Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 340 of 410
Found at i:105000933 original size:54 final size:54
Alignment explanation
Indices: 105000829--105000938 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
105000819 GAAGCGTCCA
* *
105000829 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCT
* ** *
105000883 GGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
105000937 GG
1 GG
105000939 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCT
Found at i:105001994 original size:29 final size:30
Alignment explanation
Indices: 105001924--105001995 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
105001914 AGACTAAAAA
*
105001924 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
105001952 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
105001983 AAATAATTATAAA
1 AAATAATTATAAA
105001996 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:105002595 original size:24 final size:23
Alignment explanation
Indices: 105002550--105002619 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 23
105002540 CAAGTACGTA
105002550 TGCTCTTCTCTCTTCTTCTTTTTTT
1 TGCTCTTCTCTC-TCTT-TTTTTTT
105002575 ATG-TACTTCTCTCTC-TTTTTTTT
1 -TGCT-CTTCTCTCTCTTTTTTTTT
105002598 TGCTCTTCTCTCTCTTTTTTTT
1 TGCTCTTCTCTCTCTTTTTTTT
105002620 CTAACACGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
22 12 0.29
23 15 0.37
24 1 0.02
25 3 0.07
26 10 0.24
ACGTcount: A:0.03, C:0.26, G:0.04, T:0.67
Consensus pattern (23 bp):
TGCTCTTCTCTCTCTTTTTTTTT
Found at i:105002619 original size:22 final size:23
Alignment explanation
Indices: 105002548--105002619 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 23
105002538 TTCAAGTACG
105002548 TATGCTCTTCTCTCTTCTTCTTTTTT
1 TATGCTCTTCTCTC-TC-T-TTTTTT
105002574 TATG-TACTTCTCTCTCTTTTTTT
1 TATGCT-CTTCTCTCTCTTTTTTT
105002597 T-TGCTCTTCTCTCTCTTTTTTT
1 TATGCTCTTCTCTCTCTTTTTTT
105002619 T
1 T
105002620 CTAACACGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.45
23 8 0.18
24 1 0.02
25 3 0.07
26 12 0.27
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.67
Consensus pattern (23 bp):
TATGCTCTTCTCTCTCTTTTTTT
Found at i:105006598 original size:46 final size:46
Alignment explanation
Indices: 105006453--105006621 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
105006443 GTTTGTGTGT
*
105006453 TAGTGTAAGACATGTCTAGGACATGCATCGGCCA-CATT-ATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGG-CATC-TTGATGAGAGC
* * * *
105006499 TAGTGTAAAACCATGTCTGGGACTTGGCATCGGCAT-TGAGACGAGAGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCT-TGATGAGAGC
*
105006547 TAGTGTAAGACATGTTTGGGACATGCATCGGCATCTTGATGTA-AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCATCTTGATG-AGAGC
* *
105006593 CAGTGTAAGACATGTCTGGGAAATGCATC
1 TAGTGTAAGACATGTCTGGGACATGCATC
105006622 AGCTACATGA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
46 52 0.50
47 28 0.27
48 23 0.22
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCATCTTGATGAGAGC
Found at i:105006633 original size:46 final size:44
Alignment explanation
Indices: 105006548--105006658 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 44
105006538 GACGAGAGCT
* * * *
105006548 AGTGTAAGACATGTTTGGGACATGCATCGGCATCTTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGAAATGCATCAGCATCATGATGT--GCC
*
105006594 AGTGTAAGACATGTCTGGGAAATGCATCAGC-TACATGATGTGTC
1 AGTGTAAGACATGTCTGGGAAATGCATCAGCAT-CATGATGTGCC
*
105006638 AGTATAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
105006659 CATGAAATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 10 0.18
45 12 0.21
46 35 0.61
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGAAATGCATCAGCATCATGATGTGCC
Found at i:105008799 original size:14 final size:15
Alignment explanation
Indices: 105008774--105008802 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
105008764 CACGTCCAGC
105008774 TGGATGAGAGTGATG
1 TGGATGAGAGTGATG
105008789 TGGAT-AGAGTGATG
1 TGGATGAGAGTGATG
105008803 AGCCATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.45, T:0.28
Consensus pattern (15 bp):
TGGATGAGAGTGATG
Found at i:105018733 original size:8 final size:8
Alignment explanation
Indices: 105018722--105018749 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
105018712 TTTAGTCCCT
105018722 AAATCACA
1 AAATCACA
105018730 AAATCACA
1 AAATCACA
105018738 AAATCACA
1 AAATCACA
105018746 AAAT
1 AAAT
105018750 AGACATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCACA
Found at i:105025946 original size:12 final size:12
Alignment explanation
Indices: 105025927--105025956 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
105025917 GTTTAGTCTG
105025927 CCTTATTTTTTT
1 CCTTATTTTTTT
*
105025939 CTTTATTTTTTT
1 CCTTATTTTTTT
105025951 CCTTAT
1 CCTTAT
105025957 ATCAAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (12 bp):
CCTTATTTTTTT
Found at i:105026707 original size:13 final size:13
Alignment explanation
Indices: 105026689--105026725 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
105026679 CCCCAAATCC
105026689 TAAACCTTGAACT
1 TAAACCTTGAACT
*
105026702 TAAACCCTGAACT
1 TAAACCTTGAACT
105026715 TAAACCTTGAA
1 TAAACCTTGAA
105026726 TCCCAACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (13 bp):
TAAACCTTGAACT
Found at i:105027347 original size:21 final size:22
Alignment explanation
Indices: 105027312--105027352 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
105027302 TCAAACCCAT
**
105027312 ACCATGAACTCTAAA-CTAGGA
1 ACCATGAACAATAAATCTAGGA
105027333 ACCATGAACAATAAATCTAG
1 ACCATGAACAATAAATCTAG
105027353 AAACTTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (22 bp):
ACCATGAACAATAAATCTAGGA
Found at i:105027512 original size:22 final size:22
Alignment explanation
Indices: 105027449--105027527 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
105027439 CCCTAACTCT
*
105027449 TAACCATAAA-CATAAACCCT-A
1 TAACCATAAACCATAAA-ACTAA
* *
105027470 -AACCTTAAACC-TAAAATTAA
1 TAACCATAAACCATAAAACTAA
*
105027490 TAGCCATAAACCATAAAACTAA
1 TAACCATAAACCATAAAACTAA
* *
105027512 TAACCCTAAATCATAA
1 TAACCATAAACCATAA
105027528 CCTTAAATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 10 0.22
22 21 0.47
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (22 bp):
TAACCATAAACCATAAAACTAA
Found at i:105027632 original size:28 final size:28
Alignment explanation
Indices: 105027601--105027671 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
105027591 CATAACATTG
*
105027601 AATCTTAAACCCTAAACACCAAA-TCTAA
1 AATCTTAAACCCTAAACAACAAACT-TAA
*
105027629 AATCTCAAACCCTAAACAACAAACTTAA
1 AATCTTAAACCCTAAACAACAAACTTAA
* *
105027657 AAGCCTAAACCCTAA
1 AATCTTAAACCCTAA
105027672 TCTATAACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (28 bp):
AATCTTAAACCCTAAACAACAAACTTAA
Found at i:105027755 original size:13 final size:13
Alignment explanation
Indices: 105027737--105027796 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
105027727 AACTTAAAAT
*
105027737 CTCAAATCCTAAA
1 CTCAAACCCTAAA
* *
105027750 CTCAAATCATAAA
1 CTCAAACCCTAAA
* *
105027763 CCTTAAACCCTAAG
1 -CTCAAACCCTAAA
105027777 C-CAAAACCCTAAA
1 CTC-AAACCCTAAA
105027790 CTCAAAC
1 CTCAAAC
105027797 TCATAGCCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 27 0.73
14 10 0.27
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (13 bp):
CTCAAACCCTAAA
Found at i:105027769 original size:20 final size:20
Alignment explanation
Indices: 105027720--105027810 Score: 55
Period size: 20 Copynumber: 4.5 Consensus size: 20
105027710 TTAATTTTAG
*
105027720 AACCTTAAACTTAAAATC-TCA
1 AACCTTAAAC-TCAAATCAT-A
105027741 AATCC-TAAACTCAAATCATA
1 AA-CCTTAAACTCAAATCATA
* **
105027761 AACCTTAAACCCTAAGCCA-A
1 AACCTTAAACTC-AAATCATA
*
105027781 AACCCTAAACTCAAACTCAT-
1 AACCTTAAACTCAAA-TCATA
*
105027801 AGCCTTAAAC
1 AACCTTAAAC
105027811 CCTTTCAACC
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.07
20 36 0.67
21 12 0.22
22 2 0.04
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (20 bp):
AACCTTAAACTCAAATCATA
Found at i:105030943 original size:30 final size:31
Alignment explanation
Indices: 105030906--105031024 Score: 71
Period size: 32 Copynumber: 3.7 Consensus size: 31
105030896 TTAATCCCTT
105030906 TTATATATTTAATTTATTATTTATTTTTTTAA
1 TTATATA-TTAATTTATTATTTATTTTTTTAA
* ** * * *
105030938 TTATATATAAAGATAGTATATATTATTTTTAT
1 TTATATATTAATTTATTATTTATT-TTTTTAA
* * *
105030970 TTATATGA-TATTTTATCATATTATTTATATTTCA
1 TTATAT-ATTAATTTATTAT-TTATTT-T-TTTAA
*
105031004 TTATAT-TTTATTTATATATTT
1 TTATATATTAATTTAT-TATTT
105031025 TATTATATAT
Statistics
Matches: 62, Mismatches: 18, Indels: 13
0.67 0.19 0.14
Matches are distributed among these distances:
31 12 0.19
32 25 0.40
33 14 0.23
34 11 0.18
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (31 bp):
TTATATATTAATTTATTATTTATTTTTTTAA
Found at i:105030974 original size:17 final size:16
Alignment explanation
Indices: 105030954--105031115 Score: 83
Period size: 15 Copynumber: 10.4 Consensus size: 16
105030944 ATAAAGATAG
105030954 TATATATTATTTTTAT
1 TATATATTATTTTTAT
*
105030970 T-TATATGATATTTTA-
1 TATATATTAT-TTTTAT
* *
105030985 T-CATATTATTTATAT
1 TATATATTATTTTTAT
*
105031000 T-T-CATTATATTTTAT
1 TATATATTAT-TTTTAT
105031015 T-TATA-TA-TTTTAT
1 TATATATTATTTTTAT
*
105031028 TATATATCATATTTTAT
1 TATATATTAT-TTTTAT
**
105031045 TATATATTATTCCCTA-
1 TATATATTATT-TTTAT
* **
105031061 TATTATCTTCCTTTTAT
1 TA-TATATTATTTTTAT
*
105031078 TATATATTA-TTTCAT
1 TATATATTATTTTTAT
