Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 44 of 320
Found at i:12585055 original size:12 final size:12
Alignment explanation
Indices: 12585040--12585064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12585030 ATGTCAAAAC
12585040 TTTTATCAATAA
1 TTTTATCAATAA
12585052 TTTTATCAATAA
1 TTTTATCAATAA
12585064 T
1 T
12585065 CGGATTCTCG
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATCAATAA
Found at i:12586674 original size:19 final size:18
Alignment explanation
Indices: 12586641--12586682 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12586631 ATATATAATT
*
12586641 TAAAATAACATTAAAATG
1 TAAAATAAAATTAAAATG
*
12586659 TAAAACTAAAATTAAAATT
1 TAAAA-TAAAATTAAAATG
12586678 TAAAA
1 TAAAA
12586683 ACAAACCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAATAAAATTAAAATG
Found at i:12588041 original size:19 final size:19
Alignment explanation
Indices: 12588019--12588056 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12588009 GTTTTTATGA
* *
12588019 AAATTATTTATTTTTCTGG
1 AAATAATTTACTTTTCTGG
12588038 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
12588057 TGTTTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:12588158 original size:18 final size:18
Alignment explanation
Indices: 12588132--12588174 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
12588122 AAAAGCTGTT
*
12588132 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
12588150 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
12588168 TTTATAT
1 TTTATAT
12588175 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:12588635 original size:9 final size:9
Alignment explanation
Indices: 12588623--12588665 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
12588613 TAAAATTAAT
12588623 CGAATTACC
1 CGAATTACC
12588632 CGAATTACC
1 CGAATTACC
*
12588641 CGAATTGCC
1 CGAATTACC
*
12588650 CGAATTAAC
1 CGAATTACC
12588659 CGAATTA
1 CGAATTA
12588666 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (9 bp):
CGAATTACC
Found at i:12588644 original size:18 final size:18
Alignment explanation
Indices: 12588616--12588665 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
12588606 ATAAGTATAA
*
12588616 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
12588634 AATTACCCGAATTGCCCG
1 AATTAACCGAATTACCCG
12588652 AATTAACCGAATTA
1 AATTAACCGAATTA
12588666 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:12588699 original size:5 final size:6
Alignment explanation
Indices: 12588684--12588724 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
12588674 AAATTATATT
*
12588684 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
12588725 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:12593002 original size:9 final size:9
Alignment explanation
Indices: 12592961--12593112 Score: 69
Period size: 10 Copynumber: 16.0 Consensus size: 9
12592951 CTAAATATAT
12592961 ATTATAAAA
1 ATTATAAAA
* *
12592970 ATTATGAAT
1 ATTATAAAA
*
12592979 GTTATAAATA
1 ATTATAAA-A
12592989 TATTATAAAA
1 -ATTATAAAA
12592999 ATTATAAAAA
1 ATTAT-AAAA
12593009 GATTATAGAAA
1 -ATTATA-AAA
* * *
12593020 GTTTTAAAT
1 ATTATAAAA
*
12593029 ATAATTAAAA
1 ATTA-TAAAA
12593039 AGTTATTAAAA
1 A-TTA-TAAAA
*
12593050 ATAATTAAAA
1 ATTA-TAAAA
12593060 ATTA-AAAA
1 ATTATAAAA
*
12593068 A-T-T-GAA
1 ATTATAAAA
12593074 ATTATAAAAA
1 ATTAT-AAAA
12593084 ATTATTAAAA
1 ATTA-TAAAA
*
12593094 TATTGTAAAA
1 -ATTATAAAA
*
12593104 ATTAGAAAA
1 ATTATAAAA
12593113 TAAAAATTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 6 0.06
9 28 0.26
10 41 0.38
11 28 0.26
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:12593047 original size:21 final size:20
Alignment explanation
Indices: 12593017--12593060 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
12593007 AAGATTATAG
*
12593017 AAAGTTTTAAATATAATTAA
1 AAAGTTTTAAAAATAATTAA
12593037 AAAGTTATTAAAAATAATTAA
1 AAAGTT-TTAAAAATAATTAA
12593058 AAA
1 AAA
12593061 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAGTTTTAAAAATAATTAA
Found at i:12593085 original size:34 final size:34
Alignment explanation
Indices: 12593059--12593136 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
12593049 AATAATTAAA
12593059 AATTAAAAAATT-GAAATTATAAAAAATTATTAAA
1 AATTAAAAAATTAGAAATTAT-AAAAATTATTAAA
*
12593093 ATATTGTAAAAATTAGAAA--ATAAAAATTATTAAA
1 A-ATT-AAAAAATTAGAAATTATAAAAATTATTAAA
*
12593127 AAATAAAAAA
1 AATTAAAAAA
12593137 ATTTACTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
32 5 0.13
33 2 0.05
34 15 0.39
35 5 0.13
36 7 0.18
37 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (34 bp):
AATTAAAAAATTAGAAATTATAAAAATTATTAAA
Found at i:12593089 original size:44 final size:45
Alignment explanation
Indices: 12593032--12593130 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
12593022 TTTAAATATA
* **
12593032 ATTAAAAAGTTATTAAAAATAAT-TAAAAATTAAAAAATTGAAATT
1 ATTAAAAAATTATT-AAAATAATGTAAAAATTAAAAAATAAAAATT
* *
12593077 A-TAAAAAATTATTAAAATATTGTAAAAATTAGAAAATAAAAATT
1 ATTAAAAAATTATTAAAATAATGTAAAAATTAAAAAATAAAAATT
12593121 ATTAAAAAAT
1 ATTAAAAAAT
12593131 AAAAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 7 0.15
44 31 0.66
45 9 0.19
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (45 bp):
ATTAAAAAATTATTAAAATAATGTAAAAATTAAAAAATAAAAATT
Found at i:12593398 original size:9 final size:9
Alignment explanation
Indices: 12593384--12593515 Score: 54
Period size: 9 Copynumber: 13.8 Consensus size: 9
12593374 ATATATACTT
12593384 TTTTTAATA
1 TTTTTAATA
*
12593393 TTTTTAAAA
1 TTTTTAATA
12593402 TTTTT-ATAA
1 TTTTTAAT-A
*
12593411 TTTTTTTATAA
1 -TTTTTAAT-A
**
12593422 ACTTTAATA
1 TTTTTAATA
*
12593431 CTTTTTAAAA
1 -TTTTTAATA
* *
12593441 TTTTAAATC
1 TTTTTAATA
*
12593450 TTTTAAATAA
1 TTTTTAAT-A
12593460 TTTTTATATGA
1 TTTTTA-AT-A
12593471 TTTTCTTGAA-A
1 -TTT-TT-AATA
12593482 TTTTTAA-A
1 TTTTTAATA
12593490 TTTTTAATTA
1 TTTTTAA-TA
*
12593500 TTTTTTATA
1 TTTTTAATA
*
12593509 ATTTTAA
1 TTTTTAA
12593516 ACGGTTTCTA
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.12
9 38 0.40
10 31 0.33
11 8 0.08
12 3 0.03
13 3 0.03
14 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTAATA
Found at i:12593435 original size:21 final size:20
Alignment explanation
Indices: 12593388--12593436 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
12593378 ATACTTTTTT
* * *
12593388 TAATATTTTTAAAATTTTTA
1 TAATTTTTTTAAAACTTTAA
12593408 TAATTTTTTTATAAACTTTAA
1 TAATTTTTTTA-AAACTTTAA
*
12593429 TACTTTTT
1 TAATTTTT
12593437 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTTTTTAAAACTTTAA
Found at i:12597685 original size:16 final size:17
Alignment explanation
Indices: 12597664--12597702 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
12597654 AATAATCATT
* *
12597664 TTAAAAATAACT-ATAC
1 TTAAAAAAAACTAAAAC
12597680 TTAAAAAAAACTAAAAC
1 TTAAAAAAAACTAAAAC
12597697 TTAAAA
1 TTAAAA
12597703 GTATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAAAAACTAAAAC
Found at i:12607672 original size:37 final size:37
Alignment explanation
Indices: 12607612--12607686 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
12607602 AGCTATTCGA
*
12607612 AGCAATTGGCATGTTATCAGGTGGATTGGCTCTTATG
1 AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
* *
12607649 AGCATTTGGCATGTTATCGGGTGGATTAGCTCTTATG
1 AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
12607686 A
1 A
12607687 TTGTCTGACG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (37 bp):
AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
Found at i:12616580 original size:43 final size:43
Alignment explanation
Indices: 12616415--12616580 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 43
12616405 ATAAGCTCGT
* * * * * *
12616415 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACACA
1 ACAATGCCAATATCCCAAACATGGTCTTACACGTAATCTCAAA
* * * * * *
12616457 TCGATGCCACTATCCCAGACAGGGTCTTACACG-AA-ATCAATTA
1 ACAATGCCAATATCCCAAACATGGTCTTACACGTAATCTCAA--A
* *
12616500 ACAATGCCAATGTCCCAAACATGGTCTTACACATAATCTCAAA
1 ACAATGCCAATATCCCAAACATGGTCTTACACGTAATCTCAAA
* *
12616543 ACAATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 ACAATGCCAATATCCCAAACATGGTCTTACACGTAATC
12616581 ACATCACGAT
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 84 0.85
44 2 0.02
45 4 0.04
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATATCCCAAACATGGTCTTACACGTAATCTCAAA
Found at i:12618407 original size:21 final size:22
Alignment explanation
Indices: 12618360--12618407 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
12618350 CTAAAAAAAG
**
12618360 TACTTACCTTGAATAATTTTCA
1 TACTTACCTTGAATAATTTAAA
*
12618382 TACTTACCTTG-ATACTTTAAA
1 TACTTACCTTGAATAATTTAAA
12618403 TACTT
1 TACTT
12618408 GTATTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (22 bp):
TACTTACCTTGAATAATTTAAA
Found at i:12618546 original size:22 final size:22
Alignment explanation
Indices: 12618521--12618570 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
12618511 GAGCACCAAG
12618521 GTGCTATA-CAGAGAACACAAAC
1 GTGCTA-ACCAGAGAACACAAAC
*
12618543 GTGCTAACCAGAGAGCACAAAC
1 GTGCTAACCAGAGAACACAAAC
*
12618565 ATGCTA
1 GTGCTA
12618571 GAAAATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (22 bp):
GTGCTAACCAGAGAACACAAAC
Found at i:12622053 original size:24 final size:24
Alignment explanation
Indices: 12621974--12622059 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
12621964 TTTACTAAAA
* *
12621974 TATTGAATGACTTGGCCACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
** * *
12621998 TATTGAGCAGCTTGGCCACAATGC
1 TATTGAGTGGCTTGGCCACAACGT
* *
12622022 TATTGAGTGGCTTGTCTACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
12622046 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
12622060 ACCATAATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGGCCACAACGT
Found at i:12622125 original size:65 final size:64
Alignment explanation
Indices: 12622022--12622168 Score: 213
Period size: 65 Copynumber: 2.3 Consensus size: 64
12622012 GCCACAATGC
* * * * *
12622022 TATTGAGTGGCTTGTCTACAACGTTATTGAGTGGCTTGACCATAATGATGCAACTTGACTGCGA
1 TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
* *
12622086 TATTGAGTGGCTTGGCCACAAACGTTATTGAGTGACTTGACCACAACGATGTAGCTTGACTGCGA
1 TATTGAGTGGCTTGGCCAC-AACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
*
12622151 TATTAAGTGGCTTGGCCA
1 TATTGAGTGGCTTGGCCA
12622169 TAATGTGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 17 0.23
65 57 0.77
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (64 bp):
TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
Found at i:12638569 original size:32 final size:32
Alignment explanation
