TAAGGGTATTTCGGA
Found at i:74089233 original size:27 final size:27
Alignment explanation
Indices: 74089039--74089225 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
74089029 GGGGCAAAAT
* * *
74089039 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
74089066 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
74089092 GGTATTTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
74089119 GATAATTCTACCCTTCAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
74089146 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
74089173 AGTAATTATACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
74089200 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
74089226 TAGTAATTTC
Statistics
Matches: 134, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:74089268 original size:27 final size:27
Alignment explanation
Indices: 74089238--74089840 Score: 678
Period size: 27 Copynumber: 22.3 Consensus size: 27
74089228 GTAATTTCAC
* * *
74089238 AATCAAGGGCAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
74089265 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * * *
74089292 AA-CTGAGCGTAAACCAGTAATTATGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
74089319 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
74089346 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089373 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
74089400 AA-CTGAAGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
74089427 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089454 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
74089481 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089508 AATCCAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
74089535 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
74089562 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
74089589 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089616 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
74089643 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089670 AATCGATGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * *
74089697 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
74089724 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
74089751 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
74089778 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
74089805 AATCGAGGCTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
74089832 AATCGAGGG
1 AATCGAGGG
74089841 CATTTCAGTA
Statistics
Matches: 497, Mismatches: 67, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.01
27 485 0.98
28 6 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:74089819 original size:108 final size:108
Alignment explanation
Indices: 74089228--74089826 Score: 794
Period size: 108 Copynumber: 5.6 Consensus size: 108
74089218 GGGTATTTTA
* * * * * * *
74089228 GTAATTTCAC-AATCAAGGGCAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
* * * * *
74089292 AACTGAGCGTAAACCAGTAATTATGTAAATCAAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
74089335 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
* *
74089400 AACTGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
** * **
74089443 GTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAC
1 GTAATTTTACAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGT
* * **
74089507 AAA-TCCAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
65 AAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
74089551 GTAATTCTGTA-AACT-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
1 GTAATT-T-TACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTG
74089614 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
64 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
74089659 GTAATTTTACAAATCGATGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
*
74089724 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
74089767 GTAATTTTACAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGCTAAAATGGTAATT
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATT
74089827 CTACAAATCG
Statistics
Matches: 435, Mismatches: 48, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
106 2 0.00
107 15 0.03
108 413 0.95
109 4 0.01
