Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 111 of 136
Found at i:37558856 original size:27 final size:26
Alignment explanation
Indices: 37558821--37558890 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
37558811 TATCGCAGGA
* *
37558821 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
37558848 AAGCCACCAGTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
37558874 AGAGCCACCAGT-ACAGT
1 A-AGCCACCAGTAACAGT
37558891 ACTTCCTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.18
27 30 0.77
28 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:37558982 original size:24 final size:24
Alignment explanation
Indices: 37558955--37559036 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
37558945 CCATGCTCAG
37558955 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
37558979 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATACAAATCACAGACA
**
37559003 AATCAGTCATTTAAATCATC-GACA
1 AATCAGTCATACAAATCA-CAGACA
*
37559027 AATCAATCAT
1 AATCAGTCAT
37559037 TTAACCCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:37559109 original size:27 final size:27
Alignment explanation
Indices: 37559057--37559324 Score: 185
Period size: 27 Copynumber: 9.9 Consensus size: 27
37559047 GGGGCAAAAT
* *
37559057 AGTCATTTTACCGTAT-AGGGGCATTAC
1 AGTCATTTTACCCTATGA-GGGTATTAC
*
37559084 AGTCATTTTACTCTATGAGGGTATTAC
1 AGTCATTTTACCCTATGAGGGTATTAC
* *
37559111 GGTCATTTTACCCTA-CAGGGGTATTA-
1 AGTCATTTTACCCTATGA-GGGTATTAC
* *
37559137 GGATCATTTTACCCTATAAGGGTATTAC
1 AG-TCATTTTACCCTATGAGGGTATTAC
* * *
37559165 -GATTATTTTACCCTA-CAGAGGCATTAC
1 AG-TCATTTTACCCTATGAG-GGTATTAC
* * *
37559192 GGTCATTTTTCCCTAT-AGGAGTATTTC
1 AGTCATTTTACCCTATGAGG-GTATTAC
** *
37559219 -GATCATTTTACCCTACAAGGGCATTAC
1 AG-TCATTTTACCCTATGAGGGTATTAC
* * *
37559246 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGAGGGTATTAC
* *
37559273 AGTCATTTTACCCT-TCGAGGTTATTTC
1 AGTCATTTTACCCTAT-GAGGGTATTAC
* *
37559300 AGTAATTTTATCC-ATTGAGGGTATT
1 AGTCATTTTACCCTA-TGAGGGTATT
37559325 TTAGTAATTT
Statistics
Matches: 197, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
26 8 0.04
27 181 0.92
28 8 0.04
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
AGTCATTTTACCCTATGAGGGTATTAC
Found at i:37559121 original size:54 final size:54
Alignment explanation
Indices: 37559058--37559286 Score: 282
Period size: 54 Copynumber: 4.2 Consensus size: 54
37559048 GGGCAAAATA
* * * *
37559058 GTCATTTTACCGTATAGGGGCATTACAGTCATTTTACTCTATGAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
* *
37559112 GTCATTTTACCCTACAGGGGTATTA-GGATCATTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACGG-TCATTTTACCCTATGAGGGTATTACG
* * * * *
37559166 ATTATTTTACCCTACAGAGGCATTACGGTCATTTTTCCCTAT-AGGAGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGG-GTATTACG
* * * * *
37559220 ATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
37559274 GTCATTTTACCCT
1 GTCATTTTACCCT
37559287 TCGAGGTTAT
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.03
54 144 0.95
55 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATGAGGGTATTACG
Found at i:37559148 original size:81 final size:80
Alignment explanation
Indices: 37559059--37559286 Score: 269
Period size: 81 Copynumber: 2.8 Consensus size: 80
37559049 GGCAAAATAG
* * *
37559059 TCATTTTACCGTATAGGGGCATTACAGTCATTTTACTCTATGAGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTATAAGGGCATTAC-GTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCC
* *
37559124 TACAGGGGTATTAGGA
65 TACAGGAGTATTACGA
* * * * *
37559140 TCATTTTACCCTATAAGGGTATTACGATTATTTTACCCTA-CAGAGGCATTACGGTCATTTTTCC
1 TCATTTTACCCTATAAGGGCATTACG-TCATTTTACCCTATGAG-GGTATTACGGTCATTTTACC
* *
37559204 CTATAGGAGTATTTCGA
64 CTACAGGAGTATTACGA
* * * *
37559221 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATAAGGGCATTAC-GTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCC
37559286 T
65 T
37559287 TCGAGGTTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 3 0.02
81 117 0.96
82 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
TCATTTTACCCTATAAGGGCATTACGTCATTTTACCCTATGAGGGTATTACGGTCATTTTACCCT
ACAGGAGTATTACGA
Found at i:37559325 original size:27 final size:27
Alignment explanation
Indices: 37559264--37559337 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
37559254 TACCCTATGG
* *
37559264 GGGTATTTCAGTCATTTTACCCTTCGA
1 GGGTATTTCAGTAATTTTACCATTCGA
*
37559291 GGTTATTTCAGTAATTTTATCCATT-GA
1 GGGTATTTCAGTAATTTTA-CCATTCGA
*
37559318 GGGTATTTTAGTAATTTTAC
1 GGGTATTTCAGTAATTTTAC
37559338 AAATTTTAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 36 0.88
28 4 0.10
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.46
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACCATTCGA
Found at i:37559613 original size:19 final size:17
Alignment explanation
Indices: 37559573--37559615 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
37559563 TTTATCCGTG
37559573 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCACT
* *
37559590 GGGCCCACACAGCCCATTT
1 TGGCCCACA-AGCCCA-CT
37559609 TGGCCCA
1 TGGCCCA
37559616 ATGAGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (17 bp):
TGGCCCACAAGCCCACT
Found at i:37565712 original size:12 final size:12
Alignment explanation
Indices: 37565691--37565720 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37565681 AACAATAATC
37565691 CAAAAA-ATTTT
1 CAAAAATATTTT
37565702 CAAAAATATTTT
1 CAAAAATATTTT
37565714 CAAAAAT
1 CAAAAAT
37565721 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (12 bp):
CAAAAATATTTT
Found at i:37572773 original size:25 final size:25
Alignment explanation
Indices: 37572739--37573101 Score: 137
Period size: 26 Copynumber: 14.3 Consensus size: 25
37572729 TTTTCTCATA
37572739 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
37572764 TATTATTTATTTT-AA--GTTTT-T
1 TATTATTTATTTTAAATTGTTTTAT
* * * ** ** *
37572785 CA-CATGTATTTTAAACTACTTCAAAC
1 TATTATTTATTTTAAA-TTGTT-TTAT
**
37572811 TATTATCCATTTTAAA-T-TTTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* **
37572834 ATATTATTTATTTTTAAACTGTCATAT
1 -TATTATTTA-TTTTAAATTGTTTTAT
**
37572861 ATATTATTTATTTTTTTATTGTCTTT-T
1 -TATTATTTA-TTTTAAATTGT-TTTAT
* * *
37572888 TGTATATATCATTTTTAAACTGATTTT-T
1 TAT-TAT-TTA-TTTTAAATTG-TTTTAT
* *
37572916 ATATTATTTATTTTAAACTTCTTTTTACA
1 -TATTATTTATTTTAAA-TT-GTTTTA-T
* *
37572945 TATTATTTATTTT-AA--GCCTTTAA
1 TATTATTTATTTTAAATTG-TTTTAT
*
37572968 TA-TA-TTATTTTAAATTGTCTTAT
1 TATTATTTATTTTAAATTGTTTTAT
* *
37572991 ATGTTATTTATTTTAAATCGCTTTGTA-
1 -TATTATTTATTTTAAATTG-TTT-TAT
* *
37573018 TATTATTTATTTTAATTTGTTTTACA
1 TATTATTTATTTTAAATTGTTTTA-T
* *
37573044 TATTATTTACTTTAGATTGTTTTA-
1 TATTATTTATTTTAAATTGTTTTAT
* * *
37573068 TATTATTTACTTCAAATTGTTCTAT
1 TATTATTTATTTTAAATTGTTTTAT
37573093 ATATTATTT
1 -TATTATTT
37573102 TGTTTTGCTT
Statistics
Matches: 254, Mismatches: 51, Indels: 65
0.69 0.14 0.18
Matches are distributed among these distances:
20 8 0.03
21 11 0.04
22 9 0.04
23 7 0.03
24 42 0.17
25 25 0.10
26 68 0.27
27 48 0.19
28 33 0.13
29 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTATTTATTTTAAATTGTTTTAT
Found at i:37572928 original size:27 final size:27
Alignment explanation
Indices: 37572828--37573030 Score: 108
Period size: 27 Copynumber: 7.7 Consensus size: 27
37572818 CATTTTAAAT
37572828 TTTTATATATTATTTATTTTTAAACTG-
1 TTTT-TATATTATTTATTTTTAAACTGC
* * ** *
37572855 TCATATATATTATTTATTTTTTTATTGTC
1 T-TTTTATATTATTTATTTTTAAACTG-C
* * *
37572884 TTTTTGTA-TATATCATTTTTAAACTGA
1 TTTTTATATTAT-TTATTTTTAAACTGC
*
37572911 TTTTTATATTATTTA-TTTTAAACTTC
1 TTTTTATATTATTTATTTTTAAACTGC
37572937 TTTTTACATATTATTTA-TTTT-AA--GC
1 TTTTT--ATATTATTTATTTTTAAACTGC
* * *
37572962 CTTTAATA-TA-TTA-TTTTAAATTG-
1 TTTTTATATTATTTATTTTTAAACTGC
* *
37572985 TCTTATATGTTATTTA-TTTTAAA-TCGC
1 T-TTTTATATTATTTATTTTTAAACT-GC
*
37573012 TTTGTATATTATTTATTTT
1 TTTTTATATTATTTATTTT
37573031 AATTTGTTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 32
0.70 0.14 0.17
Matches are distributed among these distances:
21 7 0.05
22 4 0.03
23 3 0.02
24 5 0.04
25 7 0.05
26 37 0.28
27 38 0.28
28 32 0.24
29 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTTATATTATTTATTTTTAAACTGC
Found at i:37572929 original size:26 final size:25
Alignment explanation
Indices: 37572819--37573101 Score: 159
Period size: 26 Copynumber: 11.0 Consensus size: 25
37572809 ACTATTATCC
*
37572819 ATTTTAAATT-TTTATATATTATTT
1 ATTTTAAATTGTTTTTATATTATTT
* * *
37572843 ATTTTTAAACTGTCATATATATTATTT
1 A-TTTTAAATTGT-TTTTATATTATTT
** * *
37572870 ATTTTTTTATTGTCTTTT-TGTATATATC
1 A-TTTTAAATTGT-TTTTATAT-TAT-TT
*
37572898 ATTTTTAAACTGATTTTTATATTATTT
1 A-TTTTAAATTG-TTTTTATATTATTT
*
37572925 ATTTTAAACTTCTTTTTACATATTATTT
1 ATTTTAAA-TTGTTTTT--ATATTATTT
**
37572953 ATTTT-AA--GCCTTTA-A-TATATT
1 ATTTTAAATTGTTTTTATATTAT-TT
* *
37572974 ATTTTAAATTGTCTTATATGTTATTT
1 ATTTTAAATTGT-TTTTATATTATTT
* *
37573000 ATTTTAAATCGCTTTGTATATTATTT
1 ATTTTAAATTG-TTTTTATATTATTT
* *
37573026 ATTTTAATTTGTTTTACATATTATTT
1 ATTTTAAATTGTTTT-TATATTATTT
* *
37573052 ACTTTAGATTG-TTTTATATTATTT
1 ATTTTAAATTGTTTTTATATTATTT
* * *
37573076 ACTTCAAATTGTTCTATATATTATTT
1 ATTTTAAATTGTT-TTTATATTATTT
37573102 TGTTTTGCTT
Statistics
Matches: 201, Mismatches: 37, Indels: 40
0.72 0.13 0.14
Matches are distributed among these distances:
20 3 0.01
21 8 0.04
22 3 0.01
24 23 0.11
25 18 0.09
26 75 0.37
27 37 0.18
28 31 0.15
29 3 0.01
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTTAAATTGTTTTTATATTATTT
Found at i:37572980 original size:75 final size:74
Alignment explanation
Indices: 37572891--37573032 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 74
37572881 GTCTTTTTGT
* * *
37572891 ATATATCATTTTTAAACTGAT-TTTTATATTATTTATTTTAAA-CTTCTTTTTACATATTATTTA
1 ATATATCATTTTTAAACTG-TCTTATATATTATTTATTTTAAATC-GCTTTGT--ATATTATTTA
37572954 TTTTAAGCCTTTA
62 TTTTAAGCCTTTA
* * *
37572967 ATATATTA-TTTTAAATTGTCTTATATGTTATTTATTTTAAATCGCTTTGTATATTATTTATTTT
1 ATATATCATTTTTAAACTGTCTTATATATTATTTATTTTAAATCGCTTTGTATATTATTTATTTT
37573031 AA
66 AA
37573033 TTTGTTTTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
73 16 0.28
74 1 0.02
75 33 0.57
76 8 0.14
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.58
Consensus pattern (74 bp):
ATATATCATTTTTAAACTGTCTTATATATTATTTATTTTAAATCGCTTTGTATATTATTTATTTT
AAGCCTTTA
Found at i:37573088 original size:50 final size:49