Indices: 12638533--12638596 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
12638523 CCTGGACTAA
*
12638533 AACGTGAGGTGACTGGATTTGTAGCTAAGTGT
1 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
12638565 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
1 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
12638597 CTAACGTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (32 bp):
AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
Found at i:12645010 original size:30 final size:30
Alignment explanation
Indices: 12644974--12645032 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
12644964 AATGAATTAA
12644974 ATAGATATAGAGAGGTGATGGGTTAACTTT
1 ATAGATATAGAGAGGTGATGGGTTAACTTT
12645004 ATAGATATAGAGAGGTGATGGGTTAACTT
1 ATAGATATAGAGAGGTGATGGGTTAACTT
12645033 AAGAAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (30 bp):
ATAGATATAGAGAGGTGATGGGTTAACTTT
Found at i:12646115 original size:13 final size:13
Alignment explanation
Indices: 12646090--12646131 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
12646080 TACTTAAGTG
12646090 TATAATATAATAATA
1 TATAATATAAT-A-A
12646105 TATTAATATAATAA
1 TA-TAATATAATAA
12646119 TATAATATAATAA
1 TATAATATAATAA
12646132 AATTTAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 3 0.12
16 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:12646131 original size:8 final size:8
Alignment explanation
Indices: 12646091--12646125 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
12646081 ACTTAAGTGT
12646091 ATAATATA
1 ATAATATA
12646099 ATAATATA
1 ATAATATA
*
12646107 TTAATATA
1 ATAATATA
12646115 ATAATATA
1 ATAATATA
12646123 ATA
1 ATA
12646126 TAATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:12646164 original size:8 final size:9
Alignment explanation
Indices: 12646136--12646178 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
12646126 TAATAAAATT
12646136 TAAAAGAAA
1 TAAAAGAAA
12646145 TAAAAGAAA
1 TAAAAGAAA
12646154 TAAAA-AAA
1 TAAAAGAAA
12646162 T-AAAGAAA
1 TAAAAGAAA
*
12646170 CAAAAGAAA
1 TAAAAGAAA
12646179 GAGAATAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 3 0.10
8 7 0.23
9 21 0.68
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:12648697 original size:31 final size:31
Alignment explanation
Indices: 12648626--12648704 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
12648616 CATGTTTACA
* *
12648626 CTTTCATTTGGGTCACCCAACTTCTAGATCT
1 CTTTCATTTTGGTCACCCAACTTCTAGATCG
*
12648657 CTTTCATTTTGGTCATCCAACTTCTA-AGTCG
1 CTTTCATTTTGGTCACCCAACTTCTAGA-TCG
*
12648688 CTTTCATTTTAGTCACC
1 CTTTCATTTTGGTCACC
12648705 TAAAAACTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (31 bp):
CTTTCATTTTGGTCACCCAACTTCTAGATCG
Found at i:12652792 original size:21 final size:21
Alignment explanation
Indices: 12652732--12652821 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 21
12652722 CTGAACATTA
*
12652732 AACCCTAGACTTTGGACCTTG
1 AACCCTAAACTTTGGACCTTG
* * * *
12652753 GACCTTAAAAC-CTAGACCTTG
1 AACCCT-AAACTTTGGACCTTG
* * *
12652774 GACCCTAAACGTTGTACCTTG
1 AACCCTAAACTTTGGACCTTG
* *
12652795 AAACCTAGACTTTGGACCTTG
1 AACCCTAAACTTTGGACCTTG
12652816 AACCCT
1 AACCCT
12652822 GAATCTTAGA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 4 0.08
21 45 0.87
22 3 0.06
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (21 bp):
AACCCTAAACTTTGGACCTTG
Found at i:12652893 original size:21 final size:22
Alignment explanation
Indices: 12652869--12652919 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
12652859 GTTAAGGGTC
*
12652869 TAGGGTTTA-GTGTCTAAGATT
1 TAGGGTTTAGGAGTCTAAGATT
12652890 TAGGG-TTAGGAGTCTAAGATT
1 TAGGGTTTAGGAGTCTAAGATT
12652911 TAGGGTTTA
1 TAGGGTTTA
12652920 TAATCAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.39
Consensus pattern (22 bp):
TAGGGTTTAGGAGTCTAAGATT
Found at i:12660076 original size:18 final size:18
Alignment explanation
Indices: 12660053--12660087 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12660043 TTATCAGAAA
12660053 AGAAAACTGAACAGATGG
1 AGAAAACTGAACAGATGG
* *
12660071 AGAAAATTGAACTGATG
1 AGAAAACTGAACAGATG
12660088 AATATTATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.17
Consensus pattern (18 bp):
AGAAAACTGAACAGATGG
Found at i:12660246 original size:15 final size:16
Alignment explanation
Indices: 12660195--12660239 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12660185 AACAGAACTC
*
12660195 CTAAAAATAGCAAACG
1 CTAAAAATAGCAAACA
* *
12660211 TTAAAAATAACAAACA
1 CTAAAAATAGCAAACA
12660227 CTAAAAATAGCAA
1 CTAAAAATAGCAA
12660240 TCCTAAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.16
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:12664418 original size:16 final size:16
Alignment explanation
Indices: 12664376--12664420 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12664366 AATAAAACTC
*
12664376 CTAAAAATAGAAAACA
1 CTAAAAATAGCAAACA
*
12664392 TTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
*
12664408 CTAGAAATAGCAA
1 CTAAAAATAGCAA
12664421 TCCTAAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:12664577 original size:17 final size:18
Alignment explanation
Indices: 12664552--12664601 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
12664542 ACTCAAACCT
*
12664552 AAAAGTGATTTGAACTC-
1 AAAATTGATTTGAACTCG
*
12664569 AAAATTGATATGAA-TCG
1 AAAATTGATTTGAACTCG
*
12664586 AAAATTGATTCGAACT
1 AAAATTGATTTGAACT
12664602 AAGAATGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (18 bp):
AAAATTGATTTGAACTCG
Found at i:12664942 original size:15 final size:16
Alignment explanation
Indices: 12664922--12664954 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
12664912 ATATATTATT
12664922 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
12664937 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
12664954 T
1 T
12664955 ATAACCGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:12665040 original size:21 final size:20
Alignment explanation
Indices: 12665001--12665088 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 20
12664991 GTTTTAAGAA
*
12665001 TTGTTTTAGTATTATTTTTAT
1 TTGTTTTAATATT-TTTTTAT
12665022 TTGTTTTAATATTTGTTTTCAT
1 TTGTTTTAATATTT-TTTT-AT
*
12665044 GTT-TTTAAATATATTTGATTTAT
1 -TTGTTTTAATAT-TTT--TTTAT
*
12665067 TATTTTTTAA-ATTTTTTTAT
1 T-TGTTTTAATATTTTTTTAT
12665087 TT
1 TT
12665089 AATGAAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
19 1 0.02
20 7 0.12
21 16 0.29
22 15 0.27
23 9 0.16
24 8 0.14
ACGTcount: A:0.23, C:0.01, G:0.07, T:0.69
Consensus pattern (20 bp):
TTGTTTTAATATTTTTTTAT
Found at i:12665832 original size:27 final size:27
Alignment explanation
Indices: 12665801--12665856 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12665791 TTTAATCGAA
12665801 CAACTTTTTTGAAAACACAACGATTTT
1 CAACTTTTTTGAAAACACAACGATTTT
12665828 CAACTTTTTTGAAAACACAACGATTTT
1 CAACTTTTTTGAAAACACAACGATTTT
12665855 CA
1 CA
12665857 CAATTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (27 bp):
CAACTTTTTTGAAAACACAACGATTTT
Found at i:12666114 original size:20 final size:21
Alignment explanation
Indices: 12666072--12666114 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
12666062 ACGAACTAAC
** *
12666072 CAAAAATTAAAAAGTCCATAA
1 CAAAAATTAAAAAACCCAAAA
12666093 CAAAAA-TAAAAAACCCAAAA
1 CAAAAATTAAAAAACCCAAAA
12666113 CA
1 CA
12666115 GTCCAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.67, C:0.19, G:0.02, T:0.12
Consensus pattern (21 bp):
CAAAAATTAAAAAACCCAAAA
Found at i:12667173 original size:18 final size:18
Alignment explanation
Indices: 12667150--12667187 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12667140 TAGCCCCCTG
12667150 TTTGATGATTTATCATTT
1 TTTGATGATTTATCATTT
12667168 TTTGATGATTTATCATTT
1 TTTGATGATTTATCATTT
12667186 TT
1 TT
12667188 CTATTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (18 bp):
TTTGATGATTTATCATTT
Found at i:12668817 original size:16 final size:18
Alignment explanation
Indices: 12668791--12668824 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12668781 TTAAATTAAC
12668791 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
12668808 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
12668825 ACAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:12691464 original size:3 final size:3
Alignment explanation
Indices: 12691458--12691506 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12691448 GTTTACTTTC
12691458 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
12691506 T
1 T
12691507 GTCTTTTATT
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:12693076 original size:6 final size:6
Alignment explanation
Indices: 12693065--12693111 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
12693055 TCCACTTATG
*
12693065 TTATTT TTATTT TTATTT TTATTT TTATTT TTATCT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
12693112 ATGTTGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:12693600 original size:16 final size:16
Alignment explanation
Indices: 12693579--12693614 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
12693569 GATAAGTTGG
12693579 CTTTTAAAGCATATAT
1 CTTTTAAAGCATATAT
12693595 CTTTTAAAGCATATAT
1 CTTTTAAAGCATATAT
12693611 CTTT
1 CTTT
12693615 CTTGCTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (16 bp):
CTTTTAAAGCATATAT
Found at i:12693956 original size:15 final size:15
Alignment explanation
Indices: 12693933--12693962 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12693923 TTAAGAATTT
12693933 CTCCATTTTTATTGA
1 CTCCATTTTTATTGA
*
12693948 CTCCCTTTTTATTGA
1 CTCCATTTTTATTGA
12693963 GATTTGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (15 bp):
CTCCATTTTTATTGA
Found at i:12700532 original size:29 final size:29
Alignment explanation
Indices: 12700474--12700532 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
12700464 CATTTGGAAG
**
12700474 TTAATCACTCTACTTTTATTTTTAAGAAA
1 TTAATCACTCTACTTTTAAATTTAAGAAA
*
12700503 TTAATCAGTCTACTTTTGAAATTTAA-AAA
1 TTAATCACTCTACTTTT-AAATTTAAGAAA
12700532 T
1 T
12700533 CTAGGTCACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (29 bp):
TTAATCACTCTACTTTTAAATTTAAGAAA
Found at i:12711590 original size:19 final size:19
Alignment explanation
Indices: 12711566--12711610 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
12711556 CGTCTCTTTT
*
12711566 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
12711585 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
12711604 TGCATTG
1 TGCATTG
12711611 AATATCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:12715435 original size:53 final size:53
Alignment explanation
Indices: 12715355--12715511 Score: 233