110 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:74089871 original size:26 final size:27
Alignment explanation
Indices: 74089821--74089882 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
74089811 GGCTAAAATG
* *
74089821 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAATCGACGGCATTTCA
* **
74089848 GTAATTTTAC-AATCGACGGTATTTTG
1 GTAATTTTACAAATCGACGGCATTTCA
74089874 GTAATTTTA
1 GTAATTTTA
74089883 TAAACAGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGACGGCATTTCA
Found at i:74089901 original size:27 final size:26
Alignment explanation
Indices: 74089865--74089933 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
74089855 TACAATCGAC
74089865 GGTATTTTGGTAATTTTATAAACAGGG
1 GGTATTTTGGTAATTTTA-AAACAGGG
* * *
74089892 GGTACTTTGGTAATTTTACAACTGGG
1 GGTATTTTGGTAATTTTAAAACAGGG
*
74089918 GGTATTTTAGTAATTT
1 GGTATTTTGGTAATTT
74089934 GGTAAACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTAAAACAGGG
Found at i:74089930 original size:26 final size:26
Alignment explanation
Indices: 74089842--74089933 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
74089832 AATCGAGGGC
* **
74089842 ATTTCAGTAATTTTACAA-TCGACGGT
1 ATTTTAGTAATTTTACAACT-GGGGGT
* * *
74089868 ATTTTGGTAATTTTATAAACAGGGGGT
1 ATTTTAGTAATTTTA-CAACTGGGGGT
* *
74089895 ACTTTGGTAATTTTACAACTGGGGGT
1 ATTTTAGTAATTTTACAACTGGGGGT
74089921 ATTTTAGTAATTT
1 ATTTTAGTAATTT
74089934 GGTAAACTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 33 0.62
27 20 0.38
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTTAGTAATTTTACAACTGGGGGT
Found at i:74092624 original size:47 final size:47
Alignment explanation
Indices: 74092561--74092860 Score: 474
Period size: 47 Copynumber: 6.4 Consensus size: 47
74092551 CCCTTCGGGA
* *
74092561 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
74092608 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74092655 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74092702 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
74092749 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
74092796 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74092843 CTTATCACATATACACAC
1 CTTATCACATATATACAC
74092861 CTTGTACATC
Statistics
Matches: 232, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:74099672 original size:14 final size:16
Alignment explanation
Indices: 74099648--74099680 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
74099638 ATTTTATGTG
74099648 TTTATTATGTGT-AAA
1 TTTATTATGTGTGAAA
74099663 TTTA-TATGTGTGAAA
1 TTTATTATGTGTGAAA
74099678 TTT
1 TTT
74099681 TCGTGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGAAA
Found at i:74100863 original size:45 final size:44
Alignment explanation
Indices: 74100799--74100928 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 44
74100789 TAGGATTTCC
* * *
74100799 TATATGTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGA
1 TATATGTGGTTACGTGTAAGACCACGTCTGGGACGTTGGCATC-A
* *
74100844 TATATGTGGTTACGTGTAAGACTATGTCTGGGACAG-TGGCATCA
1 TATATGTGGTTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCA
* * * *
74100888 -ATATG-AGATAGCATGTAAGACCACGTCTGGGACATTGGCAT
1 TATATGTGGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
74100929 TGTACGATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.04
43 30 0.42
44 1 0.01
45 36 0.51
46 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (44 bp):
TATATGTGGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:74103831 original size:44 final size:42
Alignment explanation
Indices: 74103765--74103859 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
74103755 TGTGTTATCA
* *
74103765 TGTAAGACCAGGTCTGGGACGTTGACATCA-ACTTATGATTTACG
1 TGTAAGACCACGTCTAGGACGTTGACATCATA-TT-TGATTT-CG
* * *
74103809 TGTAAGACCACGTCTAGTACGTTGGCATCATATTTGATTTTG
1 TGTAAGACCACGTCTAGGACGTTGACATCATATTTGATTTCG
74103851 TGTAAGACC
1 TGTAAGACC
74103860 CTGTCTGGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 10 0.22
43 6 0.13
44 28 0.62
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTTGACATCATATTTGATTTCG
Found at i:74105112 original size:24 final size:24
Alignment explanation
Indices: 74105085--74105137 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
74105075 AAAAATCGAT
74105085 TATCTCATTATACAGAAATTTAAA
1 TATCTCATTATACAGAAATTTAAA
74105109 TATCTCATTATACAGAAATTTAAA
