Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 187 of 297
Found at i:63249556 original size:27 final size:27
Alignment explanation
Indices: 63249484--63249598 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 27
63249474 CTCGATTTAC
** ** **
63249484 AAAATTACTGAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
63249511 AAAATTACAAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
63249538 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
63249565 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
63249592 GAAATTA
1 AAAATTA
63249599 TTGAAATACT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:63249669 original size:27 final size:27
Alignment explanation
Indices: 63249636--63249841 Score: 247
Period size: 27 Copynumber: 7.6 Consensus size: 27
63249626 CGAAAACTCC
*
63249636 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* *
63249663 TGCAGGGTAGAATTACTGAAATAACCC-
1 TGTAGGGTAGAATTACCGAAAT-ACCCT
*
63249690 TGTAGGGTAGAATTACCGAAGTACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* *
63249717 TGTAGGGTAGAATTACTGAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCT
63249744 TGTAGGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* *
63249771 TGTAGGGTAGAAATACCAAAATA-CCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* * * *
63249797 CTATAGGGTAGAAGTACCGAGATACCGT
1 -TGTAGGGTAGAATTACCGAAATACCCT
*
63249825 TGT-GGCGTAAAATTACC
1 TGTAGG-GTAGAATTACC
63249842 ATTTTGCCTC
Statistics
Matches: 153, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 9 0.06
27 138 0.90
28 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCT
Found at i:63249698 original size:54 final size:54
Alignment explanation
Indices: 63249634--63249840 Score: 274
Period size: 54 Copynumber: 3.8 Consensus size: 54
63249624 ATCGAAAACT
* *
63249634 CCTGTAGGGTAGAATTACCAAAATACCCTTGCAGGGTAGAATTACTGAAATAAC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAAC
* *
63249688 CCTGTAGGGTAGAATTACCGAAGTACCCTTGTAGGGTAGAATTACTGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAAC
* **
63249742 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAAT-AC
1 CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAAC
* * * * *
63249795 CTCTATAGGGTAGAAGTACCGAGATACCGTTGT-GGCGTAAAATTAC
1 C-CTGTAGGGTAGAATTACCGAAATACCCTTGTAGG-GTAGAATTAC
63249841 CATTTTGCCT
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 4 0.03
54 132 0.97
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (54 bp):
CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATAAC
Found at i:63250115 original size:24 final size:25
Alignment explanation
Indices: 63250044--63250113 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
63250034 AGGAAGTACT
* * * *
63250044 AAAAGCGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
63250069 AAAAGGGCTTTGCCCAAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
63250094 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
63250114 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:63250126 original size:24 final size:24
Alignment explanation
Indices: 63250054--63250140 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
63250044 AAAAGCGCTA
*
63250054 TGCCCCAGTTTACCGAAAAG-GGCTT
1 TGCCCCAG-TTATC-AAAAGAGGCTT
*
63250079 TGCCCAAGTTTATCAAAA-AGGGCTT
1 TGCCCCAG-TTATCAAAAGA-GGCTT
* *
63250104 TGCCCCAGTTATTAAAAGAGGCTA
1 TGCCCCAGTTATCAAAAGAGGCTT
*
63250128 GGCCTCCAGTTAT
1 TGCC-CCAGTTAT
63250141 ATGATAAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 19 0.37
25 33 0.63
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAGAGGCTT
Found at i:63251513 original size:45 final size:44
Alignment explanation
Indices: 63251446--63251658 Score: 188
Period size: 43 Copynumber: 4.9 Consensus size: 44
63251436 CGTCATTCAG
* * *
63251446 ATATGTGTTTTCGTGTATGACCATGTCTGGGAAATTGGCATCGAT
1 ATATGTG-TTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *
63251491 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTG-TTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
* **
63251536 ATATG-GTTACGA-GTAAGACCATGTCTGGGACATCAGCATCG-T
1 ATATGTGTTTC-ATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
63251578 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGTGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
* *** *
63251620 ATGA-G-ATAGAATGTAAGACCACGTCTGGGACATTGGCAT
1 AT-ATGTGTTTCATGTAAGACCATGTCTGGGACATTGGCAT
63251659 TGTATGATAT
Statistics
Matches: 135, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
41 29 0.21
42 6 0.04
43 53 0.39
44 2 0.01
45 45 0.33
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (44 bp):
ATATGTGTTTCATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:63251604 original size:41 final size:43
Alignment explanation
Indices: 63251457--63251621 Score: 122
Period size: 45 Copynumber: 3.8 Consensus size: 43
63251447 TATGTGTTTT
* * * ** * *
63251457 CGTGTATGACCATGTCTGGGAAATTGGCATCGATATATGTGTTTT
1 CGTGTAAGACCCTGTCTGGGACATCAGCATCGATATA--TGATTA
* * ** *
63251502 CATGTAAGACCAC-GTCTGGGACGTTGGCATCGATATATGGTTA
1 CGTGTAAGACC-CTGTCTGGGACATCAGCATCGATATATGATTA
* * *
63251545 CGAGTAAGACCATGTCTGGGACATCAGCATCG-TATTTGATT-
1 CGTGTAAGACCCTGTCTGGGACATCAGCATCGATATATGATTA
*
63251586 CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGATAT
1 CGTGTAAGACCCTGTCTGGGACA-TCAGCATCGATAT
63251622 GAGATAGAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 27 0.28
42 11 0.11
43 29 0.30
45 31 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCCTGTCTGGGACATCAGCATCGATATATGATTA