Period size: 53 Copynumber: 3.0 Consensus size: 53
12715345 GCTCCCAATC
* *
12715355 AATTTTATTCTTATTACATTTGCTATCTTTGCTTAACTTATTCATTTCGAGTT
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
*
12715408 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTTGAGTT
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
* ** ** *
12715461 AATTTCCTTCTTATTGTATTTGCTATCTTTGATTATTTTATTTATTTCGAG
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
12715512 CTATGCTCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.22, C:0.13, G:0.08, T:0.57
Consensus pattern (53 bp):
AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:12715447 original size:27 final size:26
Alignment explanation
Indices: 12715364--12715454 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 26
12715354 CAATTTTATT
12715364 CTTATTACATTTGCTATCTTTGCTTAA
1 CTTATT-CATTTGCTATCTTTGCTTAA
*
12715391 CTTATTCATTTCGAGTTAAT-TTT-CTT--
1 CTTATTCATTT---GCT-ATCTTTGCTTAA
*
12715417 CTTATTACATTTGCTATCTTTGATTAA
1 CTTATT-CATTTGCTATCTTTGCTTAA
12715444 CTTATTCATTT
1 CTTATTCATTT
12715455 TGAGTTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
23 2 0.04
24 5 0.10
25 2 0.04
26 16 0.31
27 17 0.33
28 3 0.06
29 5 0.10
30 2 0.04
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.55
Consensus pattern (26 bp):
CTTATTCATTTGCTATCTTTGCTTAA
Found at i:12716042 original size:46 final size:46
Alignment explanation
Indices: 12715948--12716120 Score: 233
Period size: 46 Copynumber: 3.8 Consensus size: 46
12715938 TGAAGAAGCC
* * * *
12715948 ACAAATCCTATAACCCTGAGCTGCA-TGGGATGGATTGAAA-AAGAT
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATT-AAAGATGAT
*
12715993 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTAAAGATGGT
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTAAAGATGAT
* *
12716039 ACAAATCCTATACCTCTGAGTTATAGTGGGATGGATTAAAGATGAT
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTAAAGATGAT
* * *
12716085 ACAAATCCTATACCCTTGAGTTGTAGTAGGAAGGAT
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGAT
12716121 AAAAATACAC
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
45 25 0.22
46 88 0.78
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTAAAGATGAT
Found at i:12716431 original size:46 final size:46
Alignment explanation
Indices: 12716350--12716469 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
12716340 AGATCAAAGC
* *
12716350 CACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATA
1 CACAATCCTTATCTCCCTGAAGTTACAGTAGAGCAGGATAAAAATA
* * * * *
12716396 CACAAACCTTATCTCCCTGAAGTTATAGT-GAAGCAGGTTGAAATTA
1 CACAATCCTTATCTCCCTGAAGTTACAGTAG-AGCAGGATAAAAATA
* * *
12716442 C-CAATTCTTATCTCCTTGAAGTTCCAGT
1 CACAATCCTTATCTCCCTGAAGTTACAGT
12716470 GGAGTAGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
45 23 0.38
46 38 0.62
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (46 bp):
CACAATCCTTATCTCCCTGAAGTTACAGTAGAGCAGGATAAAAATA
Found at i:12716462 original size:45 final size:45
Alignment explanation
Indices: 12716135--12716741 Score: 211
Period size: 44 Copynumber: 13.6 Consensus size: 45
12716125 ATACACAAAC
* * *
12716135 CTTATCTCCCTTAAGTTGCAGTGGAGCAGGTTGAAATTACTAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * * * ** *
12716180 CTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * **
12716224 CTCT-TCTCCCTGAAATTACATTGGAG-TGGATT-AAAGCCACCAATT
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGG-TTGAAA-TTACCAATT
* * * * * * ** *
12716269 CTTATCTCCTTTAAGTT-CTAGCGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTAC-AGTGGAGCAGGTTGAAATTACCAATT
* * * * * ** *
12716313 C-TATTCTCCCTAAAATTACATTGGAGCA-GATCAAA-GCCACAATC
1 CTTA-TCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-CAATT
* * * * * * **
12716357 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-CAATT
* *
12716403 CTTATCTCCCTGAAGTTATAGTGAAGCAGGTTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * ** *
12716448 CTTATCTCCTTGAAGTTCCAGTGGAGTAGATTGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* *
12716492 CTCT-TCTCCCTGAAATTACATTGGAGC-GGATTGAAATTACCAATT
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGG-TTGAAATTACCAATT
** * * ** * * * ** *
12716537 CTTATCTCTTTAAAGTTCCAACGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * *** * *
12716581 CTCT-TCTCCTTGAAATTACATTGGAGCAGATTGAAGCCA-TAATC
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * * * * *
12716625 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACACGAA-C
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-C-AATT
*
12716671 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * *
12716716 ATTATCTCCTTGAAGTTCCAGCGGAG
1 CTTATCTCCCTGAAGTTACAGTGGAG
12716742 TAGATCGAAG
Statistics
Matches: 400, Mismatches: 136, Indels: 52
0.68 0.23 0.09
Matches are distributed among these distances:
43 9 0.02
44 162 0.41
45 150 0.38
46 77 0.19
47 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
Found at i:12716515 original size:268 final size:267
Alignment explanation
Indices: 12716103--12717321 Score: 1241
Period size: 268 Copynumber: 4.6 Consensus size: 267
12716093 TATACCCTTG
* * *
12716103 AGTTGTAGTAG-GAAGGATAAAAATACACAAACCTTATCTCCCTTAAGTTGCAGTGGAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
*
12716167 GAAATTACTAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
*
12716232 CCTGAAATTACATTGGAGTGGATT-AAAGCCACCAATTCTTATCTCCTTTAAGTTCTAGCGGAGT
131 CCTGAAATTACATTGGAGTGGATTGAAA-CCACCAATTCTTATCT-CTTAAAGTTCTAGCGGAGT
* *
12716296 AGATCGAAGCTACAAATCTATTCTCCCTAAAATTACATTGGAGCAGATCAAAGCCACAATCCTTA
194 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTTA
12716361 TCTCTCTGA
259 TCTCTCTGA
** *
12716370 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTATAGTGAAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* *
12716435 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGTGGAGTAGATTGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* ** * *
12716500 CCTGAAATTACATTGGAGCGGATTGAAATTACCAATTCTTATCTCTTTAAAGTTCCAACGGAGTA
131 CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTC-TTAAAGTTCTAGCGGAGTA
* ** *
12716565 GATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGCCATAATCCTTAT
195 GATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTTAT
12716630 CTCTCTGA
260 CTCTCTGA
* *
12716638 AGTTGCAGTAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* *
12716703 GAAATTACCAATTATTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
** * * * * * ** ** *
12716768 TTTGAAATTATATTGGAGTAGATCGAAGCCA-CAATCCTTATCTCTCTAAAGTTGAAGTAGAGCA
131 CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTCT-TAAAGTTCTAGCGGAGTA
* ** * * * * * **
12716832 GGAT-AAAAATAAACAAACCT-TATCTCCCTG-AAGTAGCAGTGGAGCAGGTTGAAA-TTACCAA
195 -GATCGAAGCT--ACAAATCTCT-TCTCCCTGAAATTA-CATTGGAGCA-GATCAAAGCCA-CAA
* *
12716893 TTCTTATCTCAT-TAA
253 TCCTTATCTC-TCTGA
** ** * ** * * * * * ** * * *
12716908 AGTTTTAGCGGAGTA-GAT-CGAA-GCTGCAAATCTCT-TCTCTCTGAAATTATATTGGAGTAGA
1 AGTTGCAGTAGAGCAGGATAAAAATAC-ACAAACCT-TATCTCCCTGAAGTTGCAGTGGAGCAGG
* *** * * ** ** * * ** *
12716969 TCGAAGCCA-CAATCCTTATCT-CTCTAAAGTTGAAGTAGAGCAGGAT-AAAAATAAACAAACCT
64 TTGAAATTACCAATTCTTATCTCCT-TGAAGTTCCAGCGGAGTA-GATCGAAGCT--ACAAATCT
* * ** ** *
12717031 -TATCTCCCT-AAAGTAGCAGTGGAACAGG-TTGAAATTACCAATTCTTATCTCCTTAAAGTTTT
125 CT-TCTCCCTGAAATTA-CATTGG-AGTGGATTGAAACCACCAATTCTTATCT-CTTAAAGTTCT
* * *
12717093 AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGTAGATCGAAGCCAC
186 AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCAC
12717158 AATCCTTATCTCTCTGA
251 AATCCTTATCTCTCTGA
* * * *
12717175 AGTTGCAGTAGAGCAGGATAAAAGTACACAAACCTTATCTCCTTGAAGTTGCAGTAGAGTAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* *
12717240 GAAATTACCAATTTTTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
12717305 CCTGAAATTACATTGGA
131 CCTGAAATTACATTGGA
12717322 ACAGATTGAA
Statistics
Matches: 749, Mismatches: 166, Indels: 74
0.76 0.17 0.07
Matches are distributed among these distances:
266 4 0.01
267 93 0.12
268 467 0.62
269 98 0.13
270 82 0.11
271 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (267 bp):
AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTCTTAAAGTTCTAGCGGAGTAG
ATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTTATC
TCTCTGA
Found at i:12716798 original size:179 final size:179
Alignment explanation
Indices: 12716103--12717321 Score: 1275
Period size: 179 Copynumber: 6.8 Consensus size: 179
12716093 TATACCCTTG
* * * *
12716103 AGTTGTAGTAG-GAAGGATAAAAATACACAAACCTTATCTCCCTTAAGTTGCAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* *
12716167 GAAATTACTAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* ** * *
12716232 CCTGAAATTACATTGGAGTGGATTAAAGCCACCAATTCTTATCTC-CTTTA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCA-CAATCCTTATCTCTC-TAA
** ** * * ** * * * * *
12716282 AGTTCTAGCGGAGTA-GATCGAAGCT--ACAAATC-TATTCTCCCTAAAATTACATTGGAGCA-G
1 AGTTGAAGTAGAGCAGGAT-AAAAATAAACAAACCTTA-TCTCCCTGAAGTTGCAGTGGAGCAGG
* * ** * * * ** * * ** *
12716342 ATCAAA-GCCACAATCCTTATCT-CTCTGAAGTTGCAGTAGAGCAGGAT-AAAAATACACAAAC-
64 TTGAAATTAC-CAATTCTTATCTCCT-TAAAGTTCCAGCGGAGTA-GATCGAAGCTACA-AATCT
* * * * * * * *** * *
12716403 CTTATCTCCCTGAAGTTATAGTGAAGCAGGTTGAAATTACCAATTCTTATCTC-CTTGA
125 C-T-TCTCCCTGAAATTACATTGGAGTAGATCGAAGCCA-CAATCCTTATCTCTC-TAA
** * * * ** * * * *
12716461 AGTTCCAGTGGAGTA-GATTGAAGCT--ACAAATCTCT-TCTCCCTGAAATTACATTGGAGC-GG
1 AGTTGAAGTAGAGCAGGA-TAAAAATAAACAAACCT-TATCTCCCTGAAGTTGCAGTGGAGCAGG
* *
12716521 ATTGAAATTACCAATTCTTATCTCTTTAAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTT
64 -TTGAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTT
* * * * *
12716586 CTCCTTGAAATTACATTGGAGCAGATTGAAGCCATAATCCTTATCTCTCTGA
128 CTCCCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * * *
12716638 AGTTGCAGTAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* * *
12716703 GAAATTACCAATTATTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
** *
12716768 TTTGAAATTATATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
*
12716817 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* ** *
12716882 GAAATTACCAATTCTTATCTCATTAAAGTTTTAGCGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* *
12716947 TCTGAAATTATATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * *
12716996 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTAAAGTAGCAGTGGAACAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
**
12717061 GAAATTACCAATTCTTATCTCCTTAAAGTTTTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* *