1 TATCTCATTATACAGAAATTTAAA
74105133 TATCT
1 TATCT
74105138 GAGAATATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (24 bp):
TATCTCATTATACAGAAATTTAAA
Found at i:74116983 original size:41 final size:40
Alignment explanation
Indices: 74116914--74117010 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 40
74116904 AATATTTTCT
74116914 TACACTTAGTTGCATCTCAAATAACCGAAAATAGGTTAGAATCA
1 TACACTTAG-TGC--CTCAAATAACCGAAAATAGGTTA-AATCA
* ** * *
74116958 TACACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAAATCG
1 TACACTTAGTGCCTCAAATAACCGAAAATAGGTTAAATCA
*
74116998 CACACTTAGTGCC
1 TACACTTAGTGCC
74117011 AAAGCTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 16 0.34
41 19 0.40
43 3 0.06
44 9 0.19
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (40 bp):
TACACTTAGTGCCTCAAATAACCGAAAATAGGTTAAATCA
Found at i:74117023 original size:30 final size:30
Alignment explanation
Indices: 74116982--74117043 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
74116972 CAAATAGCCG
*
74116982 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAATTTAAATCGCACACTTAGTGCCA
74117012 AAGCTAATTTAAATCGCACACTTAGTGCCA
1 AAGCTAATTTAAATCGCACACTTAGTGCCA
74117042 AA
1 AA
74117044 ACTTCCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (30 bp):
AAGCTAATTTAAATCGCACACTTAGTGCCA
Found at i:74148573 original size:26 final size:26
Alignment explanation
Indices: 74148537--74148589 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
74148527 TTAGCAGTGA
74148537 GACGGCACATTTCAGACATTCTTCTG
1 GACGGCACATTTCAGACATTCTTCTG
74148563 GACGGCACATTTCAGACATTCTTCTG
1 GACGGCACATTTCAGACATTCTTCTG
74148589 G
1 G
74148590 TGTACAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (26 bp):
GACGGCACATTTCAGACATTCTTCTG
Found at i:74160987 original size:20 final size:21
Alignment explanation
Indices: 74160952--74161008 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
74160942 TTGATACGTG
74160952 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
74160970 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
74160991 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
74161009 GAATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:74161086 original size:25 final size:26
Alignment explanation
Indices: 74161058--74161146 Score: 114
Period size: 25 Copynumber: 3.6 Consensus size: 26
74161048 GAGGAAGTGC
*
74161058 AAAAGGGC-TATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATCG
*
74161083 AAAA-GGCTTATGCCTTAGTTTATCG
1 AAAAGGGCTTATGCCCTAGTTTATCG
* *
74161108 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATCG
74161134 -AAAGGGCTT-TGCC
1 AAAAGGGCTTATGCC
74161147 TCCAGATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.12
25 32 0.56
26 18 0.32
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTATCG
Found at i:74167729 original size:21 final size:22
Alignment explanation
Indices: 74167696--74167738 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
74167686 TAGGAATTAG
*
74167696 GGTGTGTCGTTTTCTC-CTTTT
1 GGTGTGTCGTTTTATCTCTTTT
74167717 GGTGTAGTC-TTTTATCTCTTTT
1 GGTGT-GTCGTTTTATCTCTTTT
74167739 TTCTTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.05, C:0.16, G:0.21, T:0.58
Consensus pattern (22 bp):
GGTGTGTCGTTTTATCTCTTTT
Found at i:74167739 original size:23 final size:21
Alignment explanation
Indices: 74167696--74167739 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
74167686 TAGGAATTAG
74167696 GGTGTGTCGTTTTCTCCTTTT
1 GGTGTGTCGTTTTCTCCTTTT
* *
74167717 GGTGTAGTCTTTTATCTCTTTTT
1 GGTGT-GTCGTTT-TCTCCTTTT
74167740 TCTTTTCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.05, C:0.16, G:0.20, T:0.59
Consensus pattern (21 bp):
GGTGTGTCGTTTTCTCCTTTT
Found at i:74168965 original size:20 final size:20
Alignment explanation
Indices: 74168939--74168985 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
74168929 GATATGATAT
*
74168939 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
74168959 GCATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
74168979 ACATGAT
1 ACATGAT
74168986 GAATTCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:74169074 original size:26 final size:26
Alignment explanation
Indices: 74169035--74169169 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
74169025 GAGGAAGTGC