Found at i:63252393 original size:19 final size:19
Alignment explanation
Indices: 63252343--63252387 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
63252333 CATGTGAATT
63252343 ATGGTTGATTATAATGCTA
1 ATGGTTGATTATAATGCTA
63252362 ATGGTTGATTATAATGCTA
1 ATGGTTGATTATAATGCTA
63252381 ATGGTTG
1 ATGGTTG
63252388 TATATACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.42
Consensus pattern (19 bp):
ATGGTTGATTATAATGCTA
Found at i:63253428 original size:52 final size:51
Alignment explanation
Indices: 63253351--63253453 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 51
63253341 GCATCTGAAC
*
63253351 AGGAATAAATGAGCGGACTTGGTCAACCGAACTGTAGAACCTCTTTGCACG
1 AGGAATAAATGAGCGGACTTGGTCAACCGAACCGTAGAACCTCTTTGCACG
63253402 AGGAATAAAATGAGCGGACTTGGTCAACCGAACCGTAGAACCTCTTTGCACG
1 AGGAAT-AAATGAGCGGACTTGGTCAACCGAACCGTAGAACCTCTTTGCACG
63253454 GAGTAACCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 6 0.12
52 44 0.88
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (51 bp):
AGGAATAAATGAGCGGACTTGGTCAACCGAACCGTAGAACCTCTTTGCACG
Found at i:63255704 original size:27 final size:27
Alignment explanation
Indices: 63255673--63255850 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
63255663 TAAATTGTAC
63255673 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
63255700 TGCACTAAGTGTGCGAAGTGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63255726 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
63255754 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
63255782 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63255809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
63255836 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63255851 GATTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:63255787 original size:82 final size:81
Alignment explanation
Indices: 63255674--63255829 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63255664 AAATTGTACA
* *
63255674 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAGTGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTA-GCACTAAGTG
63255738 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
63255755 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTAGCACTAAGTG
*
63255820 TGCGAGTTGA
65 TGCGAATTGA
63255830 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:63255841 original size:82 final size:81
Alignment explanation
Indices: 63255670--63255850 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
63255660 GATTAAATTG
* *
63255670 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAGTGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAA
63255735 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
63255751 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGAT-GCACT
* **
63255815 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
63255833 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
63255851 GATTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:63263740 original size:28 final size:27
Alignment explanation
Indices: 63263683--63263834 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
63263673 TAAATTGTGC
* *
63263683 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
63263710 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
63263738 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
63263765 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
63263793 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
63263820 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63263835 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:63263748 original size:55 final size:55
Alignment explanation
Indices: 63263683--63263834 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
63263673 TAAATTGTGC
* *
63263683 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
63263738 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
63263793 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
63263835 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:63267278 original size:24 final size:24
Alignment explanation
Indices: 63267246--63267300 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
63267236 TTTTTGGTTT
*
63267246 TATTTCCCTTTATTGCCAATTTGC
1 TATTTCCCTTTATTGCCAATTTGA
* **
63267270 TATTTCCCTTTGTTGCTGATTTGA
1 TATTTCCCTTTATTGCCAATTTGA
63267294 TATTTCC
1 TATTTCC
63267301 TGTTCCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.53
Consensus pattern (24 bp):
TATTTCCCTTTATTGCCAATTTGA
Found at i:63269458 original size:28 final size:27
Alignment explanation
Indices: 63269367--63269460 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 27
63269357 AACTAGGCTT
* * *
63269367 TAGCCCATATCAATATTAATCTGGGCC
1 TAGCCCATATCAGTATCAATATGGGCC
*
63269394 ATAGCCCCT-TACAGTATCAGAGTATATTGGGCC
1 -TAGCCCATAT-CAGTATC--A--ATA-TGGGCC
63269427 TAGCCCATATCAGTATCAATATGGGCC
1 TAGCCCATATCAGTATCAATATGGGCC
63269454 GTAGCCC
1 -TAGCCC
63269461 TATTACAAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
27 7 0.13
28 21 0.40
30 2 0.04
32 16 0.30
33 7 0.13
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (27 bp):
TAGCCCATATCAGTATCAATATGGGCC
Found at i:63269480 original size:60 final size:59
Alignment explanation
Indices: 63269367--63269496 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 59
63269357 AACTAGGCTT
* * *
63269367 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAATATCAATATGGGCCATAGCCCATTACAG-ATCAGAGTATATTGGGCC
* *
63269427 TAGCCCATATCAGTATCAATATGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTGGGCC
1 TAGCCCATATCAATATCAATATGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTGGGCC
* *
63269487 TTGGCCATAT
1 TAGCCCATAT
63269497 TAACATAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.07
60 51 0.85
61 5 0.08
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (59 bp):
TAGCCCATATCAATATCAATATGGGCCATAGCCCATTACAGATCAGAGTATATTGGGCC
Found at i:63277361 original size:27 final size:26
Alignment explanation
Indices: 63277331--63277506 Score: 147
Period size: 27 Copynumber: 6.5 Consensus size: 26
63277321 AATTGTACAG
*
63277331 CACTAAGTGTGCGATTTGACTACGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
* * *
63277358 CACTAAGTGTGCGAAATGGA-TATGATG
1 CACTAAGTGTGCG-ATTTGACTATG-TA
* * **
63277385 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
63277412 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
63277439 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
63277466 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
63277493 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
63277507 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.04
27 95 0.75
28 26 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:63277470 original size:82 final size:81
Alignment explanation
Indices: 63277330--63277485 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 81
63277320 AAATTGTACA
*
63277330 GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
63277395 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
63277411 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAA
1 GCACTAAGTGTGCGA-TTTGACTACGTTA-CACTAAGTGTGCGAAATGGA-TACGAT-GCACTAA
*
63277473 GTGTGCGAGTTGA
62 GTGTGCGAATTGA
63277486 TTATATAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
81 22 0.33
82 44 0.67
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:63277497 original size:82 final size:81
Alignment explanation
Indices: 63277326--63277506 Score: 206
Period size: 82 Copynumber: 2.2 Consensus size: 81
63277316 GATTAAATTG
*
63277326 TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAA
63277391 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
63277407 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCG-ATTTGATTACG-TAGCA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTA-CACTAAGTGTGCGAAATGGA-TACGAT-GCA
* **
63277469 CTAAGTGTGCGAGTTGATTA
62 CTAAGTGTGCGAATTGACCA
* *
63277489 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
63277507 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
81 24 0.29
82 59 0.71
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:63277517 original size:27 final size:27
Alignment explanation
Indices: 63277411--63277517 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
63277401 TGACCATGCG
* * * *
63277411 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
63277439 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
63277466 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
63277493 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
63277518 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:63281759 original size:55 final size:54
Alignment explanation
Indices: 63281672--63281926 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
63281662 ATTAGGGTTT
* *
63281672 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
63281727 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTAATATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGC
* *
63281783 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
63281835 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
63281884 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
63281927 GTACCTATGT
Statistics
Matches: 170, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 9 0.05
53 35 0.21
54 16 0.09
55 66 0.39
56 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:63281878 original size:108 final size:110
Alignment explanation
Indices: 63281682--63281879 Score: 330
Period size: 108 Copynumber: 1.8 Consensus size: 110
63281672 AAGGATACCG
63281682 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
63281747 TGTCAAGACATGGCATTGATAAGTTAATATAAGGGAAAGGTCCTA
66 TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
*
63281792 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGACC
* *
63281854 ATGTCGAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
63281880 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 7 0.08
110 24 0.29
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
Found at i:63287514 original size:13 final size:13
Alignment explanation
Indices: 63287496--63287525 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
63287486 AGGGTCTTAC
63287496 TCGAAAACACATA
1 TCGAAAACACATA
*
63287509 TCGAAATCACATA
1 TCGAAAACACATA
63287522 TCGA
1 TCGA
63287526 TGCCAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.20
Consensus pattern (13 bp):
TCGAAAACACATA
Found at i:63287738 original size:43 final size:43
Alignment explanation
Indices: 63287513--63287740 Score: 294
Period size: 43 Copynumber: 5.3 Consensus size: 43
63287503 CACATATCGA
* * *** * *
63287513 AATCACATATCGATGCCAACATATTAAACGTGGTCTTACTCTT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * * *
63287556 AATCACATATCGATGCCAACATCCCAAACGTGGTTTTACACGT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
63287599 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
*
63287642 AATCACATATTGATGCCAACGTCCCAAACGTTGTCTTACACAT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