Alignment explanation
Indices: 37572912--37573101 Score: 186
Period size: 50 Copynumber: 3.8 Consensus size: 49
37572902 TTAAACTGAT
* * *
37572912 TTTTATATTATTTATTTTAAACTTCTTTTTACATATTATTTATTTTAAGCC
1 TTTTATATTATTTATTTTAAA-TT-GTTTTACATATTATTTATTTTAATCG
* * * *
37572963 TTTAATA-TA-TTATTTTAAATTGTCTTATATGTTATTTATTTTAAATCG
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTT-AATCG
* * *
37573011 CTTTGTATATTATTTATTTTAATTTGTTTTACATATTATTTACTTTAGATTG
1 -TTT-TATATTATTTATTTTAAATTGTTTTACATATTATTTATTTTA-ATCG
* * * *
37573063 TTTTATATTATTTACTTCAAATTGTTCTATATATTATTT
1 TTTTATATTATTTATTTTAAATTGTTTTACATATTATTT
37573102 TGTTTTGCTT
Statistics
Matches: 114, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 17 0.15
48 5 0.04
49 13 0.11
50 36 0.32
51 12 0.11
52 31 0.27
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.61
Consensus pattern (49 bp):
TTTTATATTATTTATTTTAAATTGTTTTACATATTATTTATTTTAATCG
Found at i:37573806 original size:20 final size:20
Alignment explanation
Indices: 37573781--37573821 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37573771 AGACTCCCGA
37573781 ACCCATTTTCTGGATTTTGT
1 ACCCATTTTCTGGATTTTGT
37573801 ACCCATTTTCTGGATTTTGT
1 ACCCATTTTCTGGATTTTGT
37573821 A
1 A
37573822 AACCAAAAAT
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:0.17, C:0.20, G:0.15, T:0.49
Consensus pattern (20 bp):
ACCCATTTTCTGGATTTTGT
Found at i:37585465 original size:51 final size:50
Alignment explanation
Indices: 37585406--37585544 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 50
37585396 AGTGAAAGAG
37585406 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGCT
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAG-T
* * * * * *
37585457 -TCGATCACGTGTATAGTACTATATGCAGGCTACTACGTGTATCGGATAGT
1 AT-GATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGT
* *
37585507 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 -ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
37585545 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 2 0.03
51 71 0.96
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGAGTACCGAATAGT
Found at i:37585623 original size:46 final size:43
Alignment explanation
Indices: 37585548--37585645 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 43
37585538 TACTATGTGA
*
37585548 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
37585591 ACCGGATATCATTGATTACAAAGGATGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAAGG-TGGTTGCTATGTGCTGAATCC
37585637 ACCGTGTAT
1 ACCG-GTAT
37585646 TTGTTATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 4 0.09
46 24 0.51
47 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37585791 original size:16 final size:16
Alignment explanation
Indices: 37585770--37585801 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37585760 TGATTGAAAG
*
37585770 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
37585786 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
37585802 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:37587481 original size:46 final size:45
Alignment explanation
Indices: 37587414--37587708 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 45
37587404 GGGTGTTACA
* *
37587414 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* ** *
37587460 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC-CAATTC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* * * ** *
37587505 TTATCTCCTTGAAGTTCCAGCGGAGTA-GATCGAA-GCTACAAATC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATAC-ACAAATC
* * * * * ** **
37587549 TCT-TCTCCCTGAAATTACATTGCAGCA-GATCGAAGCCAC-AATCC
1 T-TATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATACACAAAT-C
* *
37587593 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATACCCAAAAC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* * * *
37587639 TTATCT-CTCTAAAGTTGCAGTGGAGCAGGTTGAAATTAC-CAATTC
1 TTATCTCCT-TGAAGTTGCAGTGGAGCAGGAT-AAAATACACAAATC
* *
37587684 TTATCTCCTTGAAGTTACAGCGGAG
1 TTATCTCCTTGAAGTTGCAGTGGAG
37587709 TAGATCAAAG
Statistics
Matches: 193, Mismatches: 45, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 55 0.28
45 58 0.30
46 73 0.38
47 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAATACACAAATC
Found at i:37587620 original size:44 final size:44
Alignment explanation
Indices: 37587414--37587620 Score: 175
Period size: 44 Copynumber: 4.6 Consensus size: 44
37587404 GGGTGTTACA
* ** ** *
37587414 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACC
1 TTATCTCCTTGAAGTTGCAGTGGAGCA-GAT-CGAAGCCACAATCC
* * ** *
37587460 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAATCC
* * * *
37587505 TTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAAT-C
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCAC-AATCC
* * * * *
37587549 TCT-TCTCCCTGAAATTACATTGCAGCAGATCGAAGCCACAATCC
1 T-TATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATCC
37587593 TTATCTCCTTGAAGTTGCAGTGGAGCAG
1 TTATCTCCTTGAAGTTGCAGTGGAGCAG
37587621 GATAAAAATA
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
43 4 0.03
44 56 0.44
45 42 0.33
46 26 0.20
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGCCACAATCC
Found at i:37587714 original size:179 final size:179
Alignment explanation
Indices: 37587414--37587749 Score: 568
Period size: 179 Copynumber: 1.9 Consensus size: 179
37587404 GGGTGTTACA
* *
37587414 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCTCCTTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCTTAAAGTTGCA
* * *
37587479 GTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAC
66 GTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTAC
37587544 AAATCTCTTCTCCCT-GAAATTACATTGCAGCAGATCGAAGCCACAATCC
131 AAATCTCTTCTCCCTAG-AATTACATTGCAGCAGATCGAAGCCACAATCC
* *
37587593 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATACCCAAAACTTATCT-CTCTAAAGTTGC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCT-TAAAGTTGC
37587657 AGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTA
65 AGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTA
*
37587722 CAAGTCTCTTCTCCCTAGAATTACATTG
130 CAAATCTCTTCTCCCTAGAATTACATTG
37587750 GAGCGGACCG
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
178 2 0.01
179 144 0.98
180 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (179 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAAACTTATCTCCTTAAAGTTGCA
GTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGTAGATCAAAGCTAC
AAATCTCTTCTCCCTAGAATTACATTGCAGCAGATCGAAGCCACAATCC
Found at i:37588184 original size:20 final size:22
Alignment explanation
Indices: 37588149--37588188 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
37588139 GTTGCCTCCT
37588149 CCACGTCAGCACCTCCGTACCG
1 CCACGTCAGCACCTCCGTACCG
37588171 CCACGTC-G-ACCTCCGTAC
1 CCACGTCAGCACCTCCGTAC
37588189 ATAGCTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.15
Consensus pattern (22 bp):
CCACGTCAGCACCTCCGTACCG
Found at i:37589456 original size:26 final size:26
Alignment explanation
Indices: 37589252--37589511 Score: 153
Period size: 26 Copynumber: 10.0 Consensus size: 26
37589242 ACTATTATCC
37589252 ATTTTAAATT-TTTTATATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
*** * *
37589277 ATTTTAAAACTT-TCACATACATTCTTT
1 ATTTT-AAA-TTGTTTTATATATTATTT
*
37589304 ATTTTGAATTGTTTTTTTATATATATCATTT
1 ATTTTAAATTG---TTTTATATAT-T-ATTT
* * *
37589335 ATTTTTTTAATTGTTTTGTATATCATTT
1 A--TTTTAAATTGTTTTATATATTATTT
*
37589363 ATTTTAAA--CTTTT-TATA-TA-TT
1 ATTTTAAATTGTTTTATATATTATTT
* * *
37589384 ATTTTAAATTGTCTTATATGTTATCT
1 ATTTTAAATTGTTTTATATATTATTT
* * *
37589410 ATTTTAAATCGCTTTGTATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
* *
37589436 ATTTTAATTTGTTTTACATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
* *
37589462 AACTTTAGA-T-TTTT-TATATTATTT
1 -ATTTTAAATTGTTTTATATATTATTT
* * *
37589486 ACTTCAAATTGTTCTATATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
37589512 TGTTTCGTTT
Statistics
Matches: 177, Mismatches: 39, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
21 10 0.06
22 1 0.01
23 13 0.07
24 17 0.10
25 16 0.09
26 64 0.36
27 22 0.12
28 5 0.03
29 6 0.03
30 10 0.06
31 4 0.02
33 9 0.05
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATATATTATTT
Found at i:37593878 original size:28 final size:30
Alignment explanation
Indices: 37593841--37593910 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
37593831 TTTTTTTATA
* *
37593841 ATTTTATAAAATAA-ATTATG-ATTTTTAG
1 ATTTTTTAAAATAATATTATGAATATTTAG
* *
37593869 ATTTTTT-AAATAATTTTTTGACATATTTAG
1 ATTTTTTAAAATAATATTATGA-ATATTTAG
37593899 ATTTTTTAAAAT
1 ATTTTTTAAAAT
37593911 TATCATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.18
28 10 0.29
30 14 0.41
31 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (30 bp):
ATTTTTTAAAATAATATTATGAATATTTAG
Found at i:37593938 original size:27 final size:28
Alignment explanation
Indices: 37593907--37593979 Score: 67
Period size: 31 Copynumber: 2.5 Consensus size: 28
37593897 AGATTTTTTA
37593907 AAATTATCATTAATTTT-TTAAAACATC
1 AAATTATCATTAATTTTATTAAAACATC
* * *
37593934 AAATTGATCTTTTAATTTTAATTAAGAGATC
1 AAATT-ATC-ATTAATTTT-ATTAAAACATC
*
37593965 AAATTAGTTATTAAT
1 AAATTA-TCATTAAT
37593980 CTTTGAGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.14
28 3 0.08
29 8 0.22
30 6 0.17
31 14 0.39
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (28 bp):
AAATTATCATTAATTTTATTAAAACATC
Found at i:37597275 original size:26 final size:26
Alignment explanation
Indices: 37597244--37597296 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
37597234 AGAGATAAGC
37597244 GGTTAGAAAATACAGAGCGCAAGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
* *
37597270 GGTTAGAAAATACAGAGTGCATGTAT
1 GGTTAGAAAATACAGAGCGCAAGTAT
37597296 G
1 G
37597297 CCTTTTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (26 bp):
GGTTAGAAAATACAGAGCGCAAGTAT
Found at i:37606491 original size:17 final size:18
Alignment explanation
Indices: 37606437--37606504 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
37606427 TAGATCGCAT
*
37606437 AGTTGTGAGCTCATCCAA
1 AGTTGTGAGCTCAGCCAA
** *
37606455 A-TATGCAAGCTGAGCCAA
1 AGT-TGTGAGCTCAGCCAA
37606473 AGTTGTGAGCTCA-CCAA
1 AGTTGTGAGCTCAGCCAA
*
37606490 AGATGTGAGCTCAGC
1 AGTTGTGAGCTCAGC
37606505 ATTGATGCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 17 0.44
18 21 0.54