* *
105031093 TATTTATTATTTATTAG
1 TATATATTATTT-TTAT
105031110 TATATA
1 TATATA
105031116 AAAATTAAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
13 7 0.06
14 13 0.12
15 38 0.35
16 19 0.17
17 32 0.29
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (16 bp):
TATATATTATTTTTAT
Found at i:105031001 original size:19 final size:20
Alignment explanation
Indices: 105030967--105031020 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
105030957 ATATTATTTT
* *
105030967 TATTTATATGATATTTTATCA
1 TATTTAT-TTATATTTCATCA
*
105030988 TA-TTATTTATATTTCATTA
1 TATTTATTTATATTTCATCA
105031007 TATTTTATTTATAT
1 TA-TTTATTTATAT
105031021 ATTTTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTATTTATATTTCATCA
Found at i:105031023 original size:29 final size:29
Alignment explanation
Indices: 105030964--105031052 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
105030954 TATATATTAT
* *
105030964 TTTTATT-TATATGATATTTTATCATATTA
1 TTTTATTATATATCATATTTTATTATA-TA
105030993 TTTATATT-TCAT-T-ATATTTTATTTATATA
1 TTT-TATTAT-ATATCATATTTTA-TTATATA
105031022 TTTTATTATATATCATATTTTATTATATA
1 TTTTATTATATATCATATTTTATTATATA
105031051 TT
1 TT
105031053 ATTCCCTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
28 6 0.11
29 27 0.51
30 18 0.34
31 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTATTATATATCATATTTTATTATATA
Found at i:105031087 original size:7 final size:7
Alignment explanation
Indices: 105031073--105031108 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
105031063 TTATCTTCCT
105031073 TTTATTA
1 TTTATTA
*
105031080 TATATTA
1 TTTATTA
105031087 TTTCATTA
1 TTT-ATTA
105031095 TTTATTA
1 TTTATTA
105031102 TTTATTA
1 TTTATTA
105031109 GTATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:105034711 original size:136 final size:136
Alignment explanation
Indices: 105034467--105034751 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
105034457 CATTGGGCCT
**
105034467 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
105034532 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
105034597 ATATGC
131 ATATGC
105034603 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
105034668 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
105034733 ATATGC
131 ATATGC
105034739 AAGCCCATTTGGG
1 AAGCCCATTTGGG
105034752 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:105034787 original size:21 final size:21
Alignment explanation
Indices: 105034758--105034805 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
105034748 TGGGGAGACT
*
105034758 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
105034779 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
105034800 ACTCCA
1 ACTCCA
105034806 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:105036553 original size:26 final size:26
Alignment explanation
Indices: 105036517--105036626 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
105036507 CATGAATTTC
*
105036517 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
105036543 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
105036569 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
105036595 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105036621 TTATCA
1 TTATCA
105036627 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105045795 original size:3 final size:3
Alignment explanation
Indices: 105045789--105045821 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
105045779 ATGAAGTTGT
*
105045789 TGA TGA TGA CGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
105045822 AAATGCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
TGA
Found at i:105053441 original size:3 final size:3
Alignment explanation
Indices: 105053433--105053498 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
105053423 AGATATTTAC
105053433 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105053481 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
105053499 ATATGTCATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105061119 original size:3 final size:3
Alignment explanation
Indices: 105061111--105061159 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
105061101 AGATATTTAC
105061111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105061159 T
1 T
105061160 AATTTACAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105061206 original size:28 final size:26
Alignment explanation
Indices: 105061175--105061228 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
105061165 ACAAATGGTG
105061175 ACATATG-GTGATAAATTAACACATGTAT
1 ACATATGTGT-ATAAA-T-ACACATGTAT
*
105061203 ACATGTGTGTATAAATACACATGTAT
1 ACATATGTGTATAAATACACATGTAT
105061229 TATTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 10 0.42
27 1 0.04
28 11 0.46
29 2 0.08
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (26 bp):
ACATATGTGTATAAATACACATGTAT
Found at i:105063353 original size:20 final size:20
Alignment explanation
Indices: 105063328--105063365 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
105063318 GCCTCACAGG
105063328 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
105063348 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
105063366 AAACTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.37, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:105065953 original size:28 final size:27
Alignment explanation
Indices: 105065910--105066015 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
105065900 GAAATCAGTG
105065910 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
105065937 TTAATCTGGGCCATAGCCCCTTACAGTATCAA-A
1 TTAATCTGGGCC-TAG--CC---CA-TATCAATA
* *
105065970 GTATAT-TGGGCCTAGCCCATATCAGTA
1 TTA-ATCTGGGCCTAGCCCATATCAATA
*
105065997 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
105066016 TATTTCAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
26 7 0.11
27 14 0.22
28 16 0.25
30 4 0.06
32 3 0.05
33 11 0.17
34 8 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:105067905 original size:38 final size:35
Alignment explanation
Indices: 105067844--105067961 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
105067834 TCAATCATGC
*
105067844 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
105067883 ACTGGGCCGAAGCATTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
105067914 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
105067945 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
105067962 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 13 0.17
39 11 0.14
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:105067958 original size:31 final size:31
Alignment explanation
Indices: 105067867--105067961 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
105067857 CCTTTTCATA
* *
105067867 TTTCATATTTCATAATACTGGGCCGAAGCAT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105067898 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105067929 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105067960 TT
1 TT
105067962 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:105068204 original size:24 final size:24
Alignment explanation
Indices: 105068153--105068319 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
105068143 GCTTTATCAT
* *
105068153 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
105068178 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
105068202 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
105068225 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105068249 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105068273 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105068297 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105068320 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:105068253 original size:71 final size:71
Alignment explanation
Indices: 105068152--105068319 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
105068142 TGCTTTATCA
*
105068152 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
105068216 AGCCCTTT
64 AGCCCTTT
* * **
105068224 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
105068289 CCCTTT
66 CCCTTT
105068295 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
105068320 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:105068395 original size:20 final size:20
Alignment explanation
Indices: 105068370--105068429 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
105068360 TATGATTACC
105068370 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
105068390 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
105068410 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
105068430 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105068504 original size:25 final size:25
Alignment explanation
Indices: 105068472--105068519 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105068462 ATACATAAAC
* * *
105068472 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105068497 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105068520 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105069739 original size:27 final size:27
Alignment explanation
Indices: 105069677--105069741 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
105069667 GGGCATATTC
105069677 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
105069704 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
105069731 GTCTTTTTACC
1 GTCATTTTACC