12717126 CCTGAAATTACATTAGAGTAGATCGAAGCCACAATCCTTATCTCTCTGA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * * * * *
12717175 AGTTGCAGTAGAGCAGGATAAAAGTACACAAACCTTATCTCCTTGAAGTTGCAGTAGAGTAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* * *
12717240 GAAATTACCAATTTTTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
12717305 CCTGAAATTACATTGGA
131 CCTGAAATTACATTGGA
12717322 ACAGATTGAA
Statistics
Matches: 893, Mismatches: 123, Indels: 48
0.84 0.12 0.05
Matches are distributed among these distances:
176 3 0.00
177 69 0.08
178 63 0.07
179 713 0.80
180 42 0.05
181 3 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (179 bp):
AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
Found at i:12717147 original size:44 final size:45
Alignment explanation
Indices: 12717097--12717316 Score: 146
Period size: 44 Copynumber: 4.9 Consensus size: 45
12717087 AGTTTTAGCG
* *
12717097 GAGTAGATCGAAGCTACAAATCTCT-TCTCCCTGAAATTACATTA
1 GAGTAGATCGAAGCTACAAATCTCTATCTCCCTGAAGTTACAGTA
* * *
12717141 GAGTAGATCGAAGCCAC-AATC-CTTATCTCTCTGAAGTTGCAGTA
1 GAGTAGATCGAAGCTACAAATCTC-TATCTCCCTGAAGTTACAGTA
* ** * * *
12717185 GAGCAGGATAAAAG-TACACAAAC-CTTATCTCCTTGAAGTTGCAGTA
1 GAGTA-GATCGAAGCTACA-AATCTC-TATCTCCCTGAAGTTACAGTA
* * ** * * * * * ***
12717231 GAGTAGGTTGAAATTACCAATTTTTATCTCCTTGAAGTTCCAACG
1 GAGTAGATCGAAGCTACAAATCTCTATCTCCCTGAAGTTACAGTA
*
12717276 GAGTAGATCGAAGCTACAAATCTCT-TCTCCCTGAAATTACA
1 GAGTAGATCGAAGCTACAAATCTCTATCTCCCTGAAGTTACA
12717317 TTGGAACAGA
Statistics
Matches: 134, Mismatches: 35, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 50 0.37
45 47 0.35
46 31 0.23
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (45 bp):
GAGTAGATCGAAGCTACAAATCTCTATCTCCCTGAAGTTACAGTA
Found at i:12717269 original size:45 final size:46
Alignment explanation
Indices: 12717155--12717269 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 46
12717145 AGATCGAAGC
*
12717155 CACAATCCTTATCT-CTCTGAAGTTGCAGTAGAGCAGGATAAAAGTA
1 CACAAACCTTATCTCCT-TGAAGTTGCAGTAGAGCAGGATAAAAGTA
* * * *
12717201 CACAAACCTTATCTCCTTGAAGTTGCAGTAGAGTAGGTTGAAATTA
1 CACAAACCTTATCTCCTTGAAGTTGCAGTAGAGCAGGATAAAAGTA
***
12717247 C-CAATTTTTATCTCCTTGAAGTT
1 CACAAACCTTATCTCCTTGAAGTT
12717270 CCAACGGAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 19 0.32
46 39 0.65
47 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (46 bp):
CACAAACCTTATCTCCTTGAAGTTGCAGTAGAGCAGGATAAAAGTA
Found at i:12724992 original size:24 final size:24
Alignment explanation
Indices: 12724914--12725041 Score: 80
Period size: 24 Copynumber: 5.3 Consensus size: 24
12724904 AGACCCTTTT
*
12724914 GCACCCCCACCGCCAGGGCATCCG
1 GCACCACCACCGCCAGGGCATCCG
* * * *
12724938 GCACCACCTCCGCCA-GAC-CCCTTT
1 GCACCACCACCGCCAGGGCATCC--G
*
12724962 GCTCCACCACCGCCAGGGCATCCG
1 GCACCACCACCGCCAGGGCATCCG
* * * ** * ***
12724986 GCACCACCTCCACCTGACCCTTTT
1 GCACCACCACCGCCAGGGCATCCG
*
12725010 GCTCCACCACCGCCAGGGCATCCG
1 GCACCACCACCGCCAGGGCATCCG
12725034 GCACCACC
1 GCACCACC
12725042 TCCACCAGAC
Statistics
Matches: 69, Mismatches: 31, Indels: 8
0.64 0.29 0.07
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 61 0.88
25 2 0.03
26 2 0.03
ACGTcount: A:0.17, C:0.52, G:0.19, T:0.12
Consensus pattern (24 bp):
GCACCACCACCGCCAGGGCATCCG
Found at i:12725077 original size:48 final size:48
Alignment explanation
Indices: 12724893--12725065 Score: 274
Period size: 48 Copynumber: 3.6 Consensus size: 48
12724883 CGGGCATCCT
* * *
12724893 CCACCTCCACCAGACCCTTTTGCACCCCCACCGCCAGGGCATCCGGCA
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCA
*
12724941 CCACCTCCGCCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCA
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCA
* *
12724989 CCACCTCCACCTGACCCTTTTGCTCCACCACCGCCAGGGCATCCGGCA
1 CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCA
* *
12725037 CCACCTCCACCAGACCCCTTCGCACCACC
1 CCACCTCCACCAGACCCCTTTGCTCCACC
12725066 TATGTTTGGG
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.18, C:0.53, G:0.16, T:0.13
Consensus pattern (48 bp):
CCACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCA
Found at i:12729767 original size:130 final size:132
Alignment explanation
Indices: 12729622--12729909 Score: 350
Period size: 130 Copynumber: 2.2 Consensus size: 132
12729612 TCAAATGCCG
* * * * *
12729622 AATATTGCCTTCGTTTTAAATAATTTTTAGAAGATATGAATGAAAACTTGAAGGGATATTTGATT
1 AATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATT
*
12729687 ATTTTAAAC-AA-TCGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATAT
66 ATTTTAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATAT
12729750 CA
131 CA
** * * * ** *
12729752 CGTATCGCCTTCG-TTTAAGGGA-TTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATT
1 AATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATT
* * * * * *
12729815 ATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGTCAAATAT
66 ATTTTAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATAT
12729880 CA
131 CA
* *
12729882 AATCTCGTCTTCGTTTTAAAGAATTTTT
1 AATATCGCCTTCGTTTTAAAGAATTTTT
12729910 GAATGAATGA
Statistics
Matches: 128, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
128 41 0.32
129 8 0.06
130 68 0.53
131 7 0.05
132 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (132 bp):
AATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATT
ATTTTAAACAAACGCGAAATTGCAACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATAT
CA
Found at i:12731557 original size:18 final size:19
Alignment explanation
Indices: 12731523--12731563 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
12731513 AAATAAGTAA
12731523 ATAGATATATAGTTACATAT
1 ATAGATATATAG-TACATAT
12731543 ATAGATATATA-TACATAT
1 ATAGATATATAGTACATAT
12731561 ATA
1 ATA
12731564 CGAATGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (19 bp):
ATAGATATATAGTACATAT
Found at i:12733229 original size:130 final size:132
Alignment explanation
Indices: 12733037--12733295 Score: 346
Period size: 132 Copynumber: 2.0 Consensus size: 132
12733027 CAATATGCTC
* * * * *
12733037 CACTGCAACTTTAGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACAACTTTAGGAGCTA
1 CACTGCAACTTCAAGGAAACAAGATCTAAAATTTTCAGCCTACTCCACTACAACTTTAGGAGCTA
* *
12733102 GG-ACCT-GCTTAAATCTGCTTCACTGCATCTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGT
66 GGTACCTGGCTTAAATCTGCCTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGT
12733165 TT
131 TT
*
12733167 CACTGCAACTTCAAGGAAAC-AGAATCTAAAATTTT-AGCCTACTCCGCTACAACTTTAGGGAGC
1 CACTGCAACTTCAAGGAAACAAG-ATCTAAAATTTTCAGCCTACTCCACTACAACTTTA-GGAGC
*** * * *
12733230 TAGGTTGGTGGCTTAAATCTGCCTCACTGCAACTTCAGGAAGCCTAGATTTACTGTCTTCGATCT
64 TAGGTACCTGGCTTAAATCTGCCTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCT
12733295 G
129 G
12733296 CTCTCTGTCA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
129 22 0.20
130 37 0.33
131 1 0.01
132 51 0.46
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CACTGCAACTTCAAGGAAACAAGATCTAAAATTTTCAGCCTACTCCACTACAACTTTAGGAGCTA
GGTACCTGGCTTAAATCTGCCTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGT
TT
Found at i:12733335 original size:44 final size:44
Alignment explanation
Indices: 12733285--12733517 Score: 297
Period size: 44 Copynumber: 5.3 Consensus size: 44
12733275 AGATTTACTG
* * * *
12733285 TCTTCGATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
* * * * * *
12733329 CCTTCGATCTAC-CCCCTGACAATATAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCC-GCCAATACAGAGACGCCAAATCTGCTA
* *
12733373 TCTTCGATCTGCTCTCCACCAATACAGAGACGTCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
*
12733417 TCTTTGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
* * *
12733461 TCTTCGATCTGCTCTCCGCGAATACAGAGACACCAAATCTACTA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
*
12733505 TCTTTGATCTGCT
1 TCTTCGATCTGCT
12733518 ATCTTTGATC
Statistics
Matches: 162, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 2 0.01
44 157 0.97
45 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
Found at i:12733519 original size:14 final size:14
Alignment explanation
Indices: 12733497--12733531 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12733487 GAGACACCAA
*
12733497 ATCTACTATCTTTG
1 ATCTGCTATCTTTG
12733511 ATCTGCTATCTTTG
1 ATCTGCTATCTTTG
12733525 ATCTGCT
1 ATCTGCT
12733532 CTCCGCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (14 bp):
ATCTGCTATCTTTG
Found at i:12745896 original size:130 final size:128
Alignment explanation
Indices: 12745664--12745899 Score: 301
Period size: 130 Copynumber: 1.8 Consensus size: 128
12745654 AAGATATGGA
** *
12745664 TGAAATCTTGAAGGGATATTTGATTATTTTAAACAATCGAAATTGCAACCCAACACGTTAGGGCA
1 TGAAATCTTGAAGGGATATTCAATTATTTTAAACAAACGAAATTGCAACCCAACACGTTAGGGCA
***
12745729 CGATTCAACAAATTACCAAATATCGCGTATCGCCTTCGTTTAAGGGATTTTAAAGGACATGAG
66 CGATTCAACAAATTACCAAATATCAAATATCGCCTTCGTTTAAGGGATTTTAAAGGACATGAG
* * * *
12745792 TGAAATTTTGAAGTGATATTCAATTATTTTGAGCAAACGCAAAATTGCAACCCAACACGTTAGGG
1 TGAAATCTTGAAGGGATATTCAATTATTTTAAACAAACG--AAATTGCAACCCAACACGTTAGGG
** * ** * *
12745857 CACGATTCTGCGAATTGTCAAATATCAAATCTCGTCTTCGTTT
64 CACGATTCAACAAATTACCAAATATCAAATATCGCCTTCGTTT
12745900 TAAAGAATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
128 32 0.36
130 57 0.64
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (128 bp):
TGAAATCTTGAAGGGATATTCAATTATTTTAAACAAACGAAATTGCAACCCAACACGTTAGGGCA
CGATTCAACAAATTACCAAATATCAAATATCGCCTTCGTTTAAGGGATTTTAAAGGACATGAG
Found at i:12747534 original size:18 final size:19
Alignment explanation
Indices: 12747500--12747540 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
12747490 AAATAAGTAA
12747500 ATAGATATATACTTACATAT
1 ATAGATATATAC-TACATAT
12747520 ATAGATATATA-TACATAT
1 ATAGATATATACTACATAT
12747538 ATA
1 ATA
12747541 CGAATAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (19 bp):
ATAGATATATACTACATAT
Found at i:12749173 original size:31 final size:32
Alignment explanation
Indices: 12749087--12749173 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 32
12749077 GGATATTACA
* *
12749087 TTTACTGTCCTAGTGGACTATCTCTATTTTGTG
1 TTTACTGTCCCAATGGACTATCTC-ATTTTGTG
* * * *
12749120 TTGATTGTCCCAACGGATTATCTC-TTTTGTG
1 TTTACTGTCCCAATGGACTATCTCATTTTGTG
*
12749151 TTTACTGTCCCATTGGACTATCT
1 TTTACTGTCCCAATGGACTATCT
12749174 TTGTTTTGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
31 25 0.58
33 18 0.42
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (32 bp):
TTTACTGTCCCAATGGACTATCTCATTTTGTG
Found at i:12754627 original size:61 final size:57
Alignment explanation
Indices: 12754514--12754635 Score: 131
Period size: 61 Copynumber: 2.1 Consensus size: 57