19 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (18 bp):
AGTTGTGAGCTCAGCCAA
Found at i:37608777 original size:26 final size:24
Alignment explanation
Indices: 37608748--37608802 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
37608738 ATATGGAAAA
*
37608748 AAATAACAAATATTTTTTATACTAAT
1 AAATAACAAATA--TATTATACTAAT
* *
37608774 AAATGATAAATATATTATACTAAT
1 AAATAACAAATATATTATACTAAT
37608798 AAATA
1 AAATA
37608803 CTAAATCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 15 0.60
26 10 0.40
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATAACAAATATATTATACTAAT
Found at i:37628224 original size:50 final size:50
Alignment explanation
Indices: 37628152--37628289 Score: 159
Period size: 50 Copynumber: 2.8 Consensus size: 50
37628142 TATTGAGGTT
* * * * *
37628152 ATGAGATGTCCCACAAAAGACCATGTCTTGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * * *
37628202 ATGAGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * **
37628252 TTGAGAACTCCCATGTAAGACCATGTCTAGGACATGGC
1 ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGC
37628290 TTTGACATGT
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAAGTCCCACATAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:37647043 original size:68 final size:68
Alignment explanation
Indices: 37646934--37647072 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
37646924 TGTGGGCCAC
** *
37646934 TCAGTCGGTTATATGAATATAGAAAATTTGATCTCTTTCATTATCTTCTTACCCGAATGGATGAT
1 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
37646999 TAA
66 TAA
***
37647002 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTAGTTGAATGGATGAT
1 TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
*
37647067 TGA
66 TAA
37647070 TCA
1 TCA
37647073 TGAGCAGTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (68 bp):
TCAGTCGGTTATATGAATATAGAAAATTCCATCACTTTCATTATCTTCTTACCCGAATGGATGAT
TAA
Found at i:37649686 original size:38 final size:38
Alignment explanation
Indices: 37649614--37649765 Score: 135
Period size: 38 Copynumber: 4.0 Consensus size: 38
37649604 ATCATGGAAC
* *
37649614 GATTATCTA-AAGTCCTTTGGGGCGACGCCATGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
* * *
37649651 GATTATCTACTAGTCCTTTTGGGCAACACCTTGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
** * * * *
37649689 GGCTATCTATTGGTCCTTCGGGGCGACACAATGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
* * * * * **
37649727 AATTTTCTACTGGTCCTTTTGCGCGACACTGTGTAAAT
1 GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
37649765 G
1 G
37649766 GTATATAGGT
Statistics
Matches: 89, Mismatches: 25, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
37 9 0.10
38 80 0.90
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (38 bp):
GATTATCTACTAGTCCTTTGGGGCGACACCATGTAAAT
Found at i:37649762 original size:76 final size:73
Alignment explanation
Indices: 37649625--37649790 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 73
37649615 ATTATCTAAA
* * * * *
37649625 GTCCTTTGGGGCGACGCCATGTAAATGATTATCTACTAGTCCTTTTGGGCAACACCTTGTAAATG
1 GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
*
37649690 GCTATCTATTG
66 G-TA--TATAG
* * *
37649701 GTCCTTCGGGGCGACACAATGTAAATAATTTTCTACTGGTCCTTTTGCGCGACA-CTGTGTAAAT
1 GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCT-TGTAAAT
37649765 GGTATATAG
65 GGTATATAG
* *
37649774 GTCCTTCGAGGTGACAC
1 GTCCTTCGGGGCGACAC
37649791 CTCAAAAGGG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
73 19 0.24
75 4 0.05
76 55 0.71
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (73 bp):
GTCCTTCGGGGCGACACAATGTAAATAATTATCTACTAGTCCTTTTGCGCAACACCTTGTAAATG
GTATATAG
Found at i:37659826 original size:28 final size:28
Alignment explanation
Indices: 37659795--37659856 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
37659785 GACATGCAAA
*
37659795 AACAGTCTGGGCCTGAGCCCTAAGTAGT
1 AACAGTCTGGGCCTGAGCCCTAAGCAGT
*
37659823 AACAGTCTGGGCCTTAGCCCTAAGCAGT
1 AACAGTCTGGGCCTGAGCCCTAAGCAGT
37659851 AACAGT
1 AACAGT
37659857 GTAATGTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
AACAGTCTGGGCCTGAGCCCTAAGCAGT
Found at i:37659915 original size:28 final size:28
Alignment explanation
Indices: 37659861--37659917 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
37659851 AACAGTGTAA
* * *
37659861 TGTGGGCCTTAGCCCATTTCAGTAATAG
1 TGTGGGCCTTAGCCCAATACAGAAATAG
37659889 TGTGGGCCTTAGCCCAATACAGAAATAG
1 TGTGGGCCTTAGCCCAATACAGAAATAG
37659917 T
1 T
37659918 ATAGTGCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGAAATAG
Found at i:37660295 original size:27 final size:27
Alignment explanation
Indices: 37660246--37660551 Score: 364
Period size: 27 Copynumber: 11.3 Consensus size: 27
37660236 AGGGGTATAA
* *
37660246 CGGTAATTTTACCCTAT-GGGGGTATTT
1 CGGTTATTTTACCCT-TCGAGGGTATTT
*
37660273 CGGTTATTTTACCTTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * *
37660300 CAGTCATTTTACCCTTCGGGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
37660327 CAGTTATTTTACCCTTC-AGGGGTATTT
1 CGGTTATTTTACCCTTCGA-GGGTATTT
*
37660354 CGATTATTTTACCCTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
37660381 CGGTTATTTTACCCTTTGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * * * *
37660408 TGGTCATTTTAACCTTTGAAGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
37660435 CGGTTATTTTACCCTTTGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* *
37660462 CAGTCATTTTACCCTTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* *
37660489 CAGTTATTTTACCATTCGAGGGTATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
* * * *
37660516 TGATCATTTTACCCTTCGAGGATATTT
1 CGGTTATTTTACCCTTCGAGGGTATTT
*
37660543 CGGTCATTT
1 CGGTTATTT
37660552 GCCCATGAAT
Statistics
Matches: 242, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 240 0.99
28 1 0.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
CGGTTATTTTACCCTTCGAGGGTATTT
Found at i:37668944 original size:64 final size:65
Alignment explanation
Indices: 37668874--37669000 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
37668864 GTTGTTCCGA
37668874 GTGTTAGTTAAGTTAATTATTATTGTA-ATTAGGCTT-TTTTGCACTTTTAGTCCCTATACCTTA
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTT-CACTTTTAGTCCCTATACCTTA
37668937 G
65 G
* *
37668938 GTGTTAGTTAAGTTAATTATTATTGTAGCTTAGGCTTATTTTCACTTTTAGTCCCTGTACCTT
1 GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTT
37669001 GGTTGTAAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 27 0.46
65 28 0.47
66 4 0.07
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (65 bp):
GTGTTAGTTAAGTTAATTATTATTGTAGATTAGGCTTATTTTCACTTTTAGTCCCTATACCTTAG
Found at i:37670540 original size:12 final size:12
Alignment explanation
Indices: 37670512--37670547 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
37670502 GCAAATGAAT
*
37670512 CATTTCTCATTTT
1 CATTTC-CATTTC
37670525 CATTTCCATTTC
1 CATTTCCATTTC
37670537 CATTTCCATTT
1 CATTTCCATTT
37670548 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:37670546 original size:18 final size:19
Alignment explanation
Indices: 37670512--37670547 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37670502 GCAAATGAAT
*
37670512 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
37670531 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
37670548 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:37672440 original size:23 final size:22
Alignment explanation
Indices: 37672408--37672450 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
37672398 TTTATAACAT
* *
37672408 AAAAAAATTATTTCAAATTATC
1 AAAAAAATTAATTAAAATTATC
37672430 AAAACAAATTAATTAAAATTA
1 AAAA-AAATTAATTAAAATTA
37672451 ACATAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAATTAAAATTATC
Found at i:37672628 original size:16 final size:16
Alignment explanation
Indices: 37672594--37672629 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37672584 GATAATTAAA
* *
37672594 AAATAAGAATATTTTT
1 AAATAAGAATATCTAT
37672610 AAATAAGAATATCTAT
1 AAATAAGAATATCTAT
37672626 AAAT
1 AAAT
37672630 TTAGAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (16 bp):
AAATAAGAATATCTAT
Found at i:37679082 original size:65 final size:65
Alignment explanation
Indices: 37679001--37679140 Score: 235
Period size: 65 Copynumber: 2.2 Consensus size: 65
37678991 GACGAATCAG
* *
37679001 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTTAGAAGCAGAAGCAAGAAGT
1 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
* * *
37679066 CCAGTTCAAGTTAAGAATCCTTCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGTAGGAAGT
1 CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
37679131 CCAGTTCAAG
1 CCAGTTCAAG
37679141 AAATTCCTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (65 bp):
CCAGTTCAAGTTAAGAATCCTCCACAACCCTACCCTCAAAGACTTCAAAAGCAGAAGCAAGAAGT
Found at i:37680697 original size:20 final size:20
Alignment explanation
Indices: 37680659--37680697 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37680649 CTAACTGGAA
** *
37680659 AAATAAATGTTTAATTTTTC
1 AAATAAATGGATAAATTTTC
37680679 AAATAAATGGATAAATTTT
1 AAATAAATGGATAAATTTT
37680698 GATCCAAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATAAATGGATAAATTTTC
Found at i:37684726 original size:16 final size:17
Alignment explanation
Indices: 37684705--37684739 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37684695 AAACATAATT
*
37684705 AATTAA-CTAATTATAA
1 AATTAATCTAAGTATAA
37684721 AATTAATCTAAGTATAA
1 AATTAATCTAAGTATAA
37684738 AA
1 AA
37684740 AGTTGGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
AATTAATCTAAGTATAA
Found at i:37693245 original size:17 final size:17
Alignment explanation
Indices: 37693223--37693255 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37693213 GTTAGTGCAC
*
37693223 ATTGTCTTTGCATTTTT
1 ATTGTCATTGCATTTTT
37693240 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
37693256 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:37700322 original size:16 final size:15
Alignment explanation
Indices: 37700289--37700322 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
37700279 GGAGTTTCAC
*
37700289 TATATTGGTAATCAT
1 TATATTGGTAAGCAT
37700304 TATATTGGTAAGGCAT
1 TATATTGGTAA-GCAT
37700320 TAT
1 TAT
37700323 GTGATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (15 bp):
TATATTGGTAAGCAT
Found at i:37708255 original size:42 final size:42
Alignment explanation
Indices: 37708196--37708363 Score: 336