105069742 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:105069825 original size:27 final size:26
Alignment explanation
Indices: 105069795--105069850 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
105069785 GTAAATCAAC
*
105069795 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTT-T
*
105069822 AAACCAATGGTACTTCTATAATTTTT
1 AAACCAAAGGTACTTCTATAATTTTT
105069848 AAA
1 AAA
105069851 AAGTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAAGGTACTTCTATAATTTTT
Found at i:105069891 original size:27 final size:27
Alignment explanation
Indices: 105069803--105069943 Score: 99
Period size: 27 Copynumber: 5.1 Consensus size: 27
105069793 ACAAACCAAA
* * **
105069803 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCTGTAATTTTGTAAATCAGG
* * *
105069830 GGTACTTCTATAATTTT-TAAAAAGTCAAG
1 GGTATTTCTGTAATTTTGT--AAA-TCAGG
*
105069859 GGTATTTCTGTAACTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTGTAAATCAGG
** *
105069886 GGTATTT-TGGTAATTTTACAAAT-TGAG
1 GGTATTTCT-GTAATTTTGTAAATCAG-G
* *
105069913 GGTATTTCGGTAATTTTGTAAATCAAG
1 GGTATTTCTGTAATTTTGTAAATCAGG
105069940 GGTA
1 GGTA
105069944 AAACAGTAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
26 3 0.03
27 61 0.69
28 6 0.07
29 17 0.19
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTGTAAATCAGG
Found at i:105069952 original size:27 final size:27
Alignment explanation
Indices: 105069920--105070294 Score: 461
Period size: 27 Copynumber: 13.9 Consensus size: 27
105069910 GAGGGTATTT
* *
105069920 CGGTAATTTTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
105069947 CAGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
105069974 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
105070001 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
105070028 CGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* * *
105070055 CGGTAATTATGTAAATTGTGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
105070082 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* * *
105070109 TGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* *
105070136 CGGTAATTATGTAAAT-TAGAGGTAAAA
1 CGGTAATTCTGTAAATCGAG-GGTAAAA
*
105070163 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
**
105070190 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 CGGTAATTCTGTAAATC-GAGGGTAAAA
*
105070217 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* **
105070244 CGGTAATTTTACAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
105070271 CGGTAATTCTATAAATCGAGGGTA
1 CGGTAATTCTGTAAATCGAGGGTA
105070295 CTTTGGTAAT
Statistics
Matches: 304, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 297 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
CGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:105070305 original size:81 final size:81
Alignment explanation
Indices: 105069875--105070292 Score: 455
Period size: 81 Copynumber: 5.1 Consensus size: 81
105069865 TCTGTAACTT
**** * * * *** * *
105069875 TGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAATCAAG
1 TGTAAATCAGGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
*
105069940 GGTAAAACAGTAATTC
66 GGTAAAACGGTAATTC
* * *
105069956 TATAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGA
1 TGTAAATCAG-GGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* *
105070020 GGGTAAAACGATAATTA
65 GGGTAAAACGGTAATTC
* * * *
105070037 TGTAAATCAGGGGTAAAACGGTAATTATGTAAATTGTGGGTAAAACGGTAATTCTGTAAGTCGAG
1 TGTAAATCAGGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
* * *
105070102 GGTAAAATGATAATTA
66 GGTAAAACGGTAATTC
* * *
105070118 TGTAAATCAGGGGTAAAACGGTAATTATGTAAAT-TAGAGGTAAAACGGTAATTCTATAAATCGA
1 TGTAAATCAGGGGTAAAACGGTAATTATATAAATCGAG-GGTAAAACGGTAATTCTGTAAATCGA
**
105070182 GGGTAAAATAGTAATTC
65 GGGTAAAACGGTAATTC
* * * **
105070199 TGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
1 TGTAAATCAG-GGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
105070263 GGGTAAAACGGTAATTC
65 GGGTAAAACGGTAATTC
*
105070280 TATAAATCGAGGG
1 TGTAAATC-AGGG
105070293 TACTTTGGTA
Statistics
Matches: 290, Mismatches: 40, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
80 4 0.01
81 279 0.96
82 6 0.02
83 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
TGTAAATCAGGGGTAAAACGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAG
GGTAAAACGGTAATTC
Found at i:105070316 original size:27 final size:26
Alignment explanation
Indices: 105070218--105070432 Score: 137
Period size: 27 Copynumber: 8.0 Consensus size: 26
105070208 AGGGTAAAAC
* * ***
105070218 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGT-ATTT
***
105070245 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGT-ATTT
* *
105070272 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTA-TTT
*
105070299 GGTAATTTTACAAGTCGAGGGTATTT
1 GGTAATTTTACAAATCGAGGGTATTT
** **
105070325 CAATAATTTTACAGGTCGAGGGTATTT
1 -GGTAATTTTACAAATCGAGGGTATTT
* * *
105070352 CAGTAATTTCACAAAT-TAGGGGTATTTT
1 -GGTAATTTTACAAATCGA-GGGTA-TTT
*
105070380 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTA-TTT
* * *
105070407 GGTAATTTTATAAACCAAGGGTATTT
1 GGTAATTTTACAAATCGAGGGTATTT
105070433 TAAACATGGA
Statistics
Matches: 160, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.05
27 147 0.92
28 5 0.03
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (26 bp):
GGTAATTTTACAAATCGAGGGTATTT
Found at i:105072597 original size:15 final size:15
Alignment explanation
Indices: 105072560--105072588 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
105072550 TTTCCCTATC
105072560 TAATAATAATAATTA
1 TAATAATAATAATTA
105072575 TAATAATAATAATT
1 TAATAATAATAATT
105072589 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:105077554 original size:16 final size:17
Alignment explanation
Indices: 105077533--105077565 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105077523 CACATTGAAG
105077533 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
105077549 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
105077566 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:105078273 original size:16 final size:17
Alignment explanation
Indices: 105078252--105078284 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105078242 CACATTGAAG
105078252 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
105078268 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
105078285 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:105078787 original size:720 final size:719
Alignment explanation
Indices: 105077410--105078847 Score: 2563
Period size: 720 Copynumber: 2.0 Consensus size: 719
105077400 GATTATGGTT
*
105077410 GTGTTTGCTTTGTGATTGTTCGAGCCTACACTCGAAGTGATTCATGGGATTAAAATAGCAGAGAA
1 GTGTTTGCTTTGTGATTGTTCGAGCCCACACTCGAAGTGATTCATGGGATTAAAATAGCAGAGAA
*
105077475 TGTAACACCCTAAACCCGGCCTAGAAGTTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
66 TGTAACACCCTAAACCCGGCCTAGAAATTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
*
105077540 TGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACGTT
131 TGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACATT
*
105077605 AGTTTATTTTATAAAATGGTACATTGAAAAGTTGTTAATTCTATTCCCAAATTTCTTTTAAGTTG
196 AGTTTATTTTATAAAATGGTACATTGAAAAGTTGTTAATTCTATTCCCAAATTTATTTTAAGTTG
**
105077670 CGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAGCTAAGTTGCGACGCC
261 CGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAGCTAAGTTGCGAAACC
*
105077735 GTTCCGAGAATGTTGCAGAAACATAGTGTTATTTAAAATTAGTTATAAATCAAAGTAATTAAAAC
326 GTTCCGAGAATGTTGCAGAAACATAGTGTTATTTAAAATCAGTTATAAATCAAAGTAATTAAAAC
* *
105077800 CCATAGTTAAAATCCAGAAACTTTAAGAGGTCTTATTGCAAAAGTTGAAAACCCAAAACGGAATC
391 CCAAAGTTAAAATCCAGAAACTTTAAGAGGTCTTATTGCAAAAGTTGAAAACCCAAAACAGAATC
*
105077865 TAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTCTGAGTCCCTCGAAGCAGAAGCAA
456 TAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTCTAAGTCCCTCGAAGCAGAAGCAA
* * *
105077930 CATGCCATCTTGCCACTAAACCAGATGCTCTCTTTGTGTCACGTTTTATTCTTAATTATTTAAAA
521 CACGCCATCTTGCCACTAAACCACATGCTCTCTTTGTGTCACATTTTATTCTTAATTATTTAAAA
* * * *
105077995 GGCTCAGTTCCAAGTACCAAGGGTTTTATTCACTTAAATCAAAAATTTAGTTGAAGCCTAGGTTT
586 GGCTCACTTCCAAGTACCAAGGGTTTTATTCACTTAAATAAAAAATTTAGCTGAAGCCTAAGTTT
* *
105078060 GAACCCAGGACTTCTCCAACACTCCCAAATATGCCCAAATACTTAGCCACTTAAGCCAACATACA
651 GAACCCAGGACTTCTCCAACAATCCCAAATATGCCCAAATACTTAGCCACTAAAGCCAACATACA
105078125 ATTA
716 ATTA
* *
105078129 GTGTTTGCTTTGTGATTGTTCGAGCCCACACTCGAAGTGATTCATGGTATTAAAATAGTAGAGAA
1 GTGTTTGCTTTGTGATTGTTCGAGCCCACACTCGAAGTGATTCATGGGATTAAAATAGCAGAGAA
105078194 TGTAACACCCTAAACCCGGCCTAGAAATTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
66 TGTAACACCCTAAACCCGGCCTAGAAATTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
105078259 TGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACATT
131 TGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACATT
* *
105078324 AGTTTATTTTATAAAGTGGTATATTGAAAAGTTGTTAATTCTATTCCCAAAATTTATTTTAAGTT
196 AGTTTATTTTATAAAATGGTACATTGAAAAGTTGTTAATTCTATTCCC-AAATTTATTTTAAGTT
* *
105078389 GTGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAATGTGATGTTAAAAGCTAAGTTGCGAAAC
260 GCGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAGCTAAGTTGCGAAAC
* *
105078454 CGTTCCGAGAATGTTGCGGAAACATAGTGTTGTTT-AAATCCAGTTATAAATCAAAGTAATTAAA
325 CGTTCCGAGAATGTTGCAGAAACATAGTGTTATTTAAAAT-CAGTTATAAATCAAAGTAATTAAA
* * *
105078518 ACCCAAAGTTAAAATCTAGAAACTTTAAGAGGTCTTTTTGCAAAATTTGAAAACCCAAAACAGAA