12754504 TCTATGACTC
** *
12754514 ATATATATATATGTATCTATATATATACTTTTTATATTTTATGATAGTTACATACGT
1 ATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATACAT
* *
12754571 ATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTACATACAT
1 ATATATATATATGTAT-C-TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TACATACAT
12754632 ATAT
1 ATAT
12754636 TTTTTATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
57 14 0.26
58 5 0.09
59 11 0.20
60 3 0.06
61 21 0.39
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.50
Consensus pattern (57 bp):
ATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATACAT
Found at i:12769028 original size:20 final size:20
Alignment explanation
Indices: 12769005--12769116 Score: 56
Period size: 20 Copynumber: 5.5 Consensus size: 20
12768995 AAAATTGAAT
12769005 TAATTTAAAAAATTAATTAA
1 TAATTTAAAAAATTAATTAA
* * *
12769025 TAATTAAAATTTAAAATAAATAA
1 TAATTTAAA---AAATTAATTAA
* *
12769048 TTAATTTTAAAAATAGAATT--
1 -TAATTTAAAAAAT-TAATTAA
12769068 TAATTTAAAACAATTAAAATTAA
1 TAATTTAAAA-AATT--AATTAA
*
12769091 TAA--TAATAAATTAATT--
1 TAATTTAAAAAATTAATTAA
12769107 TAATTTAAAA
1 TAATTTAAAA
12769117 TAAATTTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 26
0.64 0.11 0.25
Matches are distributed among these distances:
16 3 0.04
18 8 0.12
19 9 0.13
20 15 0.22
21 11 0.16
22 3 0.04
23 12 0.18
24 7 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
TAATTTAAAAAATTAATTAA
Found at i:12769033 original size:18 final size:17
Alignment explanation
Indices: 12768995--12769133 Score: 64
Period size: 18 Copynumber: 8.2 Consensus size: 17
12768985 CCATTTGGAT
12768995 AAAATTGAATTAATTTAA
1 AAAATT-AATTAATTTAA
12769013 AAAATTAATTAA--T--
1 AAAATTAATTAATTTAA
12769026 --AATTAA--AATTTAA
1 AAAATTAATTAATTTAA
* *
12769039 AATAAATAATTAATTTTA
1 AA-AATTAATTAATTTAA
*
12769057 AAAATAGAATTTAATTTAA
1 AAAAT-TAA-TTAATTTAA
*
12769076 AACAATTAAAATTAATAATAA
1 AA-AATT--AATTAAT-TTAA
*
12769097 TAAATTAATTTAATTTAA
1 AAAATTAA-TTAATTTAA
*
12769115 AATAA--ATTTAATTTAA
1 AA-AATTAATTAATTTAA
12769131 AAA
1 AAA
12769134 TAAAAATAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 37
0.66 0.08 0.26
Matches are distributed among these distances:
9 2 0.02
11 7 0.08
15 2 0.02
16 16 0.17
17 9 0.10
18 22 0.24
19 17 0.18
20 12 0.13
21 6 0.06
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (17 bp):
AAAATTAATTAATTTAA
Found at i:12769117 original size:16 final size:16
Alignment explanation
Indices: 12769098--12769287 Score: 87
Period size: 16 Copynumber: 11.1 Consensus size: 16
12769088 TAATAATAAT
*
12769098 AAATTAATTTAATTTA
1 AAATAAATTTAATTTA
12769114 AAATAAATTTAATTTAA
1 AAATAAATTTAATTT-A
** *
12769131 AAATAAAAATAATTAA
1 AAATAAATTTAATTTA
** **
12769147 AAATAAAAATAATAAA
1 AAATAAATTTAATTTA
12769163 GAAATAAATTAATTAAAGTTTA
1 -AAATAAA-T--TT-AA-TTTA
12769185 AAAT-AATTTAATTTAAA
1 AAATAAATTTAATTT--A
*
12769202 AAATAAATTTAATTAA
1 AAATAAATTTAATTTA
* **
12769218 ACAATCAAAATTAATAAA
1 A-AAT-AAATTTAATTTA
* *
12769236 AGGTAATTAATTAAAGTTTA
1 A---AATAAATTTAA-TTTA
*
12769256 AAATAAATTTAATTTT
1 AAATAAATTTAATTTA
*
12769272 AAA-AAATATAATTTA
1 AAATAAATTTAATTTA
12769287 A
1 A
12769288 TAAAAATAAT
Statistics
Matches: 136, Mismatches: 23, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
15 14 0.10
16 40 0.29
17 39 0.29
18 20 0.15
19 6 0.04
20 9 0.07
21 6 0.04
22 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATAAATTTAATTTA
Found at i:12769140 original size:53 final size:51
Alignment explanation
Indices: 12768996--12769153 Score: 152
Period size: 53 Copynumber: 3.1 Consensus size: 51
12768986 CATTTGGATA
*
12768996 AAATTGAATTAATTT-AAA-AAA-TTAA-TTAATAATTAAAATT--TAAAAT
1 AAATT-AATTAATTTAAAATAAATTTAATTTAAAAATTAAAATTAATAAAAT
12769042 AAA-TAATTAATTTTAAAAATAGAATTTAATTTAAAACAATTAAAATTAATAATAAT
1 AAATTAATTAA-TTT-AAAATA-AATTTAATTT-AAA-AATTAAAATTAATAA-AAT
*
12769098 AAATTAATTTAATTTAAAATAAATTTAATTTAAAAA-TAAAAATAATTAAAAAT
1 AAATTAA-TTAATTTAAAATAAATTTAATTTAAAAATTAAAATTAA-T-AAAAT
12769151 AAA
1 AAA
12769154 AATAATAAAG
Statistics
Matches: 94, Mismatches: 2, Indels: 25
0.78 0.02 0.21
Matches are distributed among these distances:
44 6 0.06
45 4 0.04
46 3 0.03
47 3 0.03
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
52 10 0.11
53 19 0.20
54 5 0.05
55 13 0.14
56 12 0.13
57 6 0.06
58 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (51 bp):
AAATTAATTAATTTAAAATAAATTTAATTTAAAAATTAAAATTAATAAAAT
Found at i:12769145 original size:56 final size:57
Alignment explanation
Indices: 12769039--12769156 Score: 140
Period size: 56 Copynumber: 2.1 Consensus size: 57
12769029 TAAAATTTAA
** *
12769039 AATAAA-TAATTAATTTTAAAAATAGAATTTAATTTAAAACAATTAAAATTAATAAT
1 AATAAATTAATTAATTTTAAAAATAGAATTTAATTTAAAACAAAAAAAATTAAAAAT
12769095 AATAAATTAATTTAA-TTT-AAAATA-AATTTAATTTAAAA-ATAAAAATAATTAAAAAT
1 AATAAATTAA-TTAATTTTAAAAATAGAATTTAATTTAAAACA-AAAAA-AATTAAAAAT
12769151 AA-AAAT
1 AATAAAT
12769157 AATAAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
54 1 0.02
55 21 0.38
56 23 0.42
57 6 0.11
58 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (57 bp):
AATAAATTAATTAATTTTAAAAATAGAATTTAATTTAAAACAAAAAAAATTAAAAAT
Found at i:12769207 original size:71 final size:73
Alignment explanation
Indices: 12769025--12769301 Score: 313
Period size: 71 Copynumber: 3.8 Consensus size: 73
12769015 AATTAATTAA
* *
12769025 TAATTAAAATTTAAAATAAATAATTAATTTTAAAAATAGAATTTAATTTAAAACAATTAAAATTA
1 TAATTAAAGTTTAAAATAAAT--TTAATTTAAAAAATAGAATTTAA-TT-AAACAA-TAAAATTA
*
12769090 AT-AATAATAAAT
61 ATAAAAAATAAAT
* ** *
12769102 TAATTTAA-TTTAAAATAAATTTAATTT-AAAAATA-AAAATAATTAAA-AATAAAAATAATAAA
1 TAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAGAATTTAATTAAACAATAAAATTAATAAA
12769163 GAAATAAAT
66 -AAATAAAT
12769172 TAATTAAAGTTTAAAAT-AATTTAATTTAAAAAATA-AATTTAATTAAACAATCAAAATTAATAA
1 TAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAGAATTTAATTAAACAAT-AAAATTAATAA
**
12769235 AAGGT-AAT
65 AAAATAAAT
*
12769243 TAATTAAAGTTTAAAATAAATTTAATTTTAAAAAATATAATTTAA-TAAA-AATAATAATT
1 TAATTAAAGTTTAAAATAAATTTAA-TTTAAAAAATAGAATTTAATTAAACAATAA-AATT
12769302 GAAGAATAAT
Statistics
Matches: 179, Mismatches: 11, Indels: 25
0.83 0.05 0.12
Matches are distributed among these distances:
68 9 0.05
69 4 0.02
70 27 0.15
71 49 0.27
72 24 0.13
73 33 0.18
74 14 0.08
76 12 0.07
77 7 0.04
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (73 bp):
TAATTAAAGTTTAAAATAAATTTAATTTAAAAAATAGAATTTAATTAAACAATAAAATTAATAAA
AAATAAAT
Found at i:12769589 original size:4 final size:4
Alignment explanation
Indices: 12769569--12769606 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
12769559 GGTAAATTTT
* *
12769569 TTTC TTTC CTTC CTTC TTTC TTTC TTT- TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
12769607 TAACACCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:12772129 original size:27 final size:27
Alignment explanation
Indices: 12772091--12772182 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
12772081 TTTTCTTAAT
*
12772091 GTTTTTGGATAACATAAAGAACTATAA
1 GTTTTTGAATAACATAAAGAACTATAA
* * *
12772118 GTTTTTGAATAACATAAAATCAAGTACTATG
1 GTTTTTGAATAACAT-AAA-GAACTA-TA-A
* *
12772149 GTTTTTGAATAACATAAAG-ATTATGA
1 GTTTTTGAATAACATAAAGAACTATAA
12772175 GTTTTTGA
1 GTTTTTGA
12772183 TTTTTTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
26 8 0.15
27 15 0.28
28 6 0.11
29 4 0.08
30 5 0.09
31 15 0.28
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAGAACTATAA
Found at i:12772178 original size:26 final size:27
Alignment explanation
Indices: 12772091--12772182 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 27
12772081 TTTTCTTAAT
* *
12772091 GTTTTTGGATAACATAAAGAACTATAA
1 GTTTTTGAATAACATAAAGAACTATGA
*
12772118 GTTTTTGAATAACATAAAATCAAGTACTATG-
1 GTTTTTGAATAACAT---A--AAGAACTATGA
*
12772149 GTTTTTGAATAACATAAAG-ATTATGA
1 GTTTTTGAATAACATAAAGAACTATGA
12772175 GTTTTTGA
1 GTTTTTGA
12772183 TTTTTTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
25 5 0.09
26 11 0.20
27 14 0.25
28 1 0.02
30 1 0.02
31 15 0.27
32 8 0.15
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
GTTTTTGAATAACATAAAGAACTATGA
Found at i:12772568 original size:21 final size:21
Alignment explanation
Indices: 12772527--12772587 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
12772517 TAATAATAAT
12772527 ATTATATTAAATTATTATTAA-A
1 ATTATATT-AATTA-TATTAAGA
*
12772549 CATTATAATAATTATATTAAGA
1 -ATTATATTAATTATATTAAGA
*
12772571 ATTTTATTAATTATATT
1 ATTATATTAATTATATT
12772588 TAATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 21 0.62
22 6 0.18
23 7 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATATTAATTATATTAAGA
Found at i:12773413 original size:23 final size:20
Alignment explanation
Indices: 12773379--12773442 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 20
12773369 AGAATAAGAC
*
12773379 AAAAAAATAGAAAAATAGAAA
1 AAAAAAAGAGAAAAAT-GAAA
*
12773400 AAAATAAGAGAGAAATAATGTAA
1 AAAA-AA-AGAGAAA-AATGAAA
*
12773423 AAGAAAAGAGAAAAATGAAA
1 AAAAAAAGAGAAAAATGAAA
12773443 GAATTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 6 0.17
21 11 0.31
22 4 0.11
23 12 0.33
24 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAAAAAGAGAAAAATGAAA
Found at i:12775696 original size:16 final size:16
Alignment explanation
Indices: 12775668--12775700 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12775658 TACACTCATG
12775668 TATATGTTTTATATTT
1 TATATGTTTTATATTT
12775684 TATA-GTTTATATATTT
1 TATATGTTT-TATATTT
12775700 T
1 T
12775701 CTTTGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TATATGTTTTATATTT
Found at i:12788088 original size:44 final size:42
Alignment explanation
Indices: 12787804--12788176 Score: 204
Period size: 44 Copynumber: 8.6 Consensus size: 42
12787794 GTTTATTATA
* * **
12787804 CAGG-TCTTATCTCCCTGAGAATACAGTGGAACAGACCAAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* *
12787845 AATTTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
1 -----CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * * * * *
12787891 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA-
1 -CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * * * * *
12787933 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAG
** **
12787974 CAGG-TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * *
12788015 AATTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 CA----GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* **
12788061 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 -CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