Period size: 42 Copynumber: 4.0 Consensus size: 42
37708186 TATCAACAGG
37708196 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
37708238 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
37708280 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
37708322 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
1 CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
37708364 TCTCTATTCT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (42 bp):
CAAAAGCCAAGCACCAAGTTCCCACTGGGTTGTTATAGCCTA
Found at i:37709565 original size:34 final size:34
Alignment explanation
Indices: 37709526--37709595 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
37709516 TTTTAATTAG
37709526 AAAATGGCTTAGGGACTTAAATTGCAATTAGGCA
1 AAAATGGCTTAGGGACTTAAATTGCAATTAGGCA
37709560 AAAATGGCTTAGGGACTTAAATTGCAATTAGGCA
1 AAAATGGCTTAGGGACTTAAATTGCAATTAGGCA
37709594 AA
1 AA
37709596 GGTTTAGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (34 bp):
AAAATGGCTTAGGGACTTAAATTGCAATTAGGCA
Found at i:37712475 original size:16 final size:17
Alignment explanation
Indices: 37712454--37712487 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37712444 CCACATTTAT
*
37712454 ACCAAAA-ACATCAATA
1 ACCAAAACAAATCAATA
37712470 ACCAAAACAAATCAATA
1 ACCAAAACAAATCAATA
37712487 A
1 A
37712488 AGCCATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (17 bp):
ACCAAAACAAATCAATA
Found at i:37719161 original size:20 final size:21
Alignment explanation
Indices: 37719136--37719174 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37719126 CTTAATGTAT
*
37719136 TATGTTGATA-TTATTTGATA
1 TATGTTGAGATTTATTTGATA
37719156 TATGTTGAGATTTATTTGA
1 TATGTTGAGATTTATTTGA
37719175 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (21 bp):
TATGTTGAGATTTATTTGATA
Found at i:37722415 original size:53 final size:53
Alignment explanation
Indices: 37722357--37722524 Score: 131
Period size: 53 Copynumber: 3.3 Consensus size: 53
37722347 GGATTAAATC
37722357 AAATTTTTATAATTTTAGGGGGGCCAAAGTGCAATTTTACCTTTATTAATTTA
1 AAATTTTTATAATTTTAGGGGGGCCAAAGTGCAATTTTACCTTTATTAATTTA
* * * *** **** * *
37722410 AAATTTTTATAGTCTATA-----TCTTTA-T--AATTTTTA-AAGGATTAAATCA
1 AAATTTTTATAAT-TTTAGGGGGGCCAAAGTGCAA-TTTTACCTTTATTAATTTA
37722456 -AATTTTTATAATTTTAGGGGGGCCAAAGTGCAATTTTACCTTTATTAATTTA
1 AAATTTTTATAATTTTAGGGGGGCCAAAGTGCAATTTTACCTTTATTAATTTA
*
37722508 AAATTTTTAAAATTTTA
1 AAATTTTTATAATTTTA
37722525 AAAAGACTAA
Statistics
Matches: 78, Mismatches: 25, Indels: 24
0.61 0.20 0.19
Matches are distributed among these distances:
44 3 0.04
45 11 0.14
46 9 0.12
47 5 0.06
48 1 0.01
49 4 0.05
50 1 0.01
51 5 0.06
52 9 0.12
53 27 0.35
54 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (53 bp):
AAATTTTTATAATTTTAGGGGGGCCAAAGTGCAATTTTACCTTTATTAATTTA
Found at i:37722475 original size:98 final size:98
Alignment explanation
Indices: 37722306--37722516 Score: 422
Period size: 98 Copynumber: 2.2 Consensus size: 98
37722296 GGCCGAATGA
37722306 AATTTAAAATTTTTATAGTCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATAATT
1 AATTTAAAATTTTTATAGTCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATAATT
37722371 TTAGGGGGGCCAAAGTGCAATTTTACCTTTATT
66 TTAGGGGGGCCAAAGTGCAATTTTACCTTTATT
37722404 AATTTAAAATTTTTATAGTCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATAATT
1 AATTTAAAATTTTTATAGTCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATAATT
37722469 TTAGGGGGGCCAAAGTGCAATTTTACCTTTATT
66 TTAGGGGGGCCAAAGTGCAATTTTACCTTTATT
37722502 AATTTAAAATTTTTA
1 AATTTAAAATTTTTA
37722517 AAATTTTAAA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 113 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (98 bp):
AATTTAAAATTTTTATAGTCTATATCTTTATAATTTTTAAAGGATTAAATCAAATTTTTATAATT
TTAGGGGGGCCAAAGTGCAATTTTACCTTTATT
Found at i:37732016 original size:72 final size:72
Alignment explanation
Indices: 37731923--37732918 Score: 728
Period size: 72 Copynumber: 13.9 Consensus size: 72
37731913 TTGGCATCAT
* * * * *
37731923 ATAAGGCTC-CTAGGTTCAATACCCCAACCTCCAAAAATAGTTAGCGCAAGTCTACACTCCCAGC
1 ATAAGGCTCGC-AGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
37731987 TGTATATC
65 TGTATATC
* * * ** * * ** ** **
37731995 GTAAGGCTTGCAGATTCAATACTTCAGCCACCAAAAACAGTT-GAAACGAGTTTATGCTCCCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAG-CGCGAGCCTACACTCCCAGT
37732059 TGTATATC
65 TGTATATC
* * * * * * * *
37732067 ATAAGGCTCGTAGATTCAATACCGCGGCCTCTAAAAATATTTATCGCGAGCATACACTCCTAGTT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732132 GTATATC
66 GTATATC
* * * * * * *
37732139 ATAAGGTTCACAAGTTCAATACCG-TGACCTCCAAAAATAGTTAGCACGAGCCTACGCTCTCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAG-CCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
37732203 TGTATATC
65 TGTATATC
* * * * * * * * *
37732211 ATATGGCCCTCAGGTTCAATACTGTAGCCTCCAAAAATAGTTATCGTGAGCCTACACTCCTAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732276 GTATATC
66 GTATATC
* * * * * * * * *
37732283 ATAAGGCTTGTAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTACACTCCCAATT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732348 GTATATC
66 GTATATC
* * * * * * * * ** ** *
37732355 ATAAAGCTCACAGGTTCAATATCACAACGTCTAAAAATAGTTATCAAGAGTATACACTCCTAGTT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732420 GTATATC
66 GTATATC
* * ** * ** * * *
37732427 ATATGGTTTACAGGTTCAAAATTGCAACCTCCAAAAATAAG-TAGCGCGAGCCTACGCTCTCAGT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAAT-AGTTAGCGCGAGCCTACACTCCCAGT
37732491 TGTATATC
65 TGTATATC
* * * * * * * *
37732499 ATAAGGCTCGTAGGTTCAATACCACAGCCTCTAAAAATAGTTAACGTGTGCCTACGCTCCCAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732564 GTATATC
66 GTATATC
* * * * * ** *
37732571 ATAAGGCTCACAGGTTCAATACCGCATCCTTCAAAAATAGTTAGTGCGAACCTATGCTCCCAGCT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
37732636 GTATATC
66 GTATATC
* * * * * * * **
37732643 ATAAAGCTCGCAGGTTCATTATCGTAGCCTCTAAAAATAGTTAGTGCGAGCCTACACTCTCAACT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
* *
37732708 ATATTTC
66 GTATATC
* * * * * * *
37732715 ATAAAGCTCGTAGGTTTAATACC-CTAGCCTCCAAAAATTGTTAGTGCGAGCCTACGCTCCTAGT
1 ATAAGGCTCGCAGGTTCAATACCGC-AGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGT
37732779 TGTATATC
65 TGTATATC
* * * * * * ** * **
37732787 ATAAGGCTCGCAGGTTTAATACCGC-GGCTTCTAAAATAGTTAACGCAAGCCTATGCTTCCAACT
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
**
37732851 AAATATC
66 GTATATC
* * * * * * * * *
37732858 TTAAGGCTCACAGGTTCAATATCGCAACCT-CTAAAACAGTTAGCTCAAGCTTACACTCCCA
1 ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCA
37732919 ACTAATATTC
Statistics
Matches: 715, Mismatches: 199, Indels: 21
0.76 0.21 0.02
Matches are distributed among these distances:
71 81 0.11
72 629 0.88
73 5 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (72 bp):
ATAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAAATAGTTAGCGCGAGCCTACACTCCCAGTT
GTATATC
Found at i:37732459 original size:288 final size:288
Alignment explanation
Indices: 37731923--37732685 Score: 929
Period size: 288 Copynumber: 2.6 Consensus size: 288
37731913 TTGGCATCAT
* * * ** *
37731923 ATAAGGCTCCTAGGTTCAATACCCCAACCTCCAAAAATAGTTAGCGCAAGTCTACACTCCCAGCT
1 ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
* * * * * *
37731988 GTATATCGTAAGGCTTGCAGATTCAATACTTCAGCCACCAAAAACAGTT-GAAACGAGTTTATGC
66 GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAG-AGCGAGCTTATGC
* * * * * * **
37732052 TCCCAGTTGTATATCATAAGGCTCGTAGATTCAATACCGCGGCCTCTAAAAATATTTATCGCGAG
130 TCCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAG
* **
37732117 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAATACCGTGACCTCCAAAAAT-AGTT
195 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAG-T
37732181 AGCACGAGCCTACGCTCTCAGTTGTATATC
259 AGCACGAGCCTACGCTCTCAGTTGTATATC
* *** * *
37732211 ATATGGC-CCTCAGGTTCAATACTGTAGCCTCCAAAAATAGTTATCGTGAGCCTACACTCCTAGC
1 ATAAGGCTCCT-AGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGC
* **
37732275 TGTATATCATAAGGCTTGTAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTACAC
65 TGTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGC
* * * * *
37732340 TCCCAATTGTATATCATAAAGCTCACAGGTTCAATATCACAACGTCTAAAAATAGTTATCAAGAG
130 TCCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAG
* * * * **
37732405 TATACACTCCTAGTTGTATATCATATGGTTTACAGGTTCAAAATTGCAACCTCCAAAAATAAGTA
195 CATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAGTA
*
37732470 GCGCGAGCCTACGCTCTCAGTTGTATATC
260 GCACGAGCCTACGCTCTCAGTTGTATATC
* * * *
37732499 ATAAGGCTCGTAGGTTCAATACCACAGCCTCTAAAAATAGTTAACGTGTGCCTACGCTCCCAGCT
1 ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
** * * ** * * * *
37732564 GTATATCATAAGGCTCACAGGTTCAATACCGCATCCTTCAAAAATAGTTAGTGCGAACCTATGCT
66 GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGCT
* * *
37732629 CCCAGCTGTATATCATAAAGCTCGCAGGTTCATTATCGTAGCCTCTAAAAATAGTTA
131 CCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTA
37732686 GTGCGAGCCT
Statistics
Matches: 398, Mismatches: 73, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
287 3 0.01
288 390 0.98
289 5 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (288 bp):
ATAAGGCTCCTAGGTTCAATACCACAGCCTCCAAAAATAGTTAACGTGAGCCTACACTCCCAGCT
GTATATCATAAGGCTTGCAGGTTCAATACTGCAACCACCAAAAACAGTTAGAGCGAGCTTATGCT
CCCAGTTGTATATCATAAAGCTCGCAGGTTCAATATCGCAGCCTCTAAAAATAGTTATCAAGAGC
ATACACTCCTAGTTGTATATCATAAGGTTCACAAGTTCAAAACCGCAACCTCCAAAAATAAGTAG
CACGAGCCTACGCTCTCAGTTGTATATC
Found at i:37741550 original size:16 final size:16
Alignment explanation
Indices: 37741529--37741569 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
37741519 TATGTTTATG
37741529 ATATTTTTAATT-TTGA
1 ATATTTTT-ATTCTTGA
37741545 ATATTTTT-TTCTTGA
1 ATATTTTTATTCTTGA
37741560 ATATTTTTAT
1 ATATTTTTAT
37741570 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (16 bp):
ATATTTTTATTCTTGA
Found at i:37744904 original size:28 final size:28
Alignment explanation
Indices: 37744872--37744936 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
37744862 CAGTAACAAT
* *
37744872 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
* *
37744900 ACAGTATGGGCCTAAGCCCGATACAGTA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
*
37744928 TCAGTATGG
1 ACAGTATGG
37744937 TACAAGTACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (28 bp):