389 ACCCAAAGTTAAAATCCAGAAACTTTAAGAGGTCTTATTGCAAAAGTTGAAAACCCAAAACAGAA
105078583 TCTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTCTAAGTCCCTCGAAGCAGAAGC
454 TCTAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTCTAAGTCCCTCGAAGCAGAAGC
*
105078648 GACACGCCATCTTGCCACTAAACCACATGCTCTCTTTGTGTCACATTTTATTCTTAATTATTTAA
519 AACACGCCATCTTGCCACTAAACCACATGCTCTCTTTGTGTCACATTTTATTCTTAATTATTTAA
105078713 AAGGCTCACTTCCAAGTACCAAGGGTTTTATTCACTTAAATAAAAAATTTAGCTGAAGCCTAAGT
584 AAGGCTCACTTCCAAGTACCAAGGGTTTTATTCACTTAAATAAAAAATTTAGCTGAAGCCTAAGT
*
105078778 TTGAACCCAGGACTTCTCCAACAATCCCAAATATGCCCAAATACTTAGCCACTAAAGCCAACATG
649 TTGAACCCAGGACTTCTCCAACAATCCCAAATATGCCCAAATACTTAGCCACTAAAGCCAACATA
105078843 CAATT
714 CAATT
105078848 TGTGATATTT
Statistics
Matches: 685, Mismatches: 32, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
719 240 0.35
720 445 0.65
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (719 bp):
GTGTTTGCTTTGTGATTGTTCGAGCCCACACTCGAAGTGATTCATGGGATTAAAATAGCAGAGAA
TGTAACACCCTAAACCCGGCCTAGAAATTAGGCCTGAATCTGACGTGTCACATTGAAGTGTTTTT
TGAAAACCATGTTTTCATTGAAAACCCTTCTTATTTGAAAACTTGAGTAAAATCCCAGTTACATT
AGTTTATTTTATAAAATGGTACATTGAAAAGTTGTTAATTCTATTCCCAAATTTATTTTAAGTTG
CGGAAGCTAATTTTAAAAGTAACTGATTTACGAAAACGTGATGTTAAAAGCTAAGTTGCGAAACC
GTTCCGAGAATGTTGCAGAAACATAGTGTTATTTAAAATCAGTTATAAATCAAAGTAATTAAAAC
CCAAAGTTAAAATCCAGAAACTTTAAGAGGTCTTATTGCAAAAGTTGAAAACCCAAAACAGAATC
TAAAACATAAATAAAGTCCAAAGGCAGTCGTGTGGCCATCTCTAAGTCCCTCGAAGCAGAAGCAA
CACGCCATCTTGCCACTAAACCACATGCTCTCTTTGTGTCACATTTTATTCTTAATTATTTAAAA
GGCTCACTTCCAAGTACCAAGGGTTTTATTCACTTAAATAAAAAATTTAGCTGAAGCCTAAGTTT
GAACCCAGGACTTCTCCAACAATCCCAAATATGCCCAAATACTTAGCCACTAAAGCCAACATACA
ATTA
Found at i:105086462 original size:21 final size:21
Alignment explanation
Indices: 105086435--105086671 Score: 183
Period size: 21 Copynumber: 11.4 Consensus size: 21
105086425 CGTGTTTTAC
* *
105086435 CTTCTGTTTAGCTCTTACGAG
1 CTTCTGTTCAGCTCTTATGAG
* * * *
105086456 CTGCTGTTTAACTTTTATGAG
1 CTTCTGTTCAGCTCTTATGAG
* *
105086477 TTTCTGTTTAGCTC-TATTGAG
1 CTTCTGTTCAGCTCTTA-TGAG
*
105086498 CTTCTGTTCAACTCTTATGAG
1 CTTCTGTTCAGCTCTTATGAG
* * *
105086519 TTTCTGTTCAGCTTTTAAGAG
1 CTTCTGTTCAGCTCTTATGAG
* * * * **
105086540 CTTCTATTTAACTCATACAAG
1 CTTCTGTTCAGCTCTTATGAG
* * **
105086561 TTTCTGTTTAGCTCTTACAAG
1 CTTCTGTTCAGCTCTTATGAG
*
105086582 CTTCTGTTCAACTCTTATGAG
1 CTTCTGTTCAGCTCTTATGAG
* *
105086603 TTTCTATTCAGCTCTTATGAG
1 CTTCTGTTCAGCTCTTATGAG
* *
105086624 CTTCTGTTCAACTCTTAAGAG
1 CTTCTGTTCAGCTCTTATGAG
* *
105086645 TTTCTGTTCAG--CTTACGAG
1 CTTCTGTTCAGCTCTTATGAG
105086664 CTTCTGTT
1 CTTCTGTT
105086672 AATGATGTAC
Statistics
Matches: 171, Mismatches: 43, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
19 14 0.08
20 2 0.01
21 153 0.89
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (21 bp):
CTTCTGTTCAGCTCTTATGAG
Found at i:105086485 original size:42 final size:42
Alignment explanation
Indices: 105086436--105086671 Score: 280
Period size: 42 Copynumber: 5.7 Consensus size: 42
105086426 GTGTTTTACC
* * * *
105086436 TTCTGTTTAGCTCTTACGAGCTGCTGTTTAACTTTTATGAGT
1 TTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
105086478 TTCTGTTTAGCTC-TATTGAGCTTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTA-CGAGCTTCTGTTCAACTCTTATGAGT
* * * * * **
105086520 TTCTGTTCAGCTTTTAAGAGCTTCTATTTAACTCATACAAGT
1 TTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
105086562 TTCTGTTTAGCTCTTACAAGCTTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
105086604 TTCTATTCAGCTCTTATGAGCTTCTGTTCAACTCTTAAGAGT
1 TTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
105086646 TTCTGTTCAG--CTTACGAGCTTCTGTT
1 TTCTGTTCAGCTCTTACGAGCTTCTGTT
105086672 AATGATGTAC
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 15 0.09
41 2 0.01
42 145 0.88
43 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
Found at i:105089383 original size:38 final size:38
Alignment explanation
Indices: 105089311--105089391 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 38
105089301 AAAATAATTT
105089311 CTATTATAGAATATTTTCCAGTTGAGGAAAATCCTCTTA
1 CTATTATAGAATATTTTCCAGTTGAGGAAAATCCTC-TA
* *
105089350 CTATTGTAGAATATTTTCTA-TTGAGGAAAATCCTCTA
1 CTATTATAGAATATTTTCCAGTTGAGGAAAATCCTCTA
105089387 CTATT
1 CTATT
105089392 TTTGGAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 7 0.17
38 15 0.38
39 18 0.45
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (38 bp):
CTATTATAGAATATTTTCCAGTTGAGGAAAATCCTCTA
Found at i:105097702 original size:94 final size:94
Alignment explanation
Indices: 105097540--105097809 Score: 276
Period size: 94 Copynumber: 2.9 Consensus size: 94
105097530 ATTTGTGCGT
* * *
105097540 CAGTGTAAGACATGTCTGGGATATGCTTCAGCCACATTAAGAGAGCCAGTGTAAGACCATGTCTG
1 CAGTGTAAGACATGTCTGGGACATGCGTCAGCCACAATAAGAGAGCCAGTGTAAGACCATGTCTG
105097605 GGACAGGGCATCGGCATTCA-A-ACGAGGGC
66 GGACAGGGCATCGGCA--CAGAGACGAGGGC
* * * *
105097634 TAGTGTAAGACATGTCTGGGACATGCGTCAGCCATAATATGATAGCCCA-TGTAAGACCATGTCT
1 CAGTGTAAGACATGTCTGGGACATGCGTCAGCCACAATAAGAGAG-CCAGTGTAAGACCATGTCT
* * **
105097698 GGGACATGGCATCGGCACAGAGATGAGTTC
65 GGGACAGGGCATCGGCACAGAGACGAGGGC
* * * * * * * * *
105097728 CAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGACAGAGATAGCCAATGTAAGACCATATCT
1 CAGTGTAAGACATGTCTGGGACATGCGTCAGCCACAATA-AGAGAGCCAGTGTAAGACCATGTCT
* **
105097793 AGGACATAGCATCGGCA
65 GGGACAGGGCATCGGCA
105097810 ATATATCCCA
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
92 2 0.01
93 1 0.01
94 108 0.73
95 37 0.25
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (94 bp):
CAGTGTAAGACATGTCTGGGACATGCGTCAGCCACAATAAGAGAGCCAGTGTAAGACCATGTCTG
GGACAGGGCATCGGCACAGAGACGAGGGC
Found at i:105097742 original size:47 final size:45
Alignment explanation
Indices: 105097540--105097759 Score: 146
Period size: 47 Copynumber: 4.7 Consensus size: 45
105097530 ATTTGTGCGT
* * * **
105097540 CAGTGTAAGA-CATGTCTGGGATATGCTTCAGCCACATTAA-GAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGCATC-GGCACA--AATGAGTCC
* * **
105097586 CAGTGTAAGACCATGTCTGGGACAGGGCATCGGCATTCAAACGAGGGC
1 CAGTGTAAGACCATGTCTGGGACA-TGCATCGGCA--CAAATGAGTCC
* * * *
105097634 TAGTGTAAGA-CATGTCTGGGACATGCGTCAGCCATAATATGA-TAGCC
1 CAGTGTAAGACCATGTCTGGGACATGCATC-GGCACAA-ATGAGT--CC
*
105097681 CA-TGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTTC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACA-A-ATGAGTCC
*
105097728 CAGTGTAAGA-CATGTCTAGGACATGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGC
105097760 CTCGACAGAG
Statistics
Matches: 140, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
45 2 0.01
46 32 0.23
47 69 0.49
48 34 0.24
49 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCACAAATGAGTCC
Found at i:105097799 original size:48 final size:46
Alignment explanation
Indices: 105097674--105097808 Score: 150
Period size: 47 Copynumber: 2.9 Consensus size: 46
105097664 GCCATAATAT
* * *
105097674 GATAGCCCATGTAAGACCATGTCTGGGACATGGCATCGG-CACAGA
1 GATAGCCAATGTAAGACCATGTCTAGGACATAGCATCGGCCACAGA
*
105097719 GATGAGTTCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGACAGA
1 GAT-AG--CCAATGTAAGACCATGTCTAGGACATAGCATCGG-C-C-ACAGA
*
105097769 GATAGCCAATGTAAGACCATATCTAGGACATAGCATCGGC
1 GATAGCCAATGTAAGACCATGTCTAGGACATAGCATCGGC
105097809 AATATATCCC
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
45 3 0.04
46 9 0.12
47 23 0.30
48 23 0.30
49 10 0.13
50 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (46 bp):
GATAGCCAATGTAAGACCATGTCTAGGACATAGCATCGGCCACAGA
Found at i:105106149 original size:30 final size:30
Alignment explanation
Indices: 105106110--105106172 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
105106100 ATCCATTTTC
* *
105106110 AAGTATAGGGGCAAAATGGTCGTTTTATCA
1 AAGTATAGGGGCAAAATGGTCATTTTACCA
*
105106140 AAGTCTAGGGGCAAAATGGTCATTTTACCA
1 AAGTATAGGGGCAAAATGGTCATTTTACCA
105106170 AAG
1 AAG
105106173 ATGTGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
AAGTATAGGGGCAAAATGGTCATTTTACCA
Found at i:105106584 original size:47 final size:46
Alignment explanation
Indices: 105106512--105106767 Score: 191
Period size: 47 Copynumber: 5.4 Consensus size: 46
105106502 TGATTTGTGC
* *
105106512 GCCAGTGTAAGACATGTATGGGACATGCTTCGGCCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
105106558 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTCA-AACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATAA-GA
* * * * * * * *
105106604 GGGCTAGTGTAAGACATGTCTGAGACATGCGTCAGCCATACTATGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
* * * *
105106652 GCGAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACA-GAGATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATAAGA
* * * *
105106698 GTTCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTGTATGAGA
1 G--CCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATAAGA
105106748 GCCAGTGTAAGACCATGTCT
1 GCCAGTGTAAGA-CATGTCT
105106768 AAGGCAAGGC
Statistics
Matches: 163, Mismatches: 28, Indels: 35
0.72 0.12 0.15
Matches are distributed among these distances:
45 6 0.04
46 40 0.25
47 56 0.34
48 47 0.29
49 10 0.06
50 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
Found at i:105106676 original size:94 final size:94
Alignment explanation
Indices: 105106512--105106767 Score: 302
Period size: 94 Copynumber: 2.7 Consensus size: 94
105106502 TGATTTGTGC
* * * *