** * * *
12788105 ACACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-AAA-G
* * *
12788150 AAGGATCTTATCTCTCTGAGGTTACAG
1 CAGGATCTTATCTCCCTGAGATTACAG
12788177 CAGAGTAGAT
Statistics
Matches: 252, Mismatches: 56, Indels: 40
0.72 0.16 0.11
Matches are distributed among these distances:
38 1 0.00
39 24 0.10
40 3 0.01
41 29 0.12
42 6 0.02
43 31 0.12
44 88 0.35
45 3 0.01
46 66 0.26
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
Found at i:12788118 original size:87 final size:87
Alignment explanation
Indices: 12788027--12788188 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
12788017 TTTCGGATCT
* * * *
12788027 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
12788091 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * * *
12788114 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
12788179 GAGTAGATCG
66 GAGCAGATCG
12788189 CATCGAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:12788292 original size:218 final size:213
Alignment explanation
Indices: 12787851--12788292 Score: 473
Period size: 218 Copynumber: 2.0 Consensus size: 213
12787841 AAAGAATTTC
* * *
12787851 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
*
12787916 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
* * ** * * *
12787981 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGA-CGTATCTCCCTAAAGTTACAG
* ** *
12788046 TGGAGCAGATTGAAGCCAG
195 CGGAGCAGACAGAAGACAG
*
12788065 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-T
* * * *
12788128 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATC
* * * *
12788193 -GAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACAATAAGG-CGTGTCTCCCTA
125 AG-GTCTTATCTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-AATAAGGACGTATCTCCCTA
** * *
12788254 AAGTTGTAGCGGAGCGGACAGAAGATAG
186 AAGTTACAGCGGAGCAGACAGAAGACAG
*
12788282 TGATTCTTATC
1 AGA-TCTTATC
12788293 ATGTCTAATC
Statistics
Matches: 188, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
212 1 0.01
213 28 0.15
214 43 0.23
217 31 0.16
218 75 0.40
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (213 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGACGTATCTCCCTAAAGTTACAGC
GGAGCAGACAGAAGACAG
Found at i:12790326 original size:61 final size:57
Alignment explanation
Indices: 12790210--12790334 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 57
12790200 TTCTATGACT
**
12790210 CATATATATATATATGTATCTATATATATACTTTTTATATTTTATGATAGTTACATA
1 CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
* * *
12790267 CGTATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTACATA
1 CATATATATATATATGTAT-C-TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TACATA
12790328 CATATAT
1 CATATAT
12790335 TTTTTATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 16 0.29
58 5 0.09
59 11 0.20
60 3 0.05
61 21 0.38
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (57 bp):
CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
Found at i:12792146 original size:30 final size:30
Alignment explanation
Indices: 12792112--12792170 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12792102 TCCTTTTGCA
*
12792112 CCACCACCACCGCACTTA-TATGGTGCACCC
1 CCACCACCACCGC-CTTACTATGCTGCACCC
*
12792142 CCACCACCTCCGCCTTACTATGCTGCACC
1 CCACCACCACCGCCTTACTATGCTGCACC
12792171 TCCTCCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.20, C:0.49, G:0.12, T:0.19
Consensus pattern (30 bp):
CCACCACCACCGCCTTACTATGCTGCACCC
Found at i:12794521 original size:17 final size:17
Alignment explanation
Indices: 12794499--12794534 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12794489 GTAGTATGTA
12794499 GTGTCATTCACAACATT
1 GTGTCATTCACAACATT
12794516 GTGTCATTCACAACATT
1 GTGTCATTCACAACATT
12794533 GT
1 GT
12794535 AAGTCATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (17 bp):
GTGTCATTCACAACATT
Found at i:12797180 original size:22 final size:22
Alignment explanation
Indices: 12797138--12797180 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12797128 ATTGAAAAAA
*
12797138 ATATATTTATAATTGATATTTT
1 ATATATTTATAATTGAAATTTT
12797160 ATATATTTTATAATT-AAATTT
1 ATATA-TTTATAATTGAAATTT
12797181 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTTATAATTGAAATTTT
Found at i:12797611 original size:7 final size:7
Alignment explanation
Indices: 12797571--12797620 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
12797561 TGATTTTTTA
12797571 TTATATT
1 TTATATT
*
12797578 TTAGATT
1 TTATATT
*
12797585 TTATAAT
1 TTATATT
12797592 TT-T-TT
1 TTATATT
**
12797597 GAATATT
1 TTATATT
12797604 TTATATT
1 TTATATT
12797611 TTATATT
1 TTATATT
12797618 TTA
1 TTA
12797621 AATGTAAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
5 1 0.03
6 2 0.06
7 30 0.91
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (7 bp):
TTATATT
Found at i:12800170 original size:28 final size:28
Alignment explanation
Indices: 12800112--12800171 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
12800102 ATTAATTATT
**
12800112 AAAAAATATTTAAACATTTAAAATTTGAC
1 AAAAAATATTTAAACATTT-AAATTAAAC
*
12800141 AAAAAATATTTTAACATTT-AATTCAAAC
1 AAAAAATATTTAAACATTTAAATT-AAAC
12800169 AAA
1 AAA
12800172 TTTTTAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 5 0.19
29 18 0.67
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAAAATATTTAAACATTTAAATTAAAC
Found at i:12802186 original size:179 final size:179
Alignment explanation
Indices: 12801854--12802212 Score: 506
Period size: 179 Copynumber: 2.0 Consensus size: 179
12801844 AAATAATTAT
*
12801854 AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTTAATC
1 AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAATC
* * ** * *
12801919 TAATTTTTTTTAATAAAATATCGTACATATTGTATGTGTTATTATTAATTAATTTTAAACCTCAC
66 TAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTCAC
* * * *
12801984 GTTTTTATTGTTTATCATATGTTATATTCAAATGCACACATGTATTCTA
131 ATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
** *
12802033 AGTACATTTAGTATTTTTAATATGATGTATTTGCGTGTTT-AATTT-TTTTTACTAACAATTAAA
1 AGTACATTTAGTATACTTAAT-T-ATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAA
* * *
12802096 TCTAAATTTTTTTAACAAAATATTGTACATATTACACGTGTTATTATTAATTTATTTCAAACCTT
64 TCTAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTC
** *
12802161 ACATTTTAATTATTTATTGTATGTTATATTCAAATGTACACAAGTATTCTA
129 ACATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
12802212 A
1 A
12802213 ATATATGATT
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
179 137 0.87
180 6 0.04
181 15 0.09
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (179 bp):
AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAATC
TAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTCAC
ATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
Found at i:12806770 original size:21 final size:19
Alignment explanation
Indices: 12806746--12806786 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12806736 AAAAAAACTT
12806746 AATATAAATAAAATATATGAA
1 AATATAAAT--AATATATGAA
*
12806767 AATATTAATAATATATGAA
1 AATATAAATAATATATGAA
12806786 A
1 A
12806787 GTGTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATAAATAATATATGAA
Found at i:12808377 original size:44 final size:44
Alignment explanation
Indices: 12808325--12808740 Score: 219
Period size: 44 Copynumber: 9.5 Consensus size: 44
12808315 GCCTGTTTCC
*
12808325 CTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
** * *** * * * **
12808369 CTGTTGCTTAGGGAGATAA-GATCTATAATTTTTG-GCTTATTTCC-
1 CTACTGCTTAGGGAGATAAGGCTC-ACCGTCTTCGATC-T-GCTCCA
* *
12808413 CTACTGCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
* * ** * * * * *
12808457 CTACTGCTTAGGGAGATAAGATCTGTA-ATTTTTAG-CCTGTTTTC-
1 CTACTGCTTAGGGAGATAAG-GCT-CACCGTCTTCGATCTG-CTCCA
12808501 CTACTGCTTTAGGG-GATAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGC-TTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
* ** ***** * * *
12808545 CTATTGCTTAGGGAGATAAGATTTGTAAT-TTCCAGCTTGTTTCC-
1 CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATC-TG-CTCCA
* *
12808589 CTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
* * * * * *
12808633 CTACTGCTTAGGGAGATAA-GAT--CTGTAATTTCTAGCCTGTTTCC-
1 CTACTGCTTAGGGAGATAAGGCTCACCGT--CTTCGA-TCTG-CTCCA
* * *
12808677 CTATTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTACTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
12808721 CTACTGCTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAG
12808741 ATCTGTAATC
Statistics
Matches: 263, Mismatches: 83, Indels: 52
0.66 0.21 0.13
Matches are distributed among these distances:
41 4 0.02
42 1 0.00
43 38 0.14
44 178 0.68
45 37 0.14
46 2 0.01
47 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCA
Found at i:12808469 original size:88 final size:88
Alignment explanation
Indices: 12808304--12809227 Score: 1217
Period size: 88 Copynumber: 10.5 Consensus size: 88
12808294 GCTTATGATT
* *
12808304 TGTAATCTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
**
12808369 CTGTTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* ** * * * *
12808392 TATAATTTTTGGCTTATTTCCCTACTGCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
12808457 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * *
12808480 TGTAATTTTTAGCCTGTTTTCCTACTGCTTTA-GGGGATAAGGCTCACCGTCTTCGATCTGCTCC
1 TGTAATTTTCAGCCTGTTTCCCTACTGC-TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCC
* *
12808544 ACTATTGCTTAGGGAGATAAGATT
65 ACTACTGCTTAGGGAGATAAGATC
* * * *
12808568 TGTAATTTCCAGCTTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
12808633 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * *
12808656 TGTAA-TTTCTAGCCTGTTTCCCTATTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTACTCC
1 TGTAATTTTC-AGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCC
12808720 ACTACTGCTTAGGGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * *
12808744 TGTAATCTTCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACTGTTTTCGAT-TCGCTTC
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GCTCC
* *
12808808 ACTACTGCTCAGGGAGATAAGATA
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * * *
12808832 TGTAATCTTCAGCCTGTTTCCCTACTGTTTAGGAGGTTAAGGCTCACCGTTTTTGATCCGCTTCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
*
12808897 CTACTGCTTAGGGAAATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * *
12808920 TGTAATTTTCAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTTATCGCCTTCGAT-TCGCTCC
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GCTCC
* * *
12808984 ATTACTGCTCAGAGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * ** *