ACAGTATGGGCCTAAGCCCAATACAGAA
Found at i:37745320 original size:28 final size:28
Alignment explanation
Indices: 37745256--37745320 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
37745246 CAGTAACCAT
* * *
37745256 ACAGTGTGGGCCTTAGCCCAATACCGAA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
* * *
37745284 ACAGGATGGGCCTAAGCCCGATACAGTA
1 ACAGTATGGGCCTAAGCCCAATACAGAA
*
37745312 TCAGTATGG
1 ACAGTATGG
37745321 TACAAGTACG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (28 bp):
ACAGTATGGGCCTAAGCCCAATACAGAA
Found at i:37745401 original size:384 final size:384
Alignment explanation
Indices: 37744692--37745459 Score: 1500
Period size: 384 Copynumber: 2.0 Consensus size: 384
37744682 AACGAAAGCT
37744692 TATGCGGTTGTGTGGCCACCTCTGAGTCCCTCGCAGCATCGAATCAACTATAGCTGAGGATTACC
1 TATGCGGTTGTGTGGCCACCTCTGAGTCCCTCGCAGCATCGAATCAACTATAGCTGAGGATTACC
37744757 TGCACAGTTAAGAGGAGAGGTTTGAGTTTACGAAAACTCAGTGCGTAATCCCTTATCAAACAGTC
66 TGCACAGTTAAGAGGAGAGGTTTGAGTTTACGAAAACTCAGTGCGTAATCCCTTATCAAACAGTC
37744822 GGCATACAGAACAGAATCAGTCTAGGCCAAAGCCCTTTAACAGTAACAATACAGTGTGGGCCTTA
131 GGCATACAGAACAGAATCAGTCTAGGCCAAAGCCCTTTAACAGTAACAATACAGTGTGGGCCTTA
*
37744887 GCCCAATACAGAAACAGTATGGGCCTAAGCCCGATACAGTATCAGTATGGTACAAGTACGCAAAC
196 GCCCAATACAGAAACAGGATGGGCCTAAGCCCGATACAGTATCAGTATGGTACAAGTACGCAAAC
37744952 CCATCCCAATCCAACCAACACACCACCCGTACCAACCCAACACAACATGTGGGGATAGAGTCGAC
261 CCATCCCAATCCAACCAACACACCACCCGTACCAACCCAACACAACATGTGGGGATAGAGTCGAC
37745017 CCACCCAACCCTTACATCAATATCGCAGCATAGCTGCCAGTAGTAATAATGCAGCAGAG
326 CCACCCAACCCTTACATCAATATCGCAGCATAGCTGCCAGTAGTAATAATGCAGCAGAG
37745076 TATGCGGTTGTGTGGCCACCTCTGAGTCCCTCGCAGCATCGAATCAACTATAGCTGAGGATTACC
1 TATGCGGTTGTGTGGCCACCTCTGAGTCCCTCGCAGCATCGAATCAACTATAGCTGAGGATTACC
37745141 TGCACAGTTAAGAGGAGAGGTTTGAGTTTACGAAAACTCAGTGCGTAATCCCTTATCAAACAGTC
66 TGCACAGTTAAGAGGAGAGGTTTGAGTTTACGAAAACTCAGTGCGTAATCCCTTATCAAACAGTC
*
37745206 GGCATACAGAACAGAATCAGTCTAGGCCAAAGCCCTTTAACAGTAACCATACAGTGTGGGCCTTA
131 GGCATACAGAACAGAATCAGTCTAGGCCAAAGCCCTTTAACAGTAACAATACAGTGTGGGCCTTA
*
37745271 GCCCAATACCGAAACAGGATGGGCCTAAGCCCGATACAGTATCAGTATGGTACAAGTACGCAAAC
196 GCCCAATACAGAAACAGGATGGGCCTAAGCCCGATACAGTATCAGTATGGTACAAGTACGCAAAC
37745336 CCATCCCAATCCAACCAACACACCACCCGTACCAACCCAACACAACATGTGGGGATAGAGTCGAC
261 CCATCCCAATCCAACCAACACACCACCCGTACCAACCCAACACAACATGTGGGGATAGAGTCGAC
*
37745401 CCACCCACCCCTTACATCAATATCGCAGCATAGCTGCCAGTAGTAATAATGCAGCAGAG
326 CCACCCAACCCTTACATCAATATCGCAGCATAGCTGCCAGTAGTAATAATGCAGCAGAG
37745460 CTGCCTGTAG
Statistics
Matches: 380, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
384 380 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (384 bp):
TATGCGGTTGTGTGGCCACCTCTGAGTCCCTCGCAGCATCGAATCAACTATAGCTGAGGATTACC
TGCACAGTTAAGAGGAGAGGTTTGAGTTTACGAAAACTCAGTGCGTAATCCCTTATCAAACAGTC
GGCATACAGAACAGAATCAGTCTAGGCCAAAGCCCTTTAACAGTAACAATACAGTGTGGGCCTTA
GCCCAATACAGAAACAGGATGGGCCTAAGCCCGATACAGTATCAGTATGGTACAAGTACGCAAAC
CCATCCCAATCCAACCAACACACCACCCGTACCAACCCAACACAACATGTGGGGATAGAGTCGAC
CCACCCAACCCTTACATCAATATCGCAGCATAGCTGCCAGTAGTAATAATGCAGCAGAG
Found at i:37745655 original size:64 final size:64
Alignment explanation
Indices: 37745547--37745761 Score: 231
Period size: 64 Copynumber: 3.4 Consensus size: 64
37745537 TACAGTAATG
* * *
37745547 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGTAACA
* * * * *
37745611 TGATCGGCACAAAGCCATCAGTAGCAGTGATAGGATTGGCACACAGCCTTCAGAAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGT-AACA
* * * * * *
37745675 TGATCGGCACACAGCCATC-GATAACAGTAATATGATTGACACA-AAGCCATCAATGACGGT-AC
1 TGATCGGCACAAAGCCATCAG-TAGCAGTGATATGATTGGCACACAA-CCATCAGTAACGGTAAC
37745737 TA
64 -A
*
37745739 TGATCGACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
37745762 ACGGTACTAT
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 118 0.95
65 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAACCATCAGTAACGGTAACA
Found at i:37745718 original size:96 final size:96
Alignment explanation
Indices: 37745548--37745726 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 96
37745538 ACAGTAATGT
* * * * *
37745548 GATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACATG
1 GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAGTAACAGTAACATG
*
37745613 ATCGGCACAAAGCCATCAGTAGCAGTGATAG
66 ATCGACACAAAGCCATCAGTAGCAGTGATAG
* * * *
37745644 GATTGGCACACAGCCTTCAGAAACAGTGAAATGATCGGCACACAGCCATC-GATAACAGTAATAT
1 GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAG-TAACAGTAACAT
*
37745708 GATTGACACAAAGCCATCA
65 GATCGACACAAAGCCATCA
37745727 ATGACGGTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 70 0.99
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (96 bp):
GATTGGCACAAAGCCATCAGAAACAGTGAAATGATCGGCACACAACCATCAGTAACAGTAACATG
ATCGACACAAAGCCATCAGTAGCAGTGATAG
Found at i:37745766 original size:32 final size:32
Alignment explanation
Indices: 37745554--37745781 Score: 178
Period size: 32 Copynumber: 7.1 Consensus size: 32
37745544 ATGTGATTGG
*
37745554 CACAAAGCCATCAGTAGCAGTGATATGATCGGTA
1 CACAAAGCCATCAGTAACAGTGATATGATC-G-A
* * * *
37745588 CAC-AA-CCATCAGTAACGGTAACATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * * *
37745618 CACAAAGCCATCAGTAGCAGTGATAGGATTGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * * * *
37745650 CACACAGCCTTCAGAAACAGTGAAATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * *
37745682 CACACAGCCATC-GATAACAGTAATATGATTGA
1 CACAAAGCCATCAG-TAACAGTGATATGATCGA
* * *
37745714 CACAAAGCCATCAATGACGGT-ACTATGATCGA
1 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
* *
37745746 CACAAAGCCATCAGTAACGGT-ACTATGATAGA
1 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
37745778 CACA
1 CACA
37745782 TTGCCATTAG
Statistics
Matches: 157, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
30 3 0.02
31 5 0.03
32 144 0.92
33 2 0.01
34 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGA
Found at i:37745866 original size:27 final size:26
Alignment explanation
Indices: 37745831--37745900 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 26
37745821 TATCGTAGCA
* *
37745831 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
37745858 AAGCCACCACTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
*
37745884 AGAGCGACCAGT-ACAGT
1 A-AGCCACCAGTAACAGT
37745901 ACTTCTTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.19
27 27 0.75
28 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:37746078 original size:27 final size:27
Alignment explanation
Indices: 37746040--37746542 Score: 354
Period size: 27 Copynumber: 18.7 Consensus size: 27
37746030 CCACTAGGGC
*
37746040 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
37746067 ATTACGGTCATTTTACCTTATAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
37746094 ATTACAGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
37746121 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* ** * * *
37746148 ACTACGACCATTTTGCCCTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
37746175 ATTACGGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
37746202 ATTATGGCCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
37746229 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * * * *
37746256 ATTACAGTTATTCTACCTTAAACGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* ** * *
37746283 GTTACAATCA-TTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
*
37746309 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
37746336 ATTACTGTCATTTTACCTTATAGAGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* **
37746363 ATT-CTGGT-ATTCTACCCTACGGGGGT
1 ATTAC-GGTCATTTTACCCTATAGGGGT
* * * * * *
37746389 ATTTCGATCATTTTACCCTGTTGAGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*** * *
37746416 ATTTTAGTCATTTTACCC-ATCGAGAGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* **
37746443 ATTTCGGTCATTTTACCC-ATCAAAGGT
1 ATTACGGTCATTTTACCCTAT-AGGGGT
* * *
37746470 ATTTCGGTTATTTTACCCT-TCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
** *
37746497 ATTTTGGTCATTTTACCCT-TCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* **
37746524 ATTTCAATCATTTTACCCT
1 ATTACGGTCATTTTACCCT
37746543 TCGGGGGTAT
Statistics
Matches: 373, Mismatches: 95, Indels: 16
0.77 0.20 0.03
Matches are distributed among these distances:
26 39 0.10
27 334 0.90
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:37746138 original size:81 final size:81
Alignment explanation
Indices: 37746040--37746407 Score: 409
Period size: 81 Copynumber: 4.6 Consensus size: 81
37746030 CCACTAGGGC
* * * *
37746040 ATTACGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCTTATAAGGGCATTACAGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
37746105 TTTACCCTATAGGGGT
66 TTTACCCTATAGGGGT
* * * ** * * *
37746121 ATTACGGTCATTTTACCCTATAGGGGCACTACGACCATTTTGCCCTACAAGGGTATTACGGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
*
37746186 TTTACCCTATAGGGGC
66 TTTACCCTATAGGGGT
* *
37746202 ATTATGGCCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
* * * *
37746267 TCTACCTTAAACGGGT
66 TTTACCCTATAGGGGT
* ** * * * * *
37746283 GTTACAATCA-TTTACCCTACAGAGGTATTACGGTCATTTTACCCTACAGGGGTATTACTGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
* *
37746347 TTTACCTTATAGAGGT
66 TTTACCCTATAGGGGT
* * * *
37746363 ATT-CTGGT-ATTCTACCCTACGGGGGTATTTCGATCATTTTACCCT
1 ATTAC-GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCT
37746408 GTTGAGGCAT
Statistics
Matches: 237, Mismatches: 48, Indels: 5
0.82 0.17 0.02
Matches are distributed among these distances:
79 2 0.01
80 94 0.40
81 141 0.59
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAGTTAT
TTTACCCTATAGGGGT
Found at i:37765518 original size:27 final size:27
Alignment explanation
Indices: 37765487--37765734 Score: 245
Period size: 27 Copynumber: 9.2 Consensus size: 27
37765477 TTAATTTTTA
37765487 TCATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
* *
37765514 TCATTTTACCTTTC-GAGGGTATTTCGG
1 TCATTTTACCCTTCAG-GGGTATTTCAG
* *
37765541 TCACTTTACCCTT-AGGGGGTATTTCGG
1 TCATTTTACCCTTCA-GGGGTATTTCAG
* *
37765568 TCATTTTACCCTT-TGAGGGTATTTTAG
1 TCATTTTACCCTTCAG-GGGTATTTCAG
* ** *
37765595 TCATTTTACCTTTCAAAGGTATTTTAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
*
37765622 TCGTTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
* * *
37765649 TCATTTTACCCTTTAAGGGAATTTC-G
1 TCATTTTACCCTTCAGGGGTATTTCAG
* * * *