105106512 GCCAGTGTAAGACATGTATGGGACATGCTTCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATAAGAGCCAGTGTAAGACCATGTC
105106577 TGGGACATGGCATCGGCATTCA-A-ACGAGG
66 TGGGACATGGCATCGGCA--CAGAGACGAGG
* * * * * * *
105106606 GCTAGTGTAAGACATGTCTGAGACATGCGTCAGCCATACTATGATAGCGAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATAAGAGCCAGTGTAAGACCATGTC
* *
105106671 TGGGACATGGCATCGGCACAGAGATGAGT
66 TGGGACATGGCATCGGCACAGAGACGAGG
* * *
105106700 TCCAGTGTAAGACATGTCTGGGACATGCATCAG-CACGCGTGTATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAC---TATAAGAGCCAGTGTAAGACCAT
105106764 GTCT
63 GTCT
105106768 AAGGCAAGGC
Statistics
Matches: 137, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
92 2 0.01
93 4 0.03
94 106 0.77
96 25 0.18
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATAAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACAGAGACGAGG
Found at i:105113561 original size:30 final size:30
Alignment explanation
Indices: 105113504--105113561 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
105113494 TTTTTGAGCA
* **
105113504 TAGGGGCAAAATGGTCGTTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
105113534 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
105113562 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:105113972 original size:47 final size:45
Alignment explanation
Indices: 105113901--105114259 Score: 287
Period size: 47 Copynumber: 7.7 Consensus size: 45
105113891 TGATTTGTGC
* *
105113901 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-GATGAGA
* * *
105113947 GCCAGTGTAAGACCATGTCTGGGACATGCATC-GGCATTCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCCA--CAGATGAGA
* * * * *
105113994 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-GATGAGA
** * *
105114040 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACAGATGAGA
105114088 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTCA-AGA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC--CACAGATGAG--A
* * * * * *
105114135 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATG-AGA
* * * * *
105114179 GCTAGAGTAAGACATGTCTAGGACATGCATCAGCACGCGTGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CAC-AG-ATGAGA
*
105114227 GCCAGTGTAAGACCATGTCTGGGGCATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
105114260 GGCAATATAT
Statistics
Matches: 248, Mismatches: 46, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
44 28 0.11
45 9 0.04
46 57 0.23
47 98 0.40
48 35 0.14
49 16 0.06
50 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:105114063 original size:93 final size:92
Alignment explanation
Indices: 105113904--105114263 Score: 385
Period size: 93 Copynumber: 3.9 Consensus size: 92
105113894 TTTGTGCGCC
* *
105113904 AGTGTAAGACATGTCTGGGACATGCTTCAGC-CACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCATA-TATGAGAGCCAGTGTAAGACCATGTCTG
* *
105113968 GGACAT-GCATCGGCATTCAGACGAGGGCT
65 GGACATGGCATCGGCA-TAAGA-GAGTGCT
* *
105113997 AGTGTAAGACATGTCTGGGACATGCGTCAGC-CATACTATGATAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCATA-TATGAGAGCCAGTGTAAGACCATGTCTG
* * *
105114061 GGACATGGCATTGGCACAGAGATGAGTGCC
65 GGACATGGCATCGGCATA-AGA-GAGTGCT
* *
105114091 AGTGTAAGACATGTCTGGGACATGCATCAGCTTCA-AGA-GAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-TCATATATGAG--AGCCAGTGTAAGACCATGTC
* *
105114153 TGGGACA-CGCATCGGC-TAAGAGTTGTGCT
63 TGGGACATGGCATCGGCATAAGAG-AGTGCT
* * * * *
105114182 AGAGTAAGACATGTCTAGGACATGCATCAGCACGCGTGTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--CTCATATATGAGAGCCAGTGTAAGACCATGTCT
*
105114247 GGGGCATGGCATCGGCA
64 GGGACATGGCATCGGCA
105114264 ATATATCCCA
Statistics
Matches: 225, Mismatches: 28, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
90 1 0.00
91 35 0.16
92 15 0.07
93 88 0.39
94 70 0.31
95 14 0.06
96 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCATATATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATAAGAGAGTGCT
Found at i:105114232 original size:187 final size:186
Alignment explanation
Indices: 105113901--105114263 Score: 466
Period size: 187 Copynumber: 1.9 Consensus size: 186
105113891 TGATTTGTGC
* **
105113901 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
* * * * *
105113966 TGGGACATGCATCGGCATTCAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCAT
66 TGGGACACGCATCGGCA-TAAGACGAGGGCTAGAGTAAGACATGTCTAGGACATGCATCAGCCAT
* *
105114031 ACTATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGT
130 ACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
** *
105114088 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTCAAGA-GAGATAGCCAGTGTAAGA-CGTG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAG--AGCCAGTGTAAGACCATG
* *
105114151 TCTGGGACACGCATCGGC-TAAGA-GTTGTGCTAGAGTAAGACATGTCTAGGACATGCATCAGCA
64 TCTGGGACACGCATCGGCATAAGACG-AGGGCTAGAGTAAGACATGTCTAGGACATGCATCAG--
* * *
105114214 CGCGT-GTATGAGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCGGCA
126 C-CATACTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
105114264 ATATATCCCA
Statistics
Matches: 152, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
184 1 0.01
185 35 0.23
186 3 0.02
187 98 0.64
188 15 0.10
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (186 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
TGGGACACGCATCGGCATAAGACGAGGGCTAGAGTAAGACATGTCTAGGACATGCATCAGCCATA
CTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
Found at i:105117069 original size:1 final size:1
Alignment explanation
Indices: 105117063--105117106 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
105117053 TTAGTACTTA
* * * *
105117063 TTTTTTTCTTCTTTTTTTTTTTTTTTTCTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
105117107 AAATTTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:105117088 original size:20 final size:20
Alignment explanation
Indices: 105117063--105117106 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
105117053 TTAGTACTTA
105117063 TTTTTTTCTTCTTTTTT-TTT
1 TTTTTTTCTT-TTTTTTATTT
105117083 TTTTTTTCTTTTTTTTATTT
1 TTTTTTTCTTTTTTTTATTT
105117103 TTTT
1 TTTT
105117107 AAATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.91
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTATTT
Found at i:105117105 original size:17 final size:17
Alignment explanation
Indices: 105117065--105117106 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
105117055 AGTACTTATT
*
105117065 TTTTTCTTCTTTTTTTTT
1 TTTTT-TTCTTTTTTTTA
105117083 TTTTTTTCTTTTTTTTA
1 TTTTTTTCTTTTTTTTA
105117100 TTTTTTT
1 TTTTTTT
105117107 AAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.90
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTTA
Found at i:105118290 original size:42 final size:42
Alignment explanation
Indices: 105118244--105118348 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
105118234 GGGATTCTAA
* * * *
105118244 GGCTGAAATAGGATTGTTTGGCTGCAGAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
* * *
105118286 GGCTGGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
105118328 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
105118349 TACCATGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.30
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
Found at i:105118465 original size:5 final size:5
Alignment explanation
Indices: 105118455--105118533 Score: 61
Period size: 5 Copynumber: 14.8 Consensus size: 5
105118445 AATATTTAAC
* * * *
105118455 TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA GAAAA TAAAG GAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
105118505 TAATAAA TAAAAA TAAAAA TAAAAA TAAA
1 T-A-AAA T-AAAA T-AAAA T-AAAA TAAA
105118534 GATTGGGTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.03
5 35 0.56
6 19 0.31
7 6 0.10
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:105118489 original size:30 final size:29
Alignment explanation
Indices: 105118469--105118533 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
105118459 ATAAAATAAA
*
105118469 ATAAAATAATAAATAATAAAAGAAAATAAA
1 ATAAAATAATAAAT-ATAAAATAAAATAAA
**
105118499 GGAAAATAATAAATA-AAAATAAAAATAAAA
1 ATAAAATAATAAATATAAAAT-AAAAT-AAA
105118529 ATAAA
1 ATAAA
105118534 GATTGGGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 4 0.14
29 6 0.21
30 18 0.64
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (29 bp):
ATAAAATAATAAATATAAAATAAAATAAA
Found at i:105118530 original size:35 final size:35
Alignment explanation
Indices: 105118456--105118534 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
105118446 ATATTTAACT
** *
105118456 AAAATAAAATAAAATAAAATAATAAATAATAAAAG
1 AAAATAAAGGAAAATAAAATAATAAATAATAAAAA
*
105118491 AAAATAAAGGAAAATAATAAATAA-AAATAA-AAATA
1 AAAATAAAGGAAAAT-A-AAATAATAAATAATAAAAA
105118526 AAAATAAAG
1 AAAATAAAG
105118535 ATTGGGTTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 25 0.66
36 7 0.18
37 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (35 bp):
AAAATAAAGGAAAATAAAATAATAAATAATAAAAA
Found at i:105123868 original size:21 final size:21
Alignment explanation
Indices: 105123825--105123879 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
105123815 GGTCAACATG
* **
105123825 CACGGGCGTGTGAAGTAGTCA
1 CACGAGCGTGTGAAGTAACCA
105123846 CACGAGCGTGTGAAGTAACCA
1 CACGAGCGTGTGAAGTAACCA
* *
105123867 CACAACCGTGTGA
1 CACGAGCGTGTGA
105123880 CCCTTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (21 bp):
CACGAGCGTGTGAAGTAACCA
Found at i:105126794 original size:14 final size:14