*
74169035 AAAAGGG-TTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
74169060 AAAAGGGCTTATGCCCTAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
74169086 AAAAGGGCTTATGCCCCAGTGTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
74169112 AAAAGGGCTTATGCCCCAGTTTA-CC
1 AAAAGGGCTTATGCCCCAGTTTATTG
74169137 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
74169160 AAAAGAGGCT
1 AAAAG-GGCT
74169170 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 8 0.08
24 12 0.12
25 17 0.17
26 62 0.63
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:74171500 original size:92 final size:92
Alignment explanation
Indices: 74171398--74171726 Score: 433
Period size: 92 Copynumber: 3.6 Consensus size: 92
74171388 TAGTATGTAA
* * * *
74171398 CGTAGCTAACATACATGCGGTACAGTGCAATACGGTAATCTGCTATACCAATAGGTTGCAGTAAA
1 CGTAGCTAACATACATGCGATACAGTGCAATGCGGTAATCCGCTATACCAATAGATTGCAGTAAA
* * * *
74171463 ACTATTAGTTCAGTCAACGGCACGTAG
66 ACTGTCAGTTCAGTCAAAGGTACGTAG
* * * * *
74171490 CTTAGCTAACATACATGCGATACAGTGCAATGCAGTAATCCGCTATATCGATACATTGCAGTAAA
1 CGTAGCTAACATACATGCGATACAGTGCAATGCGGTAATCCGCTATACCAATAGATTGCAGTAAA
74171555 ACTGTCAGTTCAGTCAAAGGTACGTAG
66 ACTGTCAGTTCAGTCAAAGGTACGTAG
* * * * *
74171582 CGTAGCTAACGTACATGCAATACAGTGCAATGCGGTAATCCGCTATACCGATAGACTGTAGTAAA
1 CGTAGCTAACATACATGCGATACAGTGCAATGCGGTAATCCGCTATACCAATAGATTGCAGTAAA
* * *
74171647 ATTGCCAGTTCAGTCAAAGGTATGTAG
66 ACTGTCAGTTCAGTCAAAGGTACGTAG
* * * *
74171674 CGTAGCTAACGTACATGCGGTACAGTGCAATGCGGTAATCTGCTATACTAATA
1 CGTAGCTAACATACATGCGATACAGTGCAATGCGGTAATCCGCTATACCAATA
74171727 TCGGTAAAGT
Statistics
Matches: 208, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 208 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (92 bp):
CGTAGCTAACATACATGCGATACAGTGCAATGCGGTAATCCGCTATACCAATAGATTGCAGTAAA
ACTGTCAGTTCAGTCAAAGGTACGTAG
Found at i:74178508 original size:96 final size:97
Alignment explanation
Indices: 74178344--74178567 Score: 285
Period size: 96 Copynumber: 2.3 Consensus size: 97
74178334 TGAGGTCTCA
* *
74178344 TGTAAGACCATGTCTGGGATATGGCAT-TGGCATCCAGATGAGAGCCAGTGTAAAACCATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCTGGCATCCAGATGAGAGCCAATGTAAAACCATGTCTG
*
74178408 GGACATGGCATC-AGCGTTGATATCTGTGCCAG
66 GGACATGGCATCGA-CGATGATATCTGTGCCAG
* ** * * * *
74178440 TGTAAGACCATGTCTGGGACATGGCATCT-GCTTTGATATGTGTGCCAATGTAAGACCATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCTGGCATCCAGATGAGAGCCAATGTAAAACCATGTCTG
* *
74178504 GGACATGGCATCGACGATGGTATGTGTGCCAG
66 GGACATGGCATCGACGATGATATCTGTGCCAG
* *
74178536 TGTAAGACCATGTCTGGAACATAGCATC-GGCA
1 TGTAAGACCATGTCTGGGACATGGCATCTGGCA
74178568 CGGATGTGAG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
96 108 0.98
97 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (97 bp):
TGTAAGACCATGTCTGGGACATGGCATCTGGCATCCAGATGAGAGCCAATGTAAAACCATGTCTG
GGACATGGCATCGACGATGATATCTGTGCCAG
Found at i:74178563 original size:48 final size:48
Alignment explanation
Indices: 74178344--74178564 Score: 257
Period size: 48 Copynumber: 4.6 Consensus size: 48
74178334 TGAGGTCTCA
* * * * ** * * *
74178344 TGTAAGACCATGTCTGGGATATGGCATTGGCATCCAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* *
74178392 TGTAAAACCATGTCTGGGACATGGCATC-AGCGTTGATATCTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CGTTGATATGTGTGCCAG
* *
74178440 TGTAAGACCATGTCTGGGACATGGCATCTG-CTTTGATATGTGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATC-GACGTTGATATGTGTGCCAG
* *
74178488 TGTAAGACCATGTCTGGGACATGGCATCGACGATGGTATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
* *
74178536 TGTAAGACCATGTCTGGAACATAGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
74178565 GCACGGATGT
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 147 0.99
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGTGCCAG
Found at i:74183527 original size:20 final size:20
Alignment explanation
Indices: 74183502--74183553 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
74183492 TGGGCTAAGG
74183502 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
74183522 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
74183542 ACACGGGCGTGT
1 ACACGGGCGTGT
74183554 GTGACCACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.37, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:74187431 original size:27 final size:27