37765675 ATCATTTTACCGTTTAAGGGTATTTCGG
1 -TCATTTTACCCTTCAGGGGTATTTCAG
* *
37765703 TCATTTTACCCTTCA-AGGTATTTTAG
1 TCATTTTACCCTTCAGGGGTATTTCAG
37765729 TCATTT
1 TCATTT
37765735 GCCCAAGAAT
Statistics
Matches: 186, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
26 17 0.09
27 167 0.90
28 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCAGGGGTATTTCAG
Found at i:37765630 original size:81 final size:81
Alignment explanation
Indices: 37765487--37765734 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 81
37765477 TTAATTTTTA
* * * * *
37765487 TCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCTTTCGAGGGTATTTCGGTCACTTTACCC
1 TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
*
37765552 TT-AGGGGGTATTTCGG
66 TTCA-GGGGTATTTCAG
* * ** *
37765568 TCATTTTACCCTTTGAGGGTATTTTAGTCATTTTACCTTTCAAAGGTATTTTAGTCGTTTTACCC
1 TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
37765633 TTCAGGGGTATTTCAG
66 TTCAGGGGTATTTCAG
* *
37765649 TCATTTTACCCTTTAAGGG-AATTTCGATCATTTTACCGTTT-AAGGGTATTTCGGTCATTTTAC
1 TCATTTTACCCTTTAAGGGTATTTTAG-TCATTTTACC-TTTCAAGGGTATTTCGGTCATTTTAC
* *
37765712 CCTTCA-AGGTATTTTAG
64 CCTTCAGGGGTATTTCAG
37765729 TCATTT
1 TCATTT
37765735 GCCCAAGAAT
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 20 0.14
81 120 0.83
82 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTTAAGGGTATTTTAGTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCC
TTCAGGGGTATTTCAG
Found at i:37768768 original size:21 final size:21
Alignment explanation
Indices: 37768743--37768793 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
37768733 GATGTTGAGA
* **
37768743 AGGAAGTTGTTGCTGCAGAAG
1 AGGAAGTTGTTGATAAAGAAG
37768764 AGGAAGTTGTTGATAAAGAAG
1 AGGAAGTTGTTGATAAAGAAG
*
37768785 AAGAAGTTG
1 AGGAAGTTG
37768794 CTAAAAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGTTGATAAAGAAG
Found at i:37769253 original size:17 final size:17
Alignment explanation
Indices: 37769231--37769264 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37769221 GATAAGTATA
37769231 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
37769248 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
37769265 CATGCTAGTG
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:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:37776884 original size:19 final size:19
Alignment explanation
Indices: 37776860--37776936 Score: 118
Period size: 19 Copynumber: 4.1 Consensus size: 19
37776850 TCAATTCATA
*
37776860 AATGTCAACTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
37776879 AATGTCAGCTAGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
37776898 AATGTTAGCTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
*
37776917 AATGTTAGCTTGTGTGAGC
1 AATGTCAGCTTGTGTGAGC
37776936 A
1 A
37776937 CTATAATCCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (19 bp):
AATGTCAGCTTGTGTGAGC
Found at i:37779863 original size:22 final size:23
Alignment explanation
Indices: 37779838--37779881 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
37779828 TAACATGTTG
37779838 AATTTCAATTAATTTT-ATAATA
1 AATTTCAATTAATTTTGATAATA
**
37779860 AATTTTGATTAATTTTGATAAT
1 AATTTCAATTAATTTTGATAAT
37779882 TTTCAACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTTCAATTAATTTTGATAATA
Found at i:37786552 original size:25 final size:26
Alignment explanation
Indices: 37786510--37786563 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
37786500 TTCTCCTAAA
**
37786510 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATAGAATTA-TTAATAT
37786536 TTTCAA-TTTATAGAATTATTAATAT
1 TTTCAATTTTATAGAATTATTAATAT
37786561 TTT
1 TTT
37786564 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATAGAATTATTAATAT
Found at i:37794949 original size:23 final size:23
Alignment explanation
Indices: 37794922--37794975 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
37794912 ATGACAATGA
37794922 CACTTCGGTGCAAAAGAAAGTGG
1 CACTTCGGTGCAAAAGAAAGTGG
** * *
37794945 CACTTTAGTGCAAATGATAGTGG
1 CACTTCGGTGCAAAAGAAAGTGG
*
37794968 CTCTTCGG
1 CACTTCGG
37794976 AGCATTTCAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (23 bp):
CACTTCGGTGCAAAAGAAAGTGG
Found at i:37798533 original size:23 final size:23
Alignment explanation
Indices: 37798509--37798581 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37798499 CGGCTCCTTT
*
37798509 TCAGTGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTACGGCTACATA
* *
37798532 TCAGTGGTAGCTACAGCTACGTA
1 TCAGTGGTAGCTACGGCTACATA
* *
37798555 TCAGTGGTAGCTTCGACTACATA
1 TCAGTGGTAGCTACGGCTACATA
37798578 TCAG
1 TCAG
37798582 AGTGGCACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (23 bp):
TCAGTGGTAGCTACGGCTACATA
Found at i:37799822 original size:49 final size:49
Alignment explanation
Indices: 37799767--37799906 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
37799757 CAATAAGTGA
* * *
37799767 TATGTGATTCCGTGTAAGACCGTGGTTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
37799816 TATGTGATTACGTGTAAGGCCATAGTTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
37799865 TATGTGATTATGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
37799907 GAAAATAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
Found at i:37802440 original size:25 final size:25
Alignment explanation
Indices: 37802412--37802513 Score: 113
Period size: 25 Copynumber: 4.1 Consensus size: 25
37802402 GCTTGTACAT
37802412 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTATGAATCG
* * *
37802437 GTATGCTCTCACAAGCTGTAAATCG
1 GTATGCTCTCACGAGCTATGAATCG
37802462 GTATGCTCTCACGAGCTGA-GAATCG
1 GTATGCTCTCACGAGCT-ATGAATCG
*
37802487 GTAAGCTCTCACGAG-T-TGCAATCG
1 GTATGCTCTCACGAGCTATG-AATCG
37802511 GTA
1 GTA
37802514 ATCCGTAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 10 0.15
25 55 0.83
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATGAATCG
Found at i:37811521 original size:21 final size:21
Alignment explanation
Indices: 37811497--37811538 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37811487 ATTAGAGTAG
37811497 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
37811518 AAAGAAATTGGAAAGATGAAA
1 AAAGAAATTGGAAAGATGAAA
37811539 TTTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (21 bp):
AAAGAAATTGGAAAGATGAAA
Found at i:37811631 original size:24 final size:22
Alignment explanation
Indices: 37811584--37811631 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
37811574 TAAGTGTGTA
*
37811584 TTTTTTTTTATTTATTTGTGAT
1 TTTTTTTTTATTTATTTCTGAT
37811606 TTTTTTTGTCTATTTATATTCT-AT
1 TTTTTTT-T-TATTTAT-TTCTGAT
37811630 TT
1 TT
37811632 ATTATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 11 0.50
25 3 0.14
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTATTTATTTCTGAT
Found at i:37813114 original size:21 final size:21
Alignment explanation
Indices: 37813090--37813158 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
37813080 AAGAGTAATC
37813090 ATTTTTTCAAAACTAATTTGG
1 ATTTTTTCAAAACTAATTTGG
* *
37813111 ATTTTATTACAAAAGAGTAA--T-A
1 ATTTT-TT-C-AAA-ACTAATTTGG
37813133 ATTTTTTCAAAACTAATTTGG
1 ATTTTTTCAAAACTAATTTGG
37813154 ATTTT
1 ATTTT
37813159 ATTACAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 2 0.05
21 12 0.32
22 7 0.19
23 2 0.05
24 3 0.08
25 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (21 bp):
ATTTTTTCAAAACTAATTTGG
Found at i:37813127 original size:43 final size:43
Alignment explanation
Indices: 37813079--37813166 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
37813069 TCTCCTTTGT
*
37813079 AAAGAGTAATCATTTTTTCAAAACTAATTTGGATTTTATTACA
1 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
37813122 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
1 AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
37813165 AA
1 AA
37813167 CTTGTTTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (43 bp):
AAAGAGTAATAATTTTTTCAAAACTAATTTGGATTTTATTACA
Found at i:37813167 original size:22 final size:22
Alignment explanation
Indices: 37813099--37813168 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
37813089 CATTTTTTCA
37813099 AAACTAATTTGGATTTTATTAC
1 AAACTAATTTGGATTTTATTAC
** * * *
37813121 AAAAGAGTAAT-AATTTT-TT-C
1 AAACTAAT-TTGGATTTTATTAC
37813141 AAAACTAATTTGGATTTTATTAC
1 -AAACTAATTTGGATTTTATTAC
37813164 AAACT
1 AAACT
37813169 TGTTTTTCAA
Statistics
Matches: 33, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 17 0.52
23 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
AAACTAATTTGGATTTTATTAC
Found at i:37813764 original size:40 final size:40
Alignment explanation
Indices: 37813700--37813816 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
37813690 CACCAGTTTG
* * **
37813700 TGGACAAGCCACCAATAATGCAGATAAACTGTTAGTATTA
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
* * *
37813740 TGGACAAGTCACTAGTAATACAGATAAACTACTAGTATTG
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
* * * *
37813780 TGGACAAGCCACCAGTATTGCAGACAAGCTACTAGTA
1 TGGACAAGCCACCAGTAATACAGATAAACTACTAGTA
37813817 ATTCCTCCAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
TGGACAAGCCACCAGTAATACAGATAAACTACTAGTATTA
Found at i:37813816 original size:20 final size:20
Alignment explanation
Indices: 37813768--37813816 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
37813758 TACAGATAAA
**
37813768 CTACTAGTATTGTGGACAAG
1 CTACTAGTATTGCAGACAAG
* *
37813788 CCACCAGTATTGCAGACAAG
1 CTACTAGTATTGCAGACAAG
37813808 CTACTAGTA
1 CTACTAGTA
37813817 ATTCCTCCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
CTACTAGTATTGCAGACAAG
Found at i:37817496 original size:19 final size:19
Alignment explanation
Indices: 37817464--37817506 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37817454 TACAACATAT
*
37817464 TTCAC-ATCTAATTTTCAA
1 TTCACTATCTAATTTCCAA
* *
37817482 TTCACTATCTCATTTCCAT
1 TTCACTATCTAATTTCCAA
37817501 TTCACT
1 TTCACT
37817507 TACCATGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCACTATCTAATTTCCAA
Found at i:37827017 original size:22 final size:23
Alignment explanation
Indices: 37826967--37827022 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
37826957 TTTATATGAA
**
37826967 AATATGTGAGTATGCATATTGTAT
1 AATATGTGA-TATAAATATTGTAT
37826991 AATATGTGATATAAATA-TGTAT
1 AATATGTGATATAAATATTGTAT
* *
37827013 GATATATGAT
1 AATATGTGAT
37827023 TATGATATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (23 bp):