Alignment explanation
Indices: 105126775--105126802 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105126765 TTCTGTCACT
105126775 TTCATACTCATTTG
1 TTCATACTCATTTG
105126789 TTCATACTCATTTG
1 TTCATACTCATTTG
105126803 CCTCGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
TTCATACTCATTTG
Found at i:105133952 original size:11 final size:11
Alignment explanation
Indices: 105133936--105133966 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
105133926 CCGTATTAAT
105133936 TTTTTATATTA
1 TTTTTATATTA
105133947 TTTTTATATTA
1 TTTTTATATTA
*
105133958 TTTATATAT
1 TTTTTATAT
105133967 ATATAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:105134123 original size:32 final size:30
Alignment explanation
Indices: 105134085--105134149 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
105134075 ACTTAACAAG
105134085 CAAATG-CTTCTAAAATAATAATAAAAAATTAA
1 CAAATGCCTT-TAAAATAAT-A-AAAAAATTAA
*
105134117 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
105134147 CAA
1 CAA
105134150 TAAAAGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.39
31 1 0.03
32 15 0.48
33 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:105134156 original size:17 final size:17
Alignment explanation
Indices: 105134126--105134158 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
105134116 ACAAATGCCT
105134126 TTAAAATAATAAGAAAA
1 TTAAAATAATAAGAAAA
105134143 TTAACAATAA-AAGAAA
1 TTAA-AATAATAAGAAA
105134159 TTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (17 bp):
TTAAAATAATAAGAAAA
Found at i:105134193 original size:32 final size:32
Alignment explanation
Indices: 105134156--105134223 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
105134146 ACAATAAAAG
105134156 AAATTTTATACAATATTCAAACAATGACAACA
1 AAATTTTATACAATATTCAAACAATGACAACA
105134188 AAATTTTATACAATATTCAAACAATGACAACA
1 AAATTTTATACAATATTCAAACAATGACAACA
105134220 AAAT
1 AAAT
105134224 AGTAGCTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (32 bp):
AAATTTTATACAATATTCAAACAATGACAACA
Found at i:105141728 original size:21 final size:21
Alignment explanation
Indices: 105141704--105141814 Score: 64
Period size: 21 Copynumber: 5.1 Consensus size: 21
105141694 ATTATTATTA
*
105141704 AATATAATTTAATAAAATAAT
1 AATATAATTTAATAAAATAGT
* * **
105141725 AATAATTAATTTAATCATATTTT
1 AAT-A-TAATTTAATAAAATAGT
* *
105141748 TATATAA-TTAATATAAATATT
1 AATATAATTTAATA-AAATAGT
* * *
105141769 CATATTACTTGAATAAAATAGT
1 AATA-TAATTTAATAAAATAGT
*
105141791 AAAAT-ATTTAATAAATATAGT
1 AATATAATTTAATAAA-ATAGT
105141812 AAT
1 AAT
105141815 TTTTAATTAA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
20 13 0.19
21 22 0.33
22 12 0.18
23 20 0.30
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AATATAATTTAATAAAATAGT
Found at i:105156793 original size:24 final size:24
Alignment explanation
Indices: 105156742--105156859 Score: 152
Period size: 24 Copynumber: 4.9 Consensus size: 24
105156732 GCTTTATCAT
* *
105156742 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTGA
*
105156767 ATAACTGGGGCAAAAGCCCTTTGA
1 ATAACTGGGGCATAAGCCCTTTGA
105156791 ATAACTGGGGCATAAGCCCTTTTG-
1 ATAACTGGGGCATAAGCCC-TTTGA
*
105156815 ATAACTAGGGCATAAGCCCTTT-A
1 ATAACTGGGGCATAAGCCCTTTGA
105156838 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
105156860 TTGCACTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
23 24 0.29
24 44 0.52
25 16 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTGA
Found at i:105156859 original size:47 final size:48
Alignment explanation
Indices: 105156742--105156860 Score: 170
Period size: 48 Copynumber: 2.5 Consensus size: 48
105156732 GCTTTATCAT
* *
105156742 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTAGGGCAAAAGCCCTTTGA
* *
105156791 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTT-A
1 ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCCTTTGA
105156838 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105156861 TGCACTTCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 24 0.37
48 29 0.45
49 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCCTTTGA
Found at i:105156935 original size:20 final size:20
Alignment explanation
Indices: 105156907--105156977 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
105156897 GCATTTATGA
*
105156907 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
105156927 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
105156947 ACATGTCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
105156967 ACATATCATGT
1 ACATATCATGT
105156978 TTATTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:105159333 original size:21 final size:20
Alignment explanation
Indices: 105159309--105159349 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
105159299 ACTTGTATCA
105159309 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACA-TCAAAAT
*
105159330 CTATCATTAAACATCAAAAT
1 CTATCATCAAACATCAAAAT
105159350 ACTCATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAT
Found at i:105161136 original size:20 final size:19
Alignment explanation
Indices: 105161113--105161163 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
105161103 TTTAATCATA
105161113 TTAAAATGGTTTCAATCAAG
1 TTAAAAT-GTTTCAATCAAG
*
105161133 TTAAACAT-TTTCAGTCAAG
1 TTAAA-ATGTTTCAATCAAG
105161152 TTAAAATTGTTT
1 TTAAAA-TGTTT
105161164 TAAAACAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 8 0.30
21 2 0.07
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (19 bp):
TTAAAATGTTTCAATCAAG
Found at i:105161335 original size:20 final size:21
Alignment explanation
Indices: 105161310--105161357 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
105161300 GTCAATCCAA
*
105161310 TATCGATACCTT-TTATTTGG
1 TATCGATACATTCTTATTTGG
105161330 TATCGAT-CATTCTTATTTGG
1 TATCGATACATTCTTATTTGG
105161350 TATCGATA
1 TATCGATA
105161358 TCTCTGGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (21 bp):
TATCGATACATTCTTATTTGG
Found at i:105167902 original size:25 final size:23
Alignment explanation
Indices: 105167860--105167905 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
105167850 CTTATTTTAA
*
105167860 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
105167883 TATTTAATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
105167906 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:105168708 original size:13 final size:13
Alignment explanation
Indices: 105168690--105168717 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105168680 ATCCAAGGAA
105168690 TATATATATATAT
1 TATATATATATAT
105168703 TATATATATATAT
1 TATATATATATAT
105168716 TA
1 TA
105168718 AAAAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:105169149 original size:12 final size:12
Alignment explanation
Indices: 105169132--105169156 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105169122 AACTTTTAAA
105169132 AAATAATAATAC
1 AAATAATAATAC
105169144 AAATAATAATAC
1 AAATAATAATAC
105169156 A
1 A
105169157 CTTCTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAATAC
Found at i:105169535 original size:3 final size:3
Alignment explanation
Indices: 105169527--105169599 Score: 101
Period size: 3 Copynumber: 24.3 Consensus size: 3
105169517 TAAAAAGAGC
* *
105169527 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCA TCA TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
105169575 TTT TGT ACT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
105169600 TTACTGCCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.04, C:0.30, G:0.01, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:105171427 original size:26 final size:26
Alignment explanation
Indices: 105171390--105171473 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105171380 TGATACAAAT
* *
105171390 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105171416 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105171442 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105171468 TGATAA
1 TGATAA
105171474 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105172666 original size:8 final size:8
Alignment explanation
Indices: 105172653--105172679 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
105172643 CTAGATCGGC
105172653 AAAAGCCG
1 AAAAGCCG
105172661 AAAAGCCG
1 AAAAGCCG
105172669 AAAAGCCG
1 AAAAGCCG
105172677 AAA
1 AAA
105172680 TGTCAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:105175214 original size:103 final size:103
Alignment explanation
Indices: 105175107--105175308 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 103
105175097 ATGGGTATAC
* * *
105175107 AATAATACTTTGTTATCTTTAAAATTTAATTACGTGACTCTATTTTATTAGTGTCTAAAAA-AAT
1 AATAATACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAAACAAT
*
105175171 GTTTTTTTAAGATAATCCTAATATAAGTTATTCTCGTAT
66 -ATTTTTTAAGATAATCCTAATATAAGTTATTCTCGTAT
* * * *
105175210 AATAATACTTTGTTATCTTTAAAATTTAATGATGTGGCACTATTTTATTGGTGCCTAAAAACTAT
1 AATAATACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAAACAAT
* *
105175275 ATTTTTTAGGATGATCCTAATATAAGTTATTCTC
66 ATTTTTTAAGATAATCCTAATATAAGTTATTCTC
105175309 ATTTTTTAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 86 0.98
104 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (103 bp):
AATAATACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAGTGCCTAAAAACAAT
ATTTTTTAAGATAATCCTAATATAAGTTATTCTCGTAT
Found at i:105175364 original size:10 final size:11
Alignment explanation