12809008 TGTAATCTTCAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTCACCGTTTTCGATCCACTTCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
* ***
12809073 CTACTACTTTTTGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * *
12809096 TGTAATTTCCAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTCACCATCTTCGATCTACTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
*
12809161 CTACTGCTTATGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
12809184 TGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGTGGTTAAGGCT
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCT
12809228 AGTGGAGGTT
Statistics
Matches: 738, Mismatches: 90, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
87 7 0.01
88 725 0.98
89 6 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (88 bp):
TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATC
Found at i:12808769 original size:44 final size:44
Alignment explanation
Indices: 12808373--12808864 Score: 148
Period size: 44 Copynumber: 11.2 Consensus size: 44
12808363 GCTCCACTGT
* * ** *
12808373 TGCTTAGGGAGATAAGATCTATAATTTTTGGCTTATTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTCCCTAC
* * * * **
12808417 TGCTTAGGGGGATAAG-GCT-TACCGTCTTC-GATCT-GCTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTATTTCC-CTAC
* * * *
12808461 TGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTTTCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTCCCTAC
* * * * ** *
12808505 TGCTTTAGGG-GATAAG-GCT-CACCGTCTTC-GATCT-GCTCCACTAT
1 TGC-TTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTATTTCC-CTAC
* * *
12808549 TGCTTAGGGAGATAAGATTTGTAAT-TTCCAGCTTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTT-CAGCCTATTTCCCTAC
* * ** * * **
12808593 TGCTTAGGGGGATAAGGCTCACT-GTCTTC-GATCT-GCTCCACTAC
1 TGCTTAGGGAGATAA-GATCTGTAATCTTCAG-CCTATTTCC-CTAC
* *
12808637 TGCTTAGGGAGATAAGATCTGTAAT-TTCTAGCCTGTTTCCCTAT
1 TGCTTAGGGAGATAAGATCTGTAATCTTC-AGCCTATTTCCCTAC
* * * * * *
12808681 TGCTTAGGGGGATAAG-GCT-CACCGTCTTC-GATCTA-CTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTATTTCC-CTAC
*
12808725 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTTCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTCCCTAC
* * * ** *
12808769 TGCTTAGGGGGTTAAGGCTCACTGTTTTCGATTC-G-C---TTCACTAC
1 TGCTTAGGGAGATAA-GAT--CTGTAATC--TTCAGCCTATTTCCCTAC
* * *
12808813 TGCTCAGGGAGATAAGATATGTAATCTTCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTCCCTAC
*
12808857 TGTTTAGG
1 TGCTTAGG
12808865 AGGTTAAGGC
Statistics
Matches: 314, Mismatches: 88, Indels: 92
0.64 0.18 0.19
Matches are distributed among these distances:
39 3 0.01
40 1 0.00
41 6 0.02
42 4 0.01
43 38 0.12
44 212 0.68
45 35 0.11
46 4 0.01
47 7 0.02
48 1 0.00
49 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (44 bp):
TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTCCCTAC
Found at i:12854795 original size:40 final size:39
Alignment explanation
Indices: 12854708--12855026 Score: 173
Period size: 40 Copynumber: 8.5 Consensus size: 39
12854698 AAGTGAGTCT
* *
12854708 AGCTCTAGTTGGATTAACC--A-ACAATA-TTTGTA-CCC
1 AGCTCTAGTTGGATAAACCGAAGATAATATTTTG-AGCCC
*
12854743 AG-TGCTAGTTGGATGAACCGAAGATAATGATTTTGAGCCC
1 AGCT-CTAGTTGGATAAACCGAAGATAAT-ATTTTGAGCCC
* * *
12854783 AGCTCTAGTTGGATTAA-C-TA-ACAATA-TTTGTA-CCC
1 AGCTCTAGTTGGATAAACCGAAGATAATATTTTG-AGCCC
*
12854818 AG-TGCTAGTTGGATGAACCGAAGATAATGATTTTGAGCCC
1 AGCT-CTAGTTGGATAAACCGAAGATAAT-ATTTTGAGCCC
* * *
12854858 AGCTCTAGTCGGATTAACC--A-ACAATA-TTTGCA-CCC
1 AGCTCTAGTTGGATAAACCGAAGATAATATTTTG-AGCCC
* * * *
12854893 AG-TGCTAGTCGGATAAATCGACGATAATGATTGTGAGCCC
1 AGCT-CTAGTTGGATAAACCGAAGATAAT-ATTTTGAGCCC
* *
12854933 AGCTCTAGTTGGATTAACC--A-ACAATA-TTTGCA-CCC
1 AGCTCTAGTTGGATAAACCGAAGATAATATTTTG-AGCCC
* * * * *
12854968 CG-TGCTAGTCGGATAAACCGACGATAGTAATTGTGAGCCC
1 AGCT-CTAGTTGGATAAACCGAAGATAAT-ATTTTGAGCCC
12855008 AGCTCTAGTTGGATAAACC
1 AGCTCTAGTTGGATAAACC
12855027 AACGATGTTT
Statistics
Matches: 218, Mismatches: 31, Indels: 65
0.69 0.10 0.21
Matches are distributed among these distances:
34 4 0.02
35 79 0.36
36 7 0.03
37 14 0.06
38 17 0.08
39 9 0.04
40 84 0.39
41 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (39 bp):
AGCTCTAGTTGGATAAACCGAAGATAATATTTTGAGCCC
Found at i:12854826 original size:35 final size:35
Alignment explanation
Indices: 12854712--12855051 Score: 206
Period size: 35 Copynumber: 9.1 Consensus size: 35
12854702 GAGTCTAGCT
12854712 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
1 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
* *
12854747 CTAGTTGGATGAACCGAAGATAATGATTT-TGAGCCCAGCT-
1 CTAGTTGGATTAACC--A-ACAAT-ATTTGT-A-CCCAG-TG
*
12854787 CTAGTTGGATTAACTAACAATATTTGTACCCAGTG
1 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
* *
12854822 CTAGTTGGATGAACCGAAGATAATGATTT-TGAGCCCAGCT-
1 CTAGTTGGATTAACC--A-ACAAT-ATTTGT-A-CCCAG-TG
* *
12854862 CTAGTCGGATTAACCAACAATATTTGCACCCAGTG
1 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
* * * * *
12854897 CTAGTCGGATAAATCGACGATAATGATTGTGAGCCCAGCT-
1 CTAGTTGGATTAACCAACAAT-AT--TTGT-A-CCCAG-TG
* *
12854937 CTAGTTGGATTAACCAACAATATTTGCACCCCGTG
1 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
* * * *
12854972 CTAGTCGGATAAACCGACGATAGTAATTGTGAGCCCAGCT-
1 CTAGTTGGATTAACCAAC-A-A-TATTTGT-A-CCCAG-TG
* * * *
12855012 CTAGTTGGATAAACCAACGATGTTTGCACCCAGTG
1 CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
12855047 CTAGT
1 CTAGT
12855052 CGAGTGTACC
Statistics
Matches: 237, Mismatches: 36, Indels: 64
0.70 0.11 0.19
Matches are distributed among these distances:
34 4 0.02
35 83 0.35
36 15 0.06
37 19 0.08
38 21 0.09
39 14 0.06
40 77 0.32
41 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (35 bp):
CTAGTTGGATTAACCAACAATATTTGTACCCAGTG
Found at i:12855105 original size:75 final size:75
Alignment explanation
Indices: 12854671--12855140 Score: 564
Period size: 75 Copynumber: 6.3 Consensus size: 75
12854661 TGCGCCTAGC
* * * * ** * *
12854671 GCTAATCGGATTAACCGACAAAAATGAAAGTGAGTCTAGCTCTAGTTGGATTAACCAACAATATT
1 GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
*
12854736 TGTACCCAGT
66 TGCACCCAGT
* * * *
12854746 GCTAGTTGGATGAACCGAAGATAATGATTTTGAGCCCAGCTCTAGTTGGATTAACTAACAATATT
1 GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
*
12854811 TGTACCCAGT
66 TGCACCCAGT
* * * *
12854821 GCTAGTTGGATGAACCGAAGATAATGATTTTGAGCCCAGCTCTAGTCGGATTAACCAACAATATT
1 GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
12854886 TGCACCCAGT
66 TGCACCCAGT
* *
12854896 GCTAGTCGGATAAATCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
1 GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
*
12854961 TGCACCCCGT
66 TGCACCCAGT
* * * * * *
12854971 GCTAGTCGGATAAACCGACGATAGTAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATGTT
1 GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
12855036 TGCACCCAGT
66 TGCACCCAGT
* * * * * ** *
12855046 GCTAGTC-GAGTGTACCGACGACAGTAATTGTGAGCCCAGCTCTAGTTGGATGAACCAACGGTAA
1 GCTAGTCGGA-TGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
* * *
12855110 TTACGCCCAGC
65 TTGCACCCAGT
* *
12855121 GCTAGTCGGATAAATCGACG
1 GCTAGTCGGATGAACCGACG
12855141 GTTGTACAAG
Statistics
Matches: 351, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
74 2 0.01
75 347 0.99
76 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (75 bp):
GCTAGTCGGATGAACCGACGATAATGATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATT
TGCACCCAGT
Found at i:12858207 original size:25 final size:25
Alignment explanation
Indices: 12858177--12858226 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12858167 TTTTCGGACT
12858177 GTTAGTGATGAATTATGGAATAAAA
1 GTTAGTGATGAATTATGGAATAAAA
12858202 GTTAGTGATGAATTATGGAATAAAA
1 GTTAGTGATGAATTATGGAATAAAA
12858227 TAATGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (25 bp):
GTTAGTGATGAATTATGGAATAAAA
Found at i:12862214 original size:6 final size:6
Alignment explanation
Indices: 12862203--12862254 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
12862193 TTCTTTCTAG
* * *
12862203 GCTTGA GCTTGA GCTTGA GCTTGA GCTTGG GCTT-A GGCTTGG GCTTGG
1 GCTTGA GCTTGA GCTTGA GCTTGA GCTTGA GCTTGA -GCTTGA GCTTGA
12862251 GCTT
1 GCTT
12862255 TAGTGAAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.10, C:0.17, G:0.38, T:0.35
Consensus pattern (6 bp):
GCTTGA
Found at i:12862226 original size:18 final size:18
Alignment explanation
Indices: 12862200--12862254 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
12862190 AACTTCTTTC
*
12862200 TAGGCTTGAGCTTGAGCT
1 TAGGCTTGAGCTTGGGCT
12862218 T-GAGCTTGAGCTTGGGCT
1 TAG-GCTTGAGCTTGGGCT
*
12862236 TAGGCTTGGGCTTGGGCT
1 TAGGCTTGAGCTTGGGCT
12862254 T
1 T
12862255 TAGTGAAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.11, C:0.16, G:0.38, T:0.35
Consensus pattern (18 bp):
TAGGCTTGAGCTTGGGCT
Found at i:12874941 original size:19 final size:19
Alignment explanation
Indices: 12874895--12874942 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
12874885 GTATATATTT
12874895 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
12874913 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
12874932 TAAGTTTTATT
1 TAAATTTTATT
12874943 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:12875004 original size:43 final size:43
Alignment explanation
Indices: 12874956--12875048 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
12874946 ATTCTAGAAA
*
12874956 TATTTT-TATTTTGTCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
12874999 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
12875042 TATTTTC
1 TATTTTC
12875049 CCAATTAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:12883952 original size:12 final size:12
Alignment explanation
Indices: 12883937--12883966 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12883927 ACAATAATAC
12883937 TATATATAAATG
1 TATATATAAATG
*
12883949 TATATATATATG
1 TATATATAAATG
12883961 TATATA
1 TATATA
12883967 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:12884090 original size:16 final size:17
Alignment explanation
Indices: 12884051--12884097 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
12884041 TAAAGTAATA
*
12884051 AAAAATA-ATACTATAT
1 AAAAATATATACTACAT
12884067 ATAAAATATATA-TACAT
1 A-AAAATATATACTACAT
*
12884084 AAAAATATACACTA
1 AAAAATATATACTA
12884098 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 13 0.50
18 3 0.12
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATATATACTACAT
Found at i:12884321 original size:3 final size:3
Alignment explanation
Indices: 12884308--12884389 Score: 50
Period size: 3 Copynumber: 27.0 Consensus size: 3