AATATGTGATATAAATATTGTAT
Found at i:37827295 original size:25 final size:25
Alignment explanation
Indices: 37827267--37827335 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
37827257 GACTTGATAT
*
37827267 GATAAGATATGTTATGTTATGATTC
1 GATAAGATATGATATGTTATGATTC
*
37827292 GATATA-ATATGATATGTTATGCTTC
1 GATA-AGATATGATATGTTATGATTC
* * *
37827317 AATATGATATGATAAGTTA
1 GATAAGATATGATATGTTA
37827336 AGATATGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.42
Consensus pattern (25 bp):
GATAAGATATGATATGTTATGATTC
Found at i:37841213 original size:24 final size:25
Alignment explanation
Indices: 37841161--37841236 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 25
37841151 TATAAATTTG
*
37841161 TAAAA-AAATATTAAAATTTATAAA-
1 TAAAATAAATATTAAAAATTA-AAAT
37841185 T-AAATAAAT-TTAAAAATTAAAAT
1 TAAAATAAATATTAAAAATTAAAAT
* **
37841208 TAAAATTAATAAAAAAAATTAAAAGT
1 TAAAATAAATATTAAAAATTAAAA-T
37841234 TAA
1 TAA
37841237 GCCCATAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
24 12 0.28
25 11 0.26
26 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
TAAAATAAATATTAAAAATTAAAAT
Found at i:37841216 original size:19 final size:19
Alignment explanation
Indices: 37841161--37841236 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
37841151 TATAAATTTG
*
37841161 TAAAAAAATATTAAAATTTA
1 TAAAAAAA-ATTAAAATTAA
* *
37841181 T-AAATAAA-TAAATTTAA
1 TAAAAAAAATTAAAATTAA
*
37841198 -AAATTAAAATTAAAATTAA
1 TAAA-AAAAATTAAAATTAA
37841217 TAAAAAAAATTAAAAGTTAA
1 TAAAAAAAATTAAAA-TTAA
37841237 GCCCATAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
17 9 0.20
18 4 0.09
19 23 0.52
20 8 0.18
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAAAAAATTAAAATTAA
Found at i:37842850 original size:67 final size:67
Alignment explanation
Indices: 37842767--37842900 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
37842757 ATGGATTAAG
37842767 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
1 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
37842832 AT
66 AT
37842834 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
1 GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
37842899 AT
66 AT
37842901 AATCATATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (67 bp):
GAACAGTTTGAAGAAACAATGTTGATGATAGAGAATCCAAATGAATGCGTCTCCATACAACACAT
AT
Found at i:37847507 original size:18 final size:18
Alignment explanation
Indices: 37847466--37847507 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
37847456 TTTTAAAGAG
**
37847466 TTATTTTTAGGATTTTCC
1 TTATTTTTAGGATTTAAC
37847484 TGTATTTTTAGGATTTAAC
1 T-TATTTTTAGGATTTAAC
37847503 TTATT
1 TTATT
37847508 AATAGTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (18 bp):
TTATTTTTAGGATTTAAC
Found at i:37858261 original size:23 final size:23
Alignment explanation
Indices: 37858231--37858276 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
37858221 GTTATAACTT
37858231 TTTTTTATTTACCAAAAAATATA
1 TTTTTTATTTACCAAAAAATATA
*
37858254 TTTTTTATTTACCAAAATATATA
1 TTTTTTATTTACCAAAAAATATA
37858277 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTTTATTTACCAAAAAATATA
Found at i:37858414 original size:27 final size:27
Alignment explanation
Indices: 37858346--37858415 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
37858336 CGCCAATGGG
*
37858346 ATTGGCGGCACCAAAGGTGCCAAAGCC
1 ATTGGCGGCACCAATGGTGCCAAAGCC
37858373 ATTGGCGGCACCAATGGTGCCAATA-CC
1 ATTGGCGGCACCAATGGTGCCAA-AGCC
37858400 ATTGGCGGCACCAATG
1 ATTGGCGGCACCAATG
37858416 TTTATTAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGCC
Found at i:37858467 original size:4 final size:4
Alignment explanation
Indices: 37858458--37858603 Score: 117
Period size: 4 Copynumber: 36.0 Consensus size: 4
37858448 GAAGGAGAGG
*
37858458 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA
* * *
37858507 -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA
1 GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA
*
37858555 G-AA G-AA GAAAA GGAAAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA
1 GAAA GAAA G-AAA -G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
37858600 GAAA
1 GAAA
37858604 ACGAAAGGAG
Statistics
Matches: 119, Mismatches: 10, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
3 18 0.15
4 73 0.61
5 21 0.18
6 7 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:37858545 original size:44 final size:43
Alignment explanation
Indices: 37858497--37858637 Score: 188
Period size: 40 Copynumber: 3.4 Consensus size: 43
37858487 AAAGGAGAGG
37858497 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAG-AAA
*
37858541 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AGAAA
1 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
*
37858581 AAAGAAAG--AAAGAAGGAAAGAAAACGAAAGGAGAAGAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
*
37858622 AAAG-AAGAAGAAGAAG
1 AAAGAAAGAAAAAGAAG
37858638 AGGGAAGAAG
Statistics
Matches: 86, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
37 5 0.06
38 2 0.02
39 14 0.16
40 15 0.17
41 11 0.13
42 7 0.08
43 15 0.17
44 12 0.14
45 5 0.06
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (43 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
Found at i:37858588 original size:70 final size:68
Alignment explanation
Indices: 37858462--37858665 Score: 170
Period size: 73 Copynumber: 2.9 Consensus size: 68
37858452 GAGAGGGAAA
* * *
37858462 GAAAGAAAGAAAGAAAGAAAGAAAGAAAGGAGAGG-AAAGA-AAGAAAAAGAAGGAAAGAAAAGG
1 GAAAAAAAGAAAGAAAG-AAG-AAG-AAGAAAAGGAAAAGAGAAG-AAAA-AA-GAAAGAAAAGG
37858525 AAAGGAGAAGA-
60 AAA-GA-AA-AC
37858536 GAAAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAG
1 GAAAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAG-AA-AAGGAAAG
37858601 AAAAC
64 AAAAC
*
37858606 GAAAGGAGAAGAGAAA-AAAGAAGAAGAAGAAGAGGGAAGAAG-GAA-AAAAAAGAAA-AAAAG
1 GAAA--A-AA-AGAAAGAAAGAAGAAGAAGAA-AAGGAA-AAGAGAAGAAAAAAGAAAGAAAAG
37858666 TAATTTTATT
Statistics
Matches: 115, Mismatches: 4, Indels: 26
0.79 0.03 0.18
Matches are distributed among these distances:
69 1 0.01
70 14 0.12
71 15 0.13
72 20 0.17
73 33 0.29
74 29 0.25
75 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (68 bp):
GAAAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAGAAAAGGAAAGAA
AAC
Found at i:37858594 original size:82 final size:79
Alignment explanation
Indices: 37858459--37858663 Score: 249
Period size: 82 Copynumber: 2.5 Consensus size: 79
37858449 AAGGAGAGGG
* *
37858459 AAAGAAAGAAAGAAAGAAAGAA-AGAAA-GAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAA
1 AAAGAAAGAAAG-AAG-AAGAAGA-AAAGGAAAAGAGAAGAAA-AAAGAAAAAGAAGGAAAGAAA
*
37858522 AGGAAAGGAGAAGAGAAAA
62 ACGAAAGGAGAAGAG-AAA
37858541 AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAAC
1 AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAG-AA-AAAGAAGGAAAGAAAAC
37858606 GAAAGGAGAAGAGAAA
64 GAAAGGAGAAGAGAAA
* *
37858622 AAAG-AAG-AAGAAGAAGAGGGAAGAAGGAAAA-AAAAGAAAAAA
1 AAAGAAAGAAAGAAGAAGA-AGAA-AAGGAAAAGAGAAGAAAAAA
37858664 AGTAATTTTA
Statistics
Matches: 112, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
79 10 0.09
80 28 0.25
81 33 0.29
82 41 0.37
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.00
Consensus pattern (79 bp):
AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAAAGAAGGAAAGAAAACGA
AAGGAGAAGAGAAA
Found at i:37858646 original size:44 final size:45
Alignment explanation
Indices: 37858502--37858643 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 45
37858492 AGAGGAAAGA
*
37858502 AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAG-AAAAA-AAG
1 AAGAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG
*
37858545 AAAGAAAGAAGAA-G-AAGAAAAGGAAAAGAG-A-AGAAAAAAG-A-
1 -AAG-AAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG
*
37858586 AAG-A-AAGAAGGAAAGAAAACGAAAGGAGAAGAGAAAAAAGAAG
1 AAGAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG
*
37858629 AAGAAGAAGAGGGAA
1 AAGAAGAAGAAGGAA
37858644 GAAGGAAAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
37 5 0.06
38 2 0.02
39 14 0.17
40 4 0.05
41 11 0.13
42 8 0.10
43 18 0.22
44 5 0.06
45 15 0.18
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (45 bp):
AAGAAGAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAG
Found at i:37866481 original size:18 final size:18
Alignment explanation
Indices: 37866458--37866495 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37866448 ATCCCAATGA
**
37866458 TCGCCGGCTTCTTCTTCT
1 TCGCCGGCACCTTCTTCT
37866476 TCGCCGGCACCTTCTTCT
1 TCGCCGGCACCTTCTTCT
37866494 TC
1 TC
37866496 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.42, G:0.16, T:0.39
Consensus pattern (18 bp):
TCGCCGGCACCTTCTTCT
Found at i:37867261 original size:3 final size:3
Alignment explanation
Indices: 37867253--37867282 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37867243 NNNNNNNNNN
37867253 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
37867283 TAATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:37867287 original size:3 final size:3
Alignment explanation
Indices: 37867281--37867327 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
37867271 CAACAACAAC
*
37867281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
37867327 A
1 A
37867328 CTATTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37867397 original size:19 final size:21
Alignment explanation
Indices: 37867373--37867411 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
37867363 ATTAAAACAA
*
37867373 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
37867392 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
37867412 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:37867454 original size:11 final size:11
Alignment explanation
Indices: 37867438--37867475 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37867428 AAAGATACCT
*
37867438 TCTTTTTTTCC
1 TCTTTTTCTCC
37867449 TCTTTTTCT-C
1 TCTTTTTCTCC
*
37867459 TCTTTTTCTCT
1 TCTTTTTCTCC
37867470 TCTTTT
1 TCTTTT
37867476 CCGCAACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTTTCTCC
Found at i:37867476 original size:10 final size:10
Alignment explanation
Indices: 37867442--37867475 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
37867432 ATACCTTCTT
37867442 TTTTTC-CTC
1 TTTTTCTCTC
37867451 TTTTTCTCTC
1 TTTTTCTCTC
37867461 TTTTTCTCTTC
1 TTTTTCTC-TC
37867472 TTTT
1 TTTT