Indices: 105175334--105175381 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
105175324 TAAAACTTTC
*
105175334 TAATATTTTGA
1 TAATATTTTTA
*
105175345 CTAATTTTTTTA
1 -TAATATTTTTA
105175357 T-ATATTTTTA
1 TAATATTTTTA
105175367 TAATA-TTTTA
1 TAATATTTTTA
105175377 TAATA
1 TAATA
105175382 AATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 19 0.59
11 4 0.12
12 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TAATATTTTTA
Found at i:105181756 original size:12 final size:12
Alignment explanation
Indices: 105181739--105181778 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
105181729 CTTCGCTTCT
*
105181739 ATGCTGACGTCG
1 ATGCTGACGTCA
*
105181751 ATGCTGACATCA
1 ATGCTGACGTCA
*
105181763 ATGCCGACGTCA
1 ATGCTGACGTCA
105181775 ATGC
1 ATGC
105181779 CAATACAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (12 bp):
ATGCTGACGTCA
Found at i:105189958 original size:30 final size:30
Alignment explanation
Indices: 105189898--105189958 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
105189888 GAGTTTTCAA
* *
105189898 GATCCACACGGGCAGACCACACGCCTATGT
1 GATCCACACGGGCAGACCACACACCCATGT
* *
105189928 GATCCACACGGGCAGGCCACGCACCCATGT
1 GATCCACACGGGCAGACCACACACCCATGT
105189958 G
1 G
105189959 CCAGTCCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.38, G:0.26, T:0.11
Consensus pattern (30 bp):
GATCCACACGGGCAGACCACACACCCATGT
Found at i:105191070 original size:23 final size:23
Alignment explanation
Indices: 105191043--105191087 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
105191033 TACTTTAGCA
* *
105191043 ATTTTTT-ATTTA-TTTTATTTT
1 ATTTTTTGTTTTACTTTTAATTT
105191064 ATTTTTTGTTTTACTTTTAATTT
1 ATTTTTTGTTTTACTTTTAATTT
105191087 A
1 A
105191088 CTAACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTTTGTTTTACTTTTAATTT
Found at i:105194207 original size:30 final size:30
Alignment explanation
Indices: 105194171--105194227 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
105194161 TCAGAGAGTT
*
105194171 ACACGGCCT-GACCACACGGGTGTGTGGAGC
1 ACACGGCCTAG-CCACACGGGCGTGTGGAGC
105194201 ACACGGCCTAGCCACACGGGCGTGTGG
1 ACACGGCCTAGCCACACGGGCGTGTGG
105194228 GATCTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.32, G:0.37, T:0.12
Consensus pattern (30 bp):
ACACGGCCTAGCCACACGGGCGTGTGGAGC
Found at i:105194335 original size:198 final size:198
Alignment explanation
Indices: 105193984--105194340 Score: 500
Period size: 198 Copynumber: 1.8 Consensus size: 198
105193974 CATGGTCTGG
* * *
105193984 CCACACGGGTGTATGGAGTACACGGCCTGGCCACACAGGCGTGTGGGATCTCACATGAACGTGGG
1 CCACACGGGTGTATGGAGCACACGGCCTAGCCACACAGGCGTGTGGGATCTCACATGAACGTAGG
* * *
105194049 AGAAACAAAGGAAAACACACATGGCCCGACGACATGGCCATGTGACCCATACGACCTGGACACAC
66 AGAAACAAAGGAAAACACACACGGCCCGACGACATAGCCATGTGACCCACACGACCTGGACACAC
*** * *
105194114 GGGTTTGTCCTAGGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACGGCC
131 GGACATGTCCTAGGCCATGTGAAAACTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACGGCC
105194179 TGA
196 TGA
* * **
105194182 CCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTGGGATCTCACATGGGCGTAGG
1 CCACACGGGTGTATGGAGCACACGGCCTAGCCACACAGGCGTGTGGGATCTCACATGAACGTAGG
* * ** * * *
105194247 AGAAGCAAATGAAAACACACACGGCTTGGCGACATAGCCATGTGACCCACACGGCCTGGACATAC
66 AGAAACAAAGGAAAACACACACGGCCCGACGACATAGCCATGTGACCCACACGACCTGGACACAC
105194312 GGACATGTCC-ATGGCCATGTGAAAACTGG
131 GGACATGTCCTA-GGCCATGTGAAAACTGG
105194341 GTTAACCACC
Statistics
Matches: 136, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
197 1 0.01
198 135 0.99
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.17
Consensus pattern (198 bp):
CCACACGGGTGTATGGAGCACACGGCCTAGCCACACAGGCGTGTGGGATCTCACATGAACGTAGG
AGAAACAAAGGAAAACACACACGGCCCGACGACATAGCCATGTGACCCACACGACCTGGACACAC
GGACATGTCCTAGGCCATGTGAAAACTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACGGCC
TGA
Found at i:105194449 original size:7 final size:7
Alignment explanation
Indices: 105194437--105194505 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
105194427 TTATACTTAT
105194437 ATTTTTA
1 ATTTTTA
105194444 ATTTTTTTA
1 A--TTTTTA
*
105194453 TATTTTAA
1 -ATTTTTA
*
105194461 ATTTTAA
1 ATTTTTA
*
105194468 ATTTTTT
1 ATTTTTA
*
105194475 ATTTTTT
1 ATTTTTA
105194482 A-TTTTA
1 ATTTTTA
105194488 A-TTTTA
1 ATTTTTA
105194494 A-TTTTA
1 ATTTTTA
105194500 ATTTTT
1 ATTTTT
105194506 TGCTATTTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
6 17 0.31
7 25 0.46
8 5 0.09
9 6 0.11
10 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:105194455 original size:17 final size:17
Alignment explanation
Indices: 105194433--105194465 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105194423 ATTCTTATAC
*
105194433 TTATATTTTTAATTTTT
1 TTATATTTTAAATTTTT
105194450 TTATATTTTAAATTTT
1 TTATATTTTAAATTTT
105194466 AAATTTTTTA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTTAAATTTTT
Found at i:105194465 original size:23 final size:21
Alignment explanation
Indices: 105194439--105194492 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
105194429 ATACTTATAT
105194439 TTTTAATTTTTTTATATTTTAAA
1 TTTTAATTTTTTTAT-TTTT-AA
* *
105194462 TTTTAAATTTTTTATTTTTTA
1 TTTTAATTTTTTTATTTTTAA
105194483 TTTTAATTTT
1 TTTTAATTTT
105194493 AATTTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 14 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTAATTTTTTTATTTTTAA
Found at i:105194486 original size:5 final size:6
Alignment explanation
Indices: 105194448--105194504 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
105194438 TTTTTAATTT
* *
105194448 TTTTATA TTTTAAA TTTTAAA TTTTTTAT TTTTTA TTTTAA TTTTAA TTTTAA
1 TTTTA-A TTTT-AA TTTT-AA --TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
105194501 TTTT
1 TTTT
105194505 TTGCTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
6 25 0.58
7 12 0.28
8 2 0.05
9 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:105194601 original size:3 final size:3
Alignment explanation
Indices: 105194593--105194656 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
105194583 ATCATTGAGT
105194593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105194641 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
105194657 CTTTCTTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105195659 original size:10 final size:10
Alignment explanation
Indices: 105195644--105195683 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
105195634 CTATTGTTCT
105195644 AAAAAAAATG
1 AAAAAAAATG
105195654 AAAAAAAATG
1 AAAAAAAATG
105195664 AAAAAAAAGTG
1 AAAAAAAA-TG
105195675 AAAAAAAAT
1 AAAAAAAAT
105195684 TACATTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:105195660 original size:11 final size:11
Alignment explanation
Indices: 105195644--105195682 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
105195634 CTATTGTTCT
105195644 AAAAAAAATG-
1 AAAAAAAATGA
105195654 AAAAAAAATGA
1 AAAAAAAATGA
*
105195665 AAAAAAAGTGA
1 AAAAAAAATGA
105195676 AAAAAAA
1 AAAAAAA
105195683 TTACATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:105195670 original size:21 final size:21
Alignment explanation
Indices: 105195644--105195683 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105195634 CTATTGTTCT
105195644 AAAAAAAATGAAAAAAAATGA
1 AAAAAAAATGAAAAAAAATGA
*
105195665 AAAAAAAGTGAAAAAAAAT
1 AAAAAAAATGAAAAAAAAT
105195684 TACATTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAAAAATGAAAAAAAATGA
Found at i:105197628 original size:23 final size:23
Alignment explanation
Indices: 105197601--105197645 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
105197591 TACTTTAGCA
* *
105197601 ATTTTTT-ATTTA-TTTTATTTT
1 ATTTTTTGTTTTACTTTTAATTT
105197622 ATTTTTTGTTTTACTTTTAATTT
1 ATTTTTTGTTTTACTTTTAATTT
105197645 A
1 A
105197646 CTAACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTTTGTTTTACTTTTAATTT
Found at i:105208901 original size:41 final size:41
Alignment explanation
Indices: 105208801--105208882 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
105208791 AGAATAATTT
105208801 TTAACAAAAAAGTATAGAAAATGATAAATAGAGGGGACTTA
1 TTAACAAAAAAGTATAGAAAATGATAAATAGAGGGGACTTA
105208842 TTAACAAAAAAGTATAGAAAATGATAAATAGAGGGGACTTA
1 TTAACAAAAAAGTATAGAAAATGATAAATAGAGGGGACTTA
105208883 CTTATCACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.22
Consensus pattern (41 bp):
TTAACAAAAAAGTATAGAAAATGATAAATAGAGGGGACTTA
Found at i:105210519 original size:21 final size:21
Alignment explanation
Indices: 105210475--105210536 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
105210465 TTAAAATAAA
*
105210475 ATTAAAATATTAAA-TAGT-TT
1 ATTAAAATAATAAATTA-TATT
105210495 ATTAAAATAATAAATTATATT
1 ATTAAAATAATAAATTATATT
* *
105210516 ATTATATTAAT-AATT-TATT
1 ATTAAAATAATAAATTATATT
105210535 AT
1 AT
105210537 ATGACTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.16
20 18 0.49
21 13 0.35
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAAAATAATAAATTATATT
Found at i:105216341 original size:26 final size:26
Alignment explanation
Indices: 105216312--105216363 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
105216302 GAACTGCAGA
105216312 ATTGATCCTAACTTGATTTTTTTTTT
1 ATTGATCCTAACTTGATTTTTTTTTT
105216338 ATTGATCCTAACTTGATTTTTTTTTT
1 ATTGATCCTAACTTGATTTTTTTTTT
105216364 TTACAGGAGA
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:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (26 bp):
ATTGATCCTAACTTGATTTTTTTTTT
Found at i:105220894 original size:19 final size:20