63287685 AATCACATATTGATGCCAATGTCCCAAACGTAGTCGTACACAT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
63287728 AATCACATATTGA
1 AATCACATATTGA
63287741 AAATCCTATG
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 169 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
Found at i:63295540 original size:10 final size:10
Alignment explanation
Indices: 63295525--63295558 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
63295515 TGTGGGCTTA
63295525 GGCCACTTTG
1 GGCCACTTTG
63295535 GGCCACTTTG
1 GGCCACTTTG
63295545 GGCCACTTTG
1 GGCCACTTTG
63295555 GGCC
1 GGCC
63295559 GTGTGGGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.09, C:0.32, G:0.32, T:0.26
Consensus pattern (10 bp):
GGCCACTTTG
Found at i:63298799 original size:6 final size:6
Alignment explanation
Indices: 63298788--63298926 Score: 117
Period size: 6 Copynumber: 22.8 Consensus size: 6
63298778 AACCAAAATG
* *
63298788 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* * *
63298836 AGAATA AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
63298885 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
63298927 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.06
6 92 0.84
7 7 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:63298864 original size:55 final size:55
Alignment explanation
Indices: 63298799--63298926 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 55
63298789 GAATCAGAAT
* * *
63298799 CAGAATCAGAATCA-ATATTAGTAACAGAATCAGAATTAGAATAAGAATTAGGTGA
1 CAGAATCAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
*
63298854 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
63298909 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
63298927 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (55 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
Found at i:63299081 original size:27 final size:26
Alignment explanation
Indices: 63299044--63299109 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
63299034 AGCATGGCTG
*
63299044 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* * *
63299070 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
63299097 CCAGAATCAGATA
1 CCAGAA-CAGATA
63299110 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:63299124 original size:27 final size:27
Alignment explanation
Indices: 63299068--63299125 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
63299058 GTGACAGAGT
* ** *
63299068 CACCAGATACAGATATTGTGGCTGAGC
1 CACCAGATACAGATAATGTGGCAAACC
63299095 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
63299122 CACC
1 CACC
63299126 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:63299507 original size:27 final size:26
Alignment explanation
Indices: 63299428--63299510 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
63299418 TCGATCGGTC
* * *
63299428 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
63299454 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
63299481 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
63299508 AAC
1 AAC
63299511 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:63299771 original size:27 final size:27
Alignment explanation
Indices: 63299709--63299905 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
63299699 GGGGCAAAAT
* * * * *
63299709 GGTAATTTTACCCCACAAGGGAATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63299736 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
63299763 GGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63299790 GATAATTCTACCCTACAGGGGTATTTTT
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
63299818 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63299845 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63299872 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63299899 AGTAATT
1 GGTAATT
63299906 TCACAATCAA
Statistics
Matches: 139, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 118 0.85
28 21 0.15
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:63299833 original size:82 final size:82
Alignment explanation
Indices: 63299737--63299897 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
63299727 GGGAATCTCA
* * *
63299737 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATCTC-GATAATTCTAC
1 GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGA-AATTCTAC
63299801 CCTACAGGGGTATTTTTG
65 CCTACAGGGGTATTTTTG
* * * *
63299819 GTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACC
1 GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGAAATTCTACC
63299884 CTACAGGGGTATTT
66 CTACAGGGGTATTT
63299898 CAGTAATTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
82 69 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (82 bp):
GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGAAATTCTACC
CTACAGGGGTATTTTTG
Found at i:63299940 original size:27 final size:27
Alignment explanation
Indices: 63299910--63300544 Score: 667
Period size: 27 Copynumber: 23.5 Consensus size: 27
63299900 GTAATTTCAC
* *
63299910 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63299937 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
63299964 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
63299991 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
63300018 AATCGAGGGTAAAACGGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300045 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300072 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
63300099 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300126 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