Alignment explanation
Indices: 74187381--74187526 Score: 181
Period size: 27 Copynumber: 5.4 Consensus size: 27
74187371 GTGACGAAGT
74187381 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
74187408 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
74187435 CACCAGATCAGATA-ACCGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
74187462 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
74187489 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
*
74187516 CACCAGGACAG
1 CACCAGAACAG
74187527 TTCCTCCATA
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 92 0.89
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:74187456 original size:54 final size:54
Alignment explanation
Indices: 74187381--74187526 Score: 231
Period size: 54 Copynumber: 2.7 Consensus size: 54
74187371 GTGACGAAGT
* *
74187381 CACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
**
74187435 CACCAGATCAGATAACCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
74187489 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAG
74187527 TTCCTCCATA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:74189166 original size:26 final size:26
Alignment explanation
Indices: 74189135--74189242 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
74189125 TGAAATGCCC
*
74189135 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
74189161 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
74189187 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
74189213 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74189239 ATCA
1 ATCA
74189243 ATTTATACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74194480 original size:27 final size:27
Alignment explanation
Indices: 74194432--74194590 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
74194422 GCGAGGCTGC
* * *
74194432 CAGATATTGTGAC-GAAGTCACTAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
74194459 CAGATATTGTGGCAGAGCCACTAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
74194485 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
74194512 CAAATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
74194539 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
74194566 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
74194591 GACACTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:74194532 original size:54 final size:54
Alignment explanation
Indices: 74194467--74194590 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
74194457 TACAGATATT
* *
74194467 GTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
* *
74194521 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
74194575 GTGGCATAGCCACCAG
1 GTGGCATAGCCACCAG
74194591 GACACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
Found at i:74194740 original size:26 final size:27
Alignment explanation
Indices: 74194694--74194769 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
74194684 CAAAATTAAC
** *
74194694 CCTAGGGGTATAACGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
74194720 CCTAGGGGTATAATAGCAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
74194748 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
74194770 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:74196242 original size:26 final size:26
Alignment explanation
Indices: 74196211--74196318 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
74196201 TGAAATGCCC
*
74196211 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
74196237 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
74196263 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
74196289 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74196315 ATCA
1 ATCA
74196319 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74199777 original size:45 final size:45
Alignment explanation
Indices: 74199674--74199848 Score: 268
Period size: 45 Copynumber: 4.0 Consensus size: 45
74199664 CCAAATTCAT
* * *
74199674 TCACCGGCATT-TTGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
74199716 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
74199761 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
74199806 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
74199849 CTGTAACACC
Statistics