Alignment explanation
Indices: 105220862--105220899 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
105220852 TTGAAGGTAT
105220862 TTTTAATTATTTAT-TAAAA
1 TTTTAATTATTTATATAAAA
105220881 TTTT-ATTATCTTATATAAA
1 TTTTAATTAT-TTATATAAA
105220900 TATAATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATTATTTATATAAAA
Found at i:105221315 original size:32 final size:32
Alignment explanation
Indices: 105221274--105221340 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
105221264 AAAAATGGAA
105221274 TTTATTTTTAAAAAACATTTTAATATTATATT
1 TTTATTTTTAAAAAACATTTTAATATTATATT
105221306 TTTATTTTTAAAAAACATTTTAATATTATATT
1 TTTATTTTTAAAAAACATTTTAATATTATATT
105221338 TTT
1 TTT
105221341 TCTTTGGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTATTTTTAAAAAACATTTTAATATTATATT
Found at i:105231125 original size:43 final size:43
Alignment explanation
Indices: 105231078--105231349 Score: 314
Period size: 43 Copynumber: 6.3 Consensus size: 43
105231068 TTTATTTAAA
* **
105231078 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCGT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
105231121 AAACGCAGCTAAAGACCATGACCTTTAGCGGCACTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
105231164 AAACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
105231207 AAATGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * ***
105231250 AAACGCCGCTAAAAACTATGACCTTTAGCGACGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
105231293 AAACGCCGCTATAGA--ATAAACCTTTAACGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
105231335 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
105231350 ATATAACCTT
Statistics
Matches: 195, Mismatches: 33, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
41 2 0.01
42 33 0.17
43 160 0.82
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:105231415 original size:20 final size:20
Alignment explanation
Indices: 105231359--105231396 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105231349 AATATAACCT
*
105231359 TTAAA-AATATATATTTTTA
1 TTAAATAATATTTATTTTTA
105231378 TTAAATAATATTTATTTTT
1 TTAAATAATATTTATTTTT
105231397 TATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATAATATTTATTTTTA
Found at i:105233379 original size:18 final size:18
Alignment explanation
Indices: 105233356--105233391 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105233346 ACCTAAGAAA
105233356 AATAGCAAATAATTTATT
1 AATAGCAAATAATTTATT
*
105233374 AATAGCAAATCATTTATT
1 AATAGCAAATAATTTATT
105233392 TACTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (18 bp):
AATAGCAAATAATTTATT
Found at i:105234068 original size:38 final size:38
Alignment explanation
Indices: 105234017--105234093 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
105234007 AAAAGAGCAG
* *
105234017 CCTATCAAGCTCACTCGACGATTCCATGGCTGCTCGTT
1 CCTATCAAGCTCACTCAACGATTCCATGGCTACTCGTT
105234055 CCTATCAAGCTCACTCAACGATTCCATGGCTACTCGTT
1 CCTATCAAGCTCACTCAACGATTCCATGGCTACTCGTT
105234093 C
1 C
105234094 TAACTTCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.16, T:0.29
Consensus pattern (38 bp):
CCTATCAAGCTCACTCAACGATTCCATGGCTACTCGTT
Found at i:105234529 original size:6 final size:6
Alignment explanation
Indices: 105234511--105234569 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
105234501 TTAATCTCTA
* * * *
105234511 TTTTAT ATTTTAT TTTTAT TTTTGT ATTTTAT TTTTTT TTGTTAT CTATAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TT-TTAT TTTTAT
105234562 TTTTAT TT
1 TTTTAT TT
105234570 ATTTATCAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
6 27 0.64
7 15 0.36
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:105234529 original size:13 final size:13
Alignment explanation
Indices: 105234509--105234546 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
105234499 CATTAATCTC
105234509 TATTTTATATTTTA
1 TATTTTAT-TTTTA
*
105234523 T-TTTTATTTTTG
1 TATTTTATTTTTA
105234535 TATTTTATTTTT
1 TATTTTATTTTT
105234547 TTTTGTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:105234538 original size:19 final size:19
Alignment explanation
Indices: 105234511--105234569 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
105234501 TTAATCTCTA
*
105234511 TTTTATATTTTATTTTTAT
1 TTTTGTATTTTATTTTTAT
105234530 TTTTGTATTTTA-TTTT-T
1 TTTTGTATTTTATTTTTAT
*
105234547 TTTTGTTATCTATATTTTTAT
1 TTTTG-TAT-TTTATTTTTAT
105234568 TT
1 TT
105234570 ATTTATCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 14 0.41
20 4 0.12
21 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTGTATTTTATTTTTAT
Found at i:105234861 original size:13 final size:13
Alignment explanation
Indices: 105234843--105234893 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
105234833 TTTCCAACAG
105234843 TAAACCCTAAACT
1 TAAACCCTAAACT
*
105234856 TAAACCCCAAACT
1 TAAACCCTAAACT
* *
105234869 ATAAA-CCTATATCC
1 -TAAACCCTA-AACT
105234883 TAAACCCTAAA
1 TAAACCCTAAA
105234894 TATATATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACCCTAAACT
Found at i:105235714 original size:41 final size:41
Alignment explanation
Indices: 105235656--105235788 Score: 160
Period size: 41 Copynumber: 3.3 Consensus size: 41
105235646 CTTCGACCTA
** *
105235656 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* * *
105235696 TAGCGGCGTTTGGGCCAAAAATGCTGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* ** *
105235737 TAGTGGCGTTTGGATAAAAAACGCCGCTATTGCTCGGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
105235778 TTGCGGCGTTT
1 TAGCGGCGTTT
105235789 TATTGCAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 11 0.14
41 67 0.86
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:105237665 original size:68 final size:68
Alignment explanation
Indices: 105237578--105237729 Score: 198
Period size: 68 Copynumber: 2.2 Consensus size: 68
105237568 ATAGTCGAGT
* * * **
105237578 TGGTCTTACACCTTGTAACCCCATGTTTAACGTCTTGGCGAACTTTATTGGTTGTCATAGCC-GA
1 TGGTCTTACACATTATAACCCCATGTTTAACGTCTTGACGAACTTTATTGGTTACCATA-CCTGA
*
105237642 GCTG
65 GCTA
* * *
105237646 TGGTCTTACACATTATAACCCCATGTTTAACGTCTTGATGGACTTTATTTGTTACCATACCTGAG
1 TGGTCTTACACATTATAACCCCATGTTTAACGTCTTGACGAACTTTATTGGTTACCATACCTGAG
105237711 CTA
66 CTA
*
105237714 TGGTCTTACACTTTAT
1 TGGTCTTACACATTAT
105237730 GTAATATCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
67 2 0.03
68 71 0.97
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (68 bp):
TGGTCTTACACATTATAACCCCATGTTTAACGTCTTGACGAACTTTATTGGTTACCATACCTGAG
CTA
Found at i:105241718 original size:45 final size:45
Alignment explanation
Indices: 105241642--105241776 Score: 261
Period size: 45 Copynumber: 3.0 Consensus size: 45
105241632 TGGGCATGAT
105241642 AAAGTTCAAAAACAAAAAAGTGTTTATAAAACACATTAGAACTAAC
1 AAAGTTCAAAAAC-AAAAAGTGTTTATAAAACACATTAGAACTAAC
105241688 AAAGTTCAAAAACAAAAAGTGTTTATAAAACACATTAGAACTAAC
1 AAAGTTCAAAAACAAAAAGTGTTTATAAAACACATTAGAACTAAC
105241733 AAAGTTCAAAAACAAAAAGTGTTTATAAAACACATTAGAACTAA
1 AAAGTTCAAAAACAAAAAGTGTTTATAAAACACATTAGAACTAA
105241777 TCTCATAATT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
45 76 0.85
46 13 0.15
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (45 bp):
AAAGTTCAAAAACAAAAAGTGTTTATAAAACACATTAGAACTAAC
Found at i:105249129 original size:20 final size:20
Alignment explanation
Indices: 105249104--105249143 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
105249094 CTAAGTCATA
105249104 TTCGAAAACTCCATTTTCTT
1 TTCGAAAACTCCATTTTCTT
105249124 TTCGAAAACTCCATTTTCTT
1 TTCGAAAACTCCATTTTCTT
105249144 CTATCTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (20 bp):
TTCGAAAACTCCATTTTCTT
Found at i:105249609 original size:29 final size:29
Alignment explanation
Indices: 105249575--105249676 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
105249565 TTAGAGATAA
105249575 CCACAAAGGC-TTCCATGTCCAGAGATTTG
1 CCACAAAGGCATTCCAT-TCCAGAGATTTG
* *
105249604 CCACAAAGGCATTTCC-TTGCAGAGATTCG
1 CCACAAAGGCA-TTCCATTCCAGAGATTTG
* * * *
105249633 CCACATATGC-TTACATTTCCTA-AGTTTTG
1 CCACAAAGGCATTCCA-TTCC-AGAGATTTG
*
105249662 CCACAAAGGCGTTCC
1 CCACAAAGGCATTCC
105249677 TTAACATTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.05
29 44 0.79
30 5 0.09
31 4 0.07
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (29 bp):
CCACAAAGGCATTCCATTCCAGAGATTTG
Found at i:105249778 original size:60 final size:60
Alignment explanation
Indices: 105249655--105249788 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 60
105249645 ACATTTCCTA
* * * * *
105249655 AGTTTTGCCACAAAGGCGTTCCTTAACATTCAGTACTCACTATAAAGGCTTTCCTGTCTAG
1 AGTTTTGCCAC-AAGGCGTTCCTTAACATTCAGTACTCACTACAAAGACTCTCCTATCCAG
* * * *
105249716 AGTTTTACCACAAGGCGTTCTTTAACATTCAGTACTCACTACGAAGACTCTCTTATCCAG
1 AGTTTTGCCACAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGACTCTCCTATCCAG
105249776 AGTTTTGCCACAA
1 AGTTTTGCCACAA
105249789 AGACTGTCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 53 0.84
61 10 0.16
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (60 bp):
AGTTTTGCCACAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGACTCTCCTATCCAG
Found at i:105251060 original size:2 final size:2
Alignment explanation
Indices: 105251049--105251090 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
105251039 TGAATTGAAT
105251049 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105251090 T
1 T
105251091 GTTGCCGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.