63300153 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
63300180 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
63300207 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
63300234 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
63300261 AAGT-GAGAGTAAACCAGTAATTCTGTA
1 AA-TCGAGGGTAAAACGGTAATTCTGTA
* * **
63300288 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300315 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
63300342 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
63300369 AA-CTGAATGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
63300396 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
63300423 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
63300450 AATCGAGGGTAAAACGGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300477 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
63300504 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
63300531 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
63300545 TAGGAATACT
Statistics
Matches: 516, Mismatches: 76, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 11 0.02
27 494 0.96
28 11 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:63305254 original size:11 final size:11
Alignment explanation
Indices: 63305238--63305263 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
63305228 CCTATTTAGA
63305238 TATGAAAAATG
1 TATGAAAAATG
63305249 TATGAAAAATG
1 TATGAAAAATG
63305260 TATG
1 TATG
63305264 TTTGATTGTG
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:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (11 bp):
TATGAAAAATG
Found at i:63309763 original size:31 final size:28
Alignment explanation
Indices: 63309689--63309763 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
63309679 TAAAGAGATT
* *
63309689 TTTGACAAAAATGTTAATTAGGGATTAA
1 TTTGAGAAAAATGTAAATTAGGGATTAA
*
63309717 TTTGAGAAAAATGTAAATTGAGGGGGTTAA
1 TTTGAGAAAAATGTAAATT-A-GGGATTAA
63309747 TTATGA-AATAAATGTAA
1 TT-TGAGAA-AAATGTAA
63309764 GTTTTGGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 17 0.43
29 1 0.03
30 11 0.28
31 11 0.28
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.33
Consensus pattern (28 bp):
TTTGAGAAAAATGTAAATTAGGGATTAA
Found at i:63312859 original size:101 final size:101
Alignment explanation
Indices: 63312659--63312899 Score: 288
Period size: 101 Copynumber: 2.4 Consensus size: 101
63312649 ATGTATATAA
* * * *
63312659 GGCATTGACATGTGAATTCTGATATGTGATGTGTGAGTAAGACCATGGCATCGATGTGCGATTCC
1 GGCATCGATATGTG-ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCC
* * * *
63312724 TATATATGTGCGCGAGTAAGACCATGTTTAATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
* *
63312761 GGCATCGATATGTGATTCTGATATGTGATGTGCGTGTAAGACCATGGCATCGATATGTGACTT-C
1 GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGA-TTCC
* * * *
63312825 GATAGATCTGTGTGAGTAAGTCCACGTTTTATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
* * * *
63312862 GACATCGATATGTGATTCCGATATATG-TGTGCTAGTAA
1 GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAA
63312900 AACCCTATCT
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
100 9 0.08
101 96 0.81
102 14 0.12
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (101 bp):
GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCCG
ATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
Found at i:63320890 original size:27 final size:26
Alignment explanation
Indices: 63320842--63320901 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
63320832 GCGAGGCTGC
*
63320842 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
63320869 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
63320895 CAGATAT
1 CAGATAT
63320902 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:63320946 original size:71 final size:67
Alignment explanation
Indices: 63320869--63321010 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
63320859 TCACCAGATA
* * *
63320869 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
63320934 GGCTGC
62 GGCTGC
* *
63320940 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
63321005 GC
66 GC
63321007 CAGA
1 CAGA
63321011 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:63320988 original size:27 final size:26
Alignment explanation
Indices: 63320940--63320991 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
63320930 GCGAGGCTGC
*
63320940 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
63320966 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
63320992 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:63321618 original size:26 final size:27
Alignment explanation
Indices: 63321589--63321642 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
63321579 TCACACAAGT
*
63321589 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
63321615 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
63321642 T
1 T
63321643 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:63321673 original size:27 final size:27
Alignment explanation
Indices: 63321643--63321815 Score: 265
Period size: 27 Copynumber: 6.4 Consensus size: 27
63321633 GGGGCAAAAT
* * * *
63321643 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63321670 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
63321697 AGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63321724 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63321751 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63321778 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63321805 GGTAATTCTAC