Matches: 124, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
42 11 0.09
43 17 0.14
44 4 0.03
45 91 0.73
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:74203951 original size:25 final size:25
Alignment explanation
Indices: 74203935--74204140 Score: 322
Period size: 25 Copynumber: 8.2 Consensus size: 25
74203925 ATAATAAGGG
* *
74203935 CAAATTTAACCGGAAATATTAAGAG
1 CAAATTTAACCGGAATTATTAAGAA
*
74203960 CAAATTTAACCGAAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
74203985 CAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
**
74204010 CAAATTTAGTCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
*
74204035 CAAATTTAACCGGAATTATTAAGAG
1 CAAATTTAACCGGAATTATTAAGAA
74204060 CAAATTTAACCGGAATTATTAAGAA
1 CAAATTTAACCGGAATTATTAAGAA
** *
74204085 CAAATTTAACTTGAATTATTATGAA
1 CAAATTTAACCGGAATTATTAAGAA
*
74204110 CAAATTTAACCGGAATTATTAAGAG
1 CAAATTTAACCGGAATTATTAAGAA
74204135 CAAATT
1 CAAATT
74204141 AACAAGTTTA
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 164 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (25 bp):
CAAATTTAACCGGAATTATTAAGAA
Found at i:74213649 original size:41 final size:40
Alignment explanation
Indices: 74213497--74213663 Score: 162
Period size: 41 Copynumber: 4.0 Consensus size: 40
74213487 GCTAATCGGG
*
74213497 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
74213538 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
74213581 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
74213621 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
74213662 GT
1 GT
74213664 TAAGAGTCGG
Statistics
Matches: 104, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
39 3 0.03
40 15 0.14
41 50 0.48
42 23 0.22
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:74215496 original size:47 final size:47
Alignment explanation
Indices: 74215394--74215846 Score: 726
Period size: 47 Copynumber: 9.6 Consensus size: 47
74215384 CCCTTAGGGA
* * * * * * *
74215394 CTTATCACATTTATACACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
74215441 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74215488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74215535 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74215584 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74215631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74215678 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74215727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74215774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74215821 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
74215847 CACAATTATC
Statistics
Matches: 379, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 288 0.76
49 91 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74215591 original size:96 final size:94
Alignment explanation
Indices: 74215394--74215846 Score: 726
Period size: 96 Copynumber: 4.8 Consensus size: 94
74215384 CCCTTAGGGA
* * * * * * * * *
74215394 CTTATCACATTTATACACTTTCACATCCATTACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
74215459 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
74215488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
74215553 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
74215584 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
74215649 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
74215678 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
74215743 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
74215774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
74215839 ATTCACAT
66 TTTCACAT
74215847 CACAATTATC
Statistics
Matches: 335, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 153 0.46
96 182 0.54
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:74215663 original size:143 final size:143
Alignment explanation
Indices: 74215394--74215846 Score: 781
Period size: 143 Copynumber: 3.2 Consensus size: 143
74215384 CCCTTAGGGA
* * * * *
74215394 CTTATCACAT-T-TATACACTTTCACATCCATTACGTTGGCCACTCGGCC-CTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTC-ATCACATATATA
74215456 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
74215521 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
* *