12884298 GAGAGGGCAT
12884308 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
*
12884352 ATA ATA ATA TATAA ATA ATA GTAA ATA ATA A-A ATA ATA
1 ATA ATA ATA -AT-A ATA ATA AT-A ATA ATA ATA ATA ATA
12884390 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
2 11 0.17
3 40 0.62
4 11 0.17
5 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:12884336 original size:18 final size:18
Alignment explanation
Indices: 12884313--12884389 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
12884303 GGCATATAAT
12884313 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* * *
12884331 ATAAT-ATATACATGAGAA
1 ATAATAATA-ATATAAAAA
*
12884349 ATAATAATAATAT-ATAA
1 ATAATAATAATATAAAAA
*
12884366 ATAATAGTAA-ATAATAAA
1 ATAATAATAATATAA-AAA
12884384 ATAATA
1 ATAATA
12884390 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 2 0.04
17 16 0.33
18 27 0.56
19 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:12884378 original size:24 final size:23
Alignment explanation
Indices: 12884308--12884382 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
12884298 GAGAGGGCAT
*
12884308 ATAATATA-ATAATAATATAAAAA
1 ATAATATATA-AATAATATAAATA
* *
12884331 ATAATATATACATGAGAAAT-AATA
1 ATAATATATAAAT-A-ATATAAATA
12884355 ATAATATATAAATAATAGTAAATA
1 ATAATATATAAATAATA-TAAATA
12884379 ATAA
1 ATAA
12884383 AATAATANNN
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.05
23 12 0.29
24 25 0.60
25 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAATATATAAATAATATAAATA
Found at i:12894508 original size:14 final size:14
Alignment explanation
Indices: 12894489--12894517 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12894479 TCTAAATAGG
12894489 ACTGTAGAAGCTGT
1 ACTGTAGAAGCTGT
12894503 ACTGTAGAAGCTGT
1 ACTGTAGAAGCTGT
12894517 A
1 A
12894518 TTTTCACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (14 bp):
ACTGTAGAAGCTGT
Found at i:12894790 original size:79 final size:78
Alignment explanation
Indices: 12894558--12894790 Score: 280
Period size: 79 Copynumber: 3.0 Consensus size: 78
12894548 CAATTCTCCA
* *
12894558 CATGGTATCAAATGTTTTTGGTTCTTTCCT---AAGTGTTTTTTTTCTGGTCAAATTCTTGCTTC
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTCTGGTCGAATTCTTGCTTC
**
12894620 TAGTGTT-TATTC
66 TCCTGTTCTATTC
* * * * *
12894632 CATGATATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCCGGTTGAAATCTTCCT
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTT-TTTT-CTGGTCGAATTCTTGCT
*
12894697 TCTCTTGTTC-ATTC
64 TCTCCTGTTCTATTC
* *
12894711 CATGGTATCAGATGTTTTTGGTTCCTTT-CTAAGAAGAGTTTTTTTTCTTGGTCGAGTTCTTGCT
1 CATGGTATCAGATGTTTTTGGTT-CTTTCCTAAGAAGTGTTTTTTTTC-TGGTCGAATTCTTGCT
12894775 TCTCCTGTTCTATTC
64 TCTCCTGTTCTATTC
12894790 C
1 C
12894791 CAAGTCCTTT
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
74 28 0.21
77 10 0.08
78 28 0.21
79 63 0.47
80 4 0.03
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (78 bp):
CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTTTTTCTGGTCGAATTCTTGCTTC
TCCTGTTCTATTC
Found at i:12899721 original size:32 final size:32
Alignment explanation
Indices: 12899673--12899734 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
12899663 ATGATTTGAT
12899673 TTGTATTAAACCAGAAGTCA-AGATAAGGAACA
1 TTGTATTAAACCAGAAGTCACA-ATAAGGAACA
* *
12899705 TTGTCTTAAACTAGAAGTCACAATAAGGAA
1 TTGTATTAAACCAGAAGTCACAATAAGGAA
12899735 ACACGGAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (32 bp):
TTGTATTAAACCAGAAGTCACAATAAGGAACA
Found at i:12918520 original size:20 final size:20
Alignment explanation
Indices: 12918495--12918532 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12918485 ATAGTGAGAA
12918495 TTTATTATCTAAGTATAAAT
1 TTTATTATCTAAGTATAAAT
* *
12918515 TTTATTTTCTGAGTATAA
1 TTTATTATCTAAGTATAA
12918533 TAATTCTACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTATTATCTAAGTATAAAT
Found at i:12919219 original size:29 final size:28
Alignment explanation
Indices: 12919177--12919235 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
12919167 ATATTATGTT
12919177 ATAAAAATATTATAT-TAATTATATATTAA
1 ATAAAAATATTATATAT-ATT-TATATTAA
12919206 ATAATAAAT-TTATATATATTTATATTAA
1 ATAA-AAATATTATATATATTTATATTAA
12919234 AT
1 AT
12919236 CACTAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 10 0.36
29 13 0.46
30 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAAAAATATTATATATATTTATATTAA
Found at i:12919242 original size:29 final size:30
Alignment explanation
Indices: 12919177--12919235 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
12919167 ATATTATGTT
12919177 ATAA-AAATATTATATTAATTATATATTAA
1 ATAATAAATATTATATTAATTATATATTAA
12919206 ATAATAAAT-TTATA-TATATT-TATATTAA
1 ATAATAAATATTATATTA-ATTATATATTAA
12919234 AT
1 AT
12919236 CACTAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 12 0.43
29 12 0.43
30 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATAATAAATATTATATTAATTATATATTAA
Found at i:12925955 original size:3 final size:3
Alignment explanation
Indices: 12925947--12926085 Score: 80
Period size: 3 Copynumber: 48.3 Consensus size: 3
12925937 GGGGAGAGTG
* * *
12925947 TTA TTA TTA TTA TTA -TA TTA TT- TTA TT- TTA TTA CTG TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
12925992 TT- TTA -TA TATA TTTA TTA CCA TCA TTTA TT- TT- TTA TTA TTA TTA
1 TTA TTA TTA T-TA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* ** * * *
12926036 GTA ACA -TA TTG TTA TTT TTA TTA TT- TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12926082 TTA T
1 TTA T
12926086 CATTGTACTA
Statistics
Matches: 105, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
2 17 0.16
3 81 0.77
4 6 0.06
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12928855 original size:11 final size:11
Alignment explanation
Indices: 12928839--12928864 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12928829 CTAGCAATGC
12928839 TTTGTTAAAAA
1 TTTGTTAAAAA
12928850 TTTGTTAAAAA
1 TTTGTTAAAAA
12928861 TTTG
1 TTTG
12928865 CATTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (11 bp):
TTTGTTAAAAA
Found at i:12930927 original size:49 final size:49
Alignment explanation
Indices: 12930874--12930979 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 49
12930864 TATTTCAGTG
***
12930874 TTCTACC-ATACCAGATAGCCCAACAATGATGGTATCCATTACCCAAACA
1 TTCTACCAAT-CCAGATAGCCCAACAATGATAAAATCCATTACCCAAACA
* * * * *
12930923 TTCTACCAATCTAGATGGCCTATCAATGATAAAATCCATTACCTAAACA
1 TTCTACCAATCCAGATAGCCCAACAATGATAAAATCCATTACCCAAACA
12930972 TTCTACCA
1 TTCTACCA
12930980 CCTTGGATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 46 0.96
50 2 0.04
ACGTcount: A:0.37, C:0.28, G:0.08, T:0.26
Consensus pattern (49 bp):
TTCTACCAATCCAGATAGCCCAACAATGATAAAATCCATTACCCAAACA
Found at i:12931807 original size:32 final size:32
Alignment explanation
Indices: 12931771--12931836 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
12931761 ATCAAACCTT
12931771 ATCAAAATTTCATTAATTAAACAAATTGGTAC
1 ATCAAAATTTCATTAATTAAACAAATTGGTAC
12931803 ATCAAAATTTCATTAATTAAACAAATTGGTAC
1 ATCAAAATTTCATTAATTAAACAAATTGGTAC
12931835 AT
1 AT
12931837 GGGCTAGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (32 bp):
ATCAAAATTTCATTAATTAAACAAATTGGTAC
Found at i:12932712 original size:15 final size:16
Alignment explanation
Indices: 12932677--12932714 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12932667 ATGTGCATAG
12932677 AAGTAAATAACATGCA
1 AAGTAAATAACATGCA
* *
12932693 AAGTAAATAGCTTG-A
1 AAGTAAATAACATGCA
12932708 AAGTAAA
1 AAGTAAA
12932715 ATGAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (16 bp):
AAGTAAATAACATGCA
Found at i:12934780 original size:20 final size:19
Alignment explanation
Indices: 12934752--12934790 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12934742 TTTTAAAAAA
* *
12934752 AATATTTTTTATACATTTTT
1 AATAATTTTAATA-ATTTTT
12934772 AATAATTTTAATAATTTTT
1 AATAATTTTAATAATTTTT
12934791 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
AATAATTTTAATAATTTTT
Found at i:12934817 original size:19 final size:17
Alignment explanation
Indices: 12934754--12934814 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
12934744 TTAAAAAAAA
*
12934754 TATTTTTTATACATTTTT
1 TATTTTTAATA-ATTTTT
*
12934772 AATAATTTTAATAATTTTT
1 --TATTTTTAATAATTTTT
12934791 TATTTTTAA-AATATTTT
1 TATTTTTAATAAT-TTTT
12934808 TATTTTT
1 TATTTTT
12934815 TTAGCTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.08
17 19 0.51
19 6 0.16
20 9 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTAATAATTTTT
Found at i:12944100 original size:22 final size:22
Alignment explanation
Indices: 12944072--12944129 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12944062 GAATATTCTG
*
12944072 TGATATGCTCCGATATGATATA
1 TGATATGCTCCGATATGAAATA
* *
12944094 TGTTATG-TCTTGATATGAAATA
1 TGATATGCTC-CGATATGAAATA
12944116 TGATATGCTCCGAT
1 TGATATGCTCCGAT
12944130 GAGGGATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (22 bp):
TGATATGCTCCGATATGAAATA
Found at i:12947356 original size:17 final size:16
Alignment explanation
Indices: 12947301--12947356 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
12947291 CCTAGCTTTC
*
12947301 TCTTTTTC-TTTTCTT
1 TCTTTTTCATTCTCTT
* *
12947316 TCCTTTTTCCTTCTGTT
1 T-CTTTTTCATTCTCTT
*
12947333 TCGTTTTCGATTCTCTT
1 TCTTTTTC-ATTCTCTT
12947350 TCTTTTT
1 TCTTTTT
12947357 TTCTATTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 18 0.56
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.70
Consensus pattern (16 bp):
TCTTTTTCATTCTCTT
Found at i:12947382 original size:5 final size:5
Alignment explanation
Indices: 12947372--12947428 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
12947362 TTCATTTTAT
12947372 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
12947422 TAATA TA
1 TAATA TA
12947429 CTTAACATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:12956993 original size:57 final size:56
Alignment explanation
Indices: 12956932--12957067 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 56
12956922 TGTTTTTCAG
**
12956932 ATTTTACAGTTTTCCCCTATTTTTTAGATTTTATTATTT-TACC-CTTATTTTTTAAAA
1 ATTTTACAGTTTTCCCCTATTTTTTAGATTTTACAATTTCT-CCTC-TA-TTTTTAAAA
* *
12956989 ATTTTATAGTTTTGCCCCT-TTTTTTAGATTTTACAATTTCTCCTCTATTTTTCAAA
1 ATTTTACAGTTTT-CCCCTATTTTTTAGATTTTACAATTTCTCCTCTATTTTTAAAA
*
12957045 A-TTTACAATTTTTCCCCTATTTT
1 ATTTTAC-AGTTTTCCCCTATTTT
12957068 CAAATTTTGC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
55 9 0.13
56 18 0.26
57 34 0.50
58 7 0.10
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.57
Consensus pattern (56 bp):
ATTTTACAGTTTTCCCCTATTTTTTAGATTTTACAATTTCTCCTCTATTTTTAAAA
Done.