37867476 CCGCAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 11 0.48
11 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:37867604 original size:27 final size:27
Alignment explanation
Indices: 37867574--37867658 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
37867564 CCAATTAGTA
37867574 TGGCACCATTGGTGCCGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
**
37867601 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* **
37867628 TGGCACCTTTGGTGCCGCCAATCCCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
37867655 TGGC
1 TGGC
37867659 GTGACCAGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCAT
Found at i:37867733 original size:19 final size:19
Alignment explanation
Indices: 37867711--37867749 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37867701 TTTTTGATAT
*
37867711 ATTTTGATAAATAAAAAAA
1 ATTTCGATAAATAAAAAAA
*
37867730 ATTTCGGTAAATAAAAAAA
1 ATTTCGATAAATAAAAAAA
37867749 A
1 A
37867750 GTTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (19 bp):
ATTTCGATAAATAAAAAAA
Found at i:37870373 original size:9 final size:9
Alignment explanation
Indices: 37870356--37870392 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
37870346 TAAGTTTTCG
37870356 AATTCGAAT
1 AATTCGAAT
*
37870365 AACTCGAAT
1 AATTCGAAT
37870374 AATTCGAAT
1 AATTCGAAT
37870383 AATTCGAAT
1 AATTCGAAT
37870392 A
1 A
37870393 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:37875084 original size:18 final size:18
Alignment explanation
Indices: 37875045--37875085 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
37875035 ATGTTTATAT
* * *
37875045 TAGAATGCTTGAAGGATT
1 TAGAATGCTGGAAGCATA
37875063 TAGAATGCTGGAAGCATA
1 TAGAATGCTGGAAGCATA
37875081 TAGAA
1 TAGAA
37875086 ATTTTGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (18 bp):
TAGAATGCTGGAAGCATA
Found at i:37883883 original size:23 final size:22
Alignment explanation
Indices: 37883840--37883883 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
37883830 TTGTAAGTCG
37883840 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
37883863 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
37883884 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:37883992 original size:45 final size:45
Alignment explanation
Indices: 37883928--37884016 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
37883918 AACAGATACT
* *
37883928 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
37883973 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
37884017 TCGNNNNNNN
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:37887713 original size:42 final size:42
Alignment explanation
Indices: 37887653--37887736 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
37887643 TAACCTAATT
* * * *
37887653 GGGAAAATAATTCCCTTATTCTAGTAAACTACTAGAAGATAA
1 GGGAAAATAATTACCTTATTATAATAAACTACTAAAAGATAA
*
37887695 GGGAAAATAATTATCTTATTATAATAAACTACTAAAAGATAA
1 GGGAAAATAATTACCTTATTATAATAAACTACTAAAAGATAA
37887737 AATAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.30
Consensus pattern (42 bp):
GGGAAAATAATTACCTTATTATAATAAACTACTAAAAGATAA
Found at i:37887798 original size:19 final size:19
Alignment explanation
Indices: 37887774--37887819 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
37887764 TGATTTATTC
37887774 TAAGATTTATCTA-CATAAA
1 TAAGATTTATCTATC-TAAA
37887793 TAAGATTTATCTATCTAAA
1 TAAGATTTATCTATCTAAA
37887812 TAA-ATTTA
1 TAAGATTTA
37887820 AAATATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (19 bp):
TAAGATTTATCTATCTAAA
Found at i:37888740 original size:15 final size:15
Alignment explanation
Indices: 37888720--37888750 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37888710 AAGAAAGTAT
37888720 TTCAAAGGACCTAAG
1 TTCAAAGGACCTAAG
37888735 TTCAAAGGACCTAAG
1 TTCAAAGGACCTAAG
37888750 T
1 T
37888751 CTTTAATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (15 bp):
TTCAAAGGACCTAAG
Found at i:37892388 original size:42 final size:42
Alignment explanation
Indices: 37892328--37892411 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
37892318 TAACCTAATT
*
37892328 GGGAAAATAATTCCCTTATTCTAGTAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
*
37892370 GGGAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
37892412 AATAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
Found at i:37892419 original size:42 final size:42
Alignment explanation
Indices: 37892330--37892425 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
37892320 ACCTAATTGG
* * **
37892330 GAAAATAATTCCCTTATTCTAGTAAACTACTAAAAGATAAGG
1 GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAAA
37892372 GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAAA
* *
37892414 TAAAATATTTCT
1 GAAAATAATTCT
37892426 AGAATATATC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (42 bp):
GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:37906320 original size:37 final size:37
Alignment explanation
Indices: 37906270--37906348 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
37906260 TTGAGGCTAA
*
37906270 AATTTCTTTTAGGGGGTAGAGTTGTAACGCCTTGAAT
1 AATTTCTTTTAGGGGGTAGAGTTGTAACGCCCTGAAT
*
37906307 AATTTCTTTTAGGGGGTAGAGTTGTAATGCCCTGAAT
1 AATTTCTTTTAGGGGGTAGAGTTGTAACGCCCTGAAT
37906344 AATTT
1 AATTT
37906349 AATTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (37 bp):
AATTTCTTTTAGGGGGTAGAGTTGTAACGCCCTGAAT
Found at i:37909845 original size:25 final size:26
Alignment explanation
Indices: 37909779--37909870 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 26
37909769 CTTATGAGTG
* * *
37909779 TCCCGATATATGGCTCTTCGTGAGCT
1 TCCCGTTACATGGCTCTTTGTGAGCT
* *
37909805 TCCTGATTA-AAGGCTCTTTGTGAGCT
1 TCCCG-TTACATGGCTCTTTGTGAGCT
*
37909831 TCCCGTTA-ATGGCTCTCTG-GAGCT
1 TCCCGTTACATGGCTCTTTGTGAGCT
*
37909855 TCTCGTTACATGGCTC
1 TCCCGTTACATGGCTC
37909871 ACATGAGCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 12 0.21
25 19 0.34
26 23 0.41
27 2 0.04
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (26 bp):
TCCCGTTACATGGCTCTTTGTGAGCT
Found at i:37909861 original size:24 final size:25
Alignment explanation
Indices: 37909779--37909895 Score: 96
Period size: 25 Copynumber: 4.6 Consensus size: 25
37909769 CTTATGAGTG
*
37909779 TCCCGATATATGGCTCT-TCGTGAGCT
1 TCCCGTTA-ATGGCTCTCT-GTGAGCT
* * *
37909805 TCCTGATTAAAGGCTCTTTGTGAGCT
1 TCCCG-TTAATGGCTCTCTGTGAGCT
37909831 TCCCGTTAATGGCTCTCTG-GAGCT
1 TCCCGTTAATGGCTCTCTGTGAGCT
* * *
37909855 TCTCGTTACATGGCTCAC-ATGAGCT
1 TCCCGTTA-ATGGCTCTCTGTGAGCT
*
37909880 TCCCATTAAATGGCTC
1 TCCCGTT-AATGGCTC
37909896 GAGAGAGAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.16
25 37 0.49
26 23 0.31
27 3 0.04
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGTTAATGGCTCTCTGTGAGCT
Found at i:37915412 original size:26 final size:26
Alignment explanation
Indices: 37915383--37915434 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
37915373 TTGTGATTAT
37915383 ATTTATTTTATAATATTGTAAGGTAA
1 ATTTATTTTATAATATTGTAAGGTAA
37915409 ATTTATTTTATAATATTGTAAGGTAA
1 ATTTATTTTATAATATTGTAAGGTAA
37915435 GTATTCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (26 bp):
ATTTATTTTATAATATTGTAAGGTAA
Found at i:37919715 original size:20 final size:20
Alignment explanation
Indices: 37919692--37919732 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37919682 TCCTTAATTA
37919692 TACATAAATTTAATTTTATT
1 TACATAAATTTAATTTTATT
** *
37919712 TACATATTTTTTATTTTATT
1 TACATAAATTTAATTTTATT
37919732 T
1 T
37919733 TTGGCTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TACATAAATTTAATTTTATT
Found at i:37919875 original size:18 final size:19
Alignment explanation
Indices: 37919852--37919888 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
37919842 AAATGTTAAA
*
37919852 AATTAAATTTAT-TATAAT
1 AATTAAAATTATGTATAAT
37919870 AATTAAAATTATGTATAAT
1 AATTAAAATTATGTATAAT
37919889 TGATGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTAAAATTATGTATAAT
Found at i:37921327 original size:1 final size:1
Alignment explanation
Indices: 37921321--37921346 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
37921311 TGTATTGAAG
37921321 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
37921347 TTCATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:37923291 original size:43 final size:42
Alignment explanation
Indices: 37923238--37923462 Score: 294
Period size: 43 Copynumber: 5.3 Consensus size: 42
37923228 ACGTCGCTAA
*
37923238 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-AGAAAAAACGCCGCTAAAGATCATGTT
* *
37923281 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCAAAAGATCATGTT
1 CTTTAGCGGCGCTTAAG-AAAAAACGCCGCTAAAGATCATGTT
* *
37923324 CTTTAGCGGCGCTT-AGAAAAAAAGCCGCAAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
*
37923365 CTTTAGCGGCGCTTAGGAAAAAA-GCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
* * * *
37923406 CTTTAGCGGGGCTTTAGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAAGAA-AAAACGCCGCTAAAGA-TCATGTT
*
37923449 CTATAGCGGCGCTT
1 CTTTAGCGGCGCTT
37923463 GTTCAAAAAT
Statistics
Matches: 163, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
41 71 0.44
42 14 0.09
43 78 0.48
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
Found at i:37923356 original size:41 final size:41
Alignment explanation
Indices: 37923238--37923504 Score: 290
Period size: 41 Copynumber: 6.3 Consensus size: 41
37923228 ACGTCGCTAA
* * *
37923238 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAAGCCGCAAAAGATCATGTT
37923281 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCAAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAA-GCCGCAAAAGATCATGTT
37923324 CTTTAGCGGCGCTTAGAAAAAAAGCCGCAAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAAGCCGCAAAAGATCATGTT
* *
37923365 CTTTAGCGGCGCTTAGGAAAAAAGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAAGCCGCAAAAGATCATGTT
* * * *
37923406 CTTTAGCGGGGCTTTAGAAGAAAACGCCTCTAAAAG-TAATGTT
1 CTTTAGCGGCGC-TTAGAA-AAAAAGCCGC-AAAAGATCATGTT
* * *
37923449 CTATAGCGGCGCTT-GTTCAAAAATGCCGCTAAAAG-T-AGTGTT
1 CTTTAGCGGCGCTTAG--AAAAAAAGCCGC-AAAAGATCA-TGTT
*
37923491 TTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
37923505 GTTTCACAAA
Statistics
Matches: 198, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
41 71 0.36
42 53 0.27
43 70 0.35
44 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (41 bp):
CTTTAGCGGCGCTTAGAAAAAAAGCCGCAAAAGATCATGTT
Done.