74215535 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATATAC
74215600 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
74215665 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
74215678 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATATAC
*
74215743 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
74215808 TCGGCCATTAGGC
131 TCGGCCATTAGGC
74215821 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
74215847 CACAATTATC
Statistics
Matches: 298, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 17 0.06
142 1 0.00
143 279 0.94
144 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:74220648 original size:42 final size:42
Alignment explanation
Indices: 74220526--74220655 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 42
74220516 AACAAAACCA
* * *
74220526 TGTGTCATACATGACTGAGAGACATGCCCGTATCTCAGCCCG
1 TGTGTCATACATGACTGAGACACATGCCCGTGTCTCTGCCCG
* ** *
74220568 TGTGTCATACACGGTTGAGACACATGCCCGTGTTTCTGCCCG
1 TGTGTCATACATGACTGAGACACATGCCCGTGTCTCTGCCCG
* * *
74220610 TGTGTCACACATGACTGAGACACATGCCCCTGTCTCTGCTCG
1 TGTGTCATACATGACTGAGACACATGCCCGTGTCTCTGCCCG
74220652 TGTG
1 TGTG
74220656 GGCAAAAATA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTGTCATACATGACTGAGACACATGCCCGTGTCTCTGCCCG
Found at i:74223131 original size:19 final size:21
Alignment explanation
Indices: 74223100--74223144 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
74223090 AAAATAAAAT
*
74223100 AATAAT-TATAAAACATT-AA
1 AATAATGTATAAAAAATTCAA
74223119 AATAATGTA-AAAAAATTCAA
1 AATAATGTATAAAAAATTCAA
74223139 AA-AATG
1 AATAATG
74223145 AAACATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AATAATGTATAAAAAATTCAA
Found at i:74223785 original size:124 final size:122
Alignment explanation
Indices: 74223639--74223935 Score: 431
Period size: 124 Copynumber: 2.4 Consensus size: 122
74223629 CATACTCAAA
* ** *
74223639 TTTTTCCCTTTATTTGTTGAATGATTGTACTAAAAGATTCTATTGTAGTTTTCCAATTTTTTCAA
1 TTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAGTTTTCCAATTTTTCCAA
* * *
74223704 ATACTTCAAAACAAAATTTAC-TTAGTTTACTTTAGC-CCTTTACTTACATTTTACCCCT
66 ACACTTCAAAACAAAATTTACACTA-TTTACTTTA-CTCCTTTACTTACATATTA-CCCT
*
74223762 TTTTTCCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCACAGTTTTCCAATTTTTCCA
1 TTTTT-CCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAGTTTTCCAATTTTTCCA
74223827 AACACTTCAAAACAAAATTTACACTATTTACTTTACTCCTTTACTTACATATTACCCT
65 AACACTTCAAAACAAAATTTACACTATTTACTTTACTCCTTTACTTACATATTACCCT
* *
74223885 TTTTT--TTTGTATTTGTTGAATGATTGTACCAAAAGATTCTATCCTAGTTTT
1 TTTTTCCCTT-TATTTGTTGAATGATTGTACCAAAAGATTCTATCATAGTTTT
74223936 TCAAACACTT
Statistics
Matches: 159, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
120 2 0.01
121 40 0.25
123 15 0.09
124 100 0.63
125 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (122 bp):
TTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAGTTTTCCAATTTTTCCAA
ACACTTCAAAACAAAATTTACACTATTTACTTTACTCCTTTACTTACATATTACCCT
Found at i:74227705 original size:53 final size:53
Alignment explanation
Indices: 74227638--74227743 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
74227628 AAGTAATAAA
74227638 CGAAGATATGATTTAGTTTGTCTTAATTACCCTTTGAGACAGTAATTAAGTTT
1 CGAAGATATGATTTAGTTTGTCTTAATTACCCTTTGAGACAGTAATTAAGTTT
74227691 CGAAGATATGATTTAGTTTGTCTTAATTACCCTTTGAGACAGTAATTAAGTTT
1 CGAAGATATGATTTAGTTTGTCTTAATTACCCTTTGAGACAGTAATTAAGTTT
74227744 AAGACCTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (53 bp):
CGAAGATATGATTTAGTTTGTCTTAATTACCCTTTGAGACAGTAATTAAGTTT
Found at i:74228691 original size:25 final size:25
Alignment explanation
Indices: 74228645--74228692 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
74228635 CGACATTTAT
* *
74228645 ATACAAATGTTTTAAATTTTATATA
1 ATACAAATGTATTAAATATTATATA
74228670 ATACAAAT-TATTAAGATATTATA
1 ATACAAATGTATTAA-ATATTATA
74228693 ATTATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
ATACAAATGTATTAAATATTATATA
Found at i:74228700 original size:8 final size:8
Alignment explanation
Indices: 74228689--74228714 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
74228679 ATTAAGATAT
74228689 TATAATTA
1 TATAATTA
74228697 TATAATTA
1 TATAATTA
74228705 TATAATTA
1 TATAATTA
74228713 TA
1 TA
74228715 ATAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATTA
Found at i:74228837 original size:27 final size:27
Alignment explanation
Indices: 74228799--74228853 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
74228789 ATATTAGTAG
74228799 ATAAGGTTGAACTGCTTGCAGGACACC
1 ATAAGGTTGAACTGCTTGCAGGACACC
74228826 ATAAGGTTGAACTGCTTGCAGGACACC
1 ATAAGGTTGAACTGCTTGCAGGACACC
74228853 A
1 A
74228854 CCATTGGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
ATAAGGTTGAACTGCTTGCAGGACACC
Found at i:74229816 original size:129 final size:130
Alignment explanation
Indices: 74229664--74229904 Score: 288
Period size: 129 Copynumber: 1.9 Consensus size: 130
74229654 TTAATTTCAC
* ** * * * * *
74229664 TTAAAATTCATGTATTTTGAAATTCAAAAGGATGTTTGACTATTTAGATTCGATGAAAAGAATCG
1 TTAAAATTCATGCATTTCAAAATTCAAAAGGATATTCGACTACTTAGATTCAACGAAAA-AATCG
***
74229729 AAACCCCGTAAGTTAGGGTATGGTTT-TCG-AGTTTCTAAATACGAAAAATTGCCTTTATTTTTA
65 AAACCCCGTAAGTTAGGGTACAATTTCTCGAAGTTTCTAAATACGAAAAATTGCCTTTATTTTTA
74229792 T
130 T
** * * * *
74229793 TTAAAATTCATGCATTTCAAAATTTGAAGGGATATTCGACTACTTAGGTTTAACGAGAAAATCGA
1 TTAAAATTCATGCATTTCAAAATTCAAAAGGATATTCGACTACTTAGATTCAACGAAAAAATCGA
* *
74229858 GACCCCGTAAGTTAGGGTACAATTTCTCGAATTTTCTAAATACGAAA
66 AACCCCGTAAGTTAGGGTACAATTTCTCGAAGTTTCTAAATACGAAA
74229905 TATTACCGGT
Statistics
Matches: 91, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
128 27 0.30
129 48 0.53
130 16 0.18
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (130 bp):
TTAAAATTCATGCATTTCAAAATTCAAAAGGATATTCGACTACTTAGATTCAACGAAAAAATCGA
AACCCCGTAAGTTAGGGTACAATTTCTCGAAGTTTCTAAATACGAAAAATTGCCTTTATTTTTAT
Found at i:74235145 original size:18 final size:18
Alignment explanation
Indices: 74235124--74235277 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
74235114 ATATTAAGAA
74235124 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
74235142 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
74235157 -TTTAAT-AATAATA-AT
1 TTTTATTAAATTATATAT
* * *
74235172 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
74235191 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
74235206 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
74235225 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
74235244 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
74235262 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
74235278 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.06
15 6 0.06
16 12 0.12
17 17 0.17
18 39 0.39
19 10 0.10
20 5 0.05
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:74235201 original size:120 final size:120
Alignment explanation
Indices: 74235059--74235539 Score: 750
Period size: 120 Copynumber: 4.0 Consensus size: 120
74235049 ATTATTAATC
* * * *
74235059 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* * *
74235124 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATAATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
74235179 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
74235244 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
74235299 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
74235364 TATTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
74235419 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
74235484 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
74235540 ATGATTAAAT
Statistics
Matches: 344, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 337 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:74235381 original size:15 final size:13
Alignment explanation
Indices: 74235372--74235427 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
74235362 AATATTATTA
74235372 AATTATATATTTT
1 AATTATATATTTT
74235385 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
74235400 AATAATAATTATGTT
1 AATTAT-A-TATTTT
74235415 AATT-TATATTTT
1 AATTATATATTTT
74235427 A
1 A
74235428 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:74235397 original size:16 final size:16
Alignment explanation
Indices: 74235376--74235418 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
74235366 TTATTAAATT
74235376 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
74235392 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
74235407 AT-TATGTTAATT
1 ATATATTTTAATT
74235419 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Done.