1 GGTAATTCTAC
63321816 AACTTATCCA
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:63340668 original size:38 final size:38
Alignment explanation
Indices: 63340603--63340797 Score: 273
Period size: 38 Copynumber: 5.1 Consensus size: 38
63340593 AAAGGCCTGA
* * * *
63340603 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
63340641 ATATAATACCAGCACGAAGCCTACGGGATTTAACCTGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
63340679 ATATATTACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
63340717 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
63340755 ATGTATTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
63340795 ATA
1 ATA
63340798 CACATCAAAT
Statistics
Matches: 140, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 129 0.92
39 5 0.04
40 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:63345883 original size:33 final size:34
Alignment explanation
Indices: 63345805--63345893 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
63345795 TAACAGCCCA
* * * * *
63345805 GGCCTGAGCCCTATTCAGTAATCAATATAGTTTG
1 GGCCTTAGCCCTATACAGTAATCAATACAATCTG
* * *
63345839 GGCCTTGGCCCTATGCAGTAA-CAGTACAATCTG
1 GGCCTTAGCCCTATACAGTAATCAATACAATCTG
63345872 GGCCTTAGCCCTATACAGTAAT
1 GGCCTTAGCCCTATACAGTAAT
63345894 AGTGTACCAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 27 0.60
34 18 0.40
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (34 bp):
GGCCTTAGCCCTATACAGTAATCAATACAATCTG
Found at i:63366696 original size:33 final size:34
Alignment explanation
Indices: 63366623--63366702 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
63366613 TGGGCCTAAA
* * * *
63366623 CCCTATTCAGTAATCAATACAGTCTGGGCCTTGG
1 CCCTATACAGTAATCAATACAATCTAGGCCTTAG
* *
63366657 CCCTATACAGTAAT-AGTACAATCTAGGCTTTAG
1 CCCTATACAGTAATCAATACAATCTAGGCCTTAG
*
63366690 CCCTATATAGTAA
1 CCCTATACAGTAA
63366703 CAGTGTAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 26 0.67
34 13 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (34 bp):
CCCTATACAGTAATCAATACAATCTAGGCCTTAG
Found at i:63385687 original size:19 final size:20
Alignment explanation
Indices: 63385650--63385687 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63385640 ATAAGGTGGT
63385650 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
63385670 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
63385688 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:63387927 original size:52 final size:52
Alignment explanation
Indices: 63387849--63387952 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
63387839 TGCAGCCAGT
63387849 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTGGTAGAAATC
1 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTGGTAGAAATC
*
63387901 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCGGTGTGGTAGAAATC
1 GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTGGTAGAAATC
63387953 ATTTTGGTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (52 bp):
GTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTGGTAGAAATC
Found at i:63392945 original size:46 final size:46
Alignment explanation
Indices: 63392895--63393067 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
63392885 TGGTTGAGCA
*
63392895 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
63392941 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
63392988 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
63393034 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
63393068 CGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:63393051 original size:93 final size:93
Alignment explanation
Indices: 63392892--63393062 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
63392882 GGATGGTTGA
* * *
63392892 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
63392957 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
63392985 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
63393050 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
63393063 ACTTACGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63393327 original size:19 final size:20
Alignment explanation
Indices: 63393292--63393329 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63393282 ATAAGGTGGT
63393292 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
63393312 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
63393330 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:63401093 original size:37 final size:37
Alignment explanation
Indices: 63401043--63401121 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
63401033 TTATTACGAA
* * *
63401043 GTCTTACCCGGACATAATCTCCACACG-ACGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTA-GTCATCGG
63401080 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
63401117 GTCTT
1 GTCTT
63401122 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:63401326 original size:22 final size:23
Alignment explanation
Indices: 63401296--63401376 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
63401286 TACACTTTCA
63401296 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
63401319 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
63401343 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
63401366 CATT-ATCACAT
1 CATTCATCACAT
63401377 ATATACACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:63401350 original size:47 final size:47
Alignment explanation
Indices: 63401239--63401409 Score: 297
Period size: 47 Copynumber: 3.6 Consensus size: 47
63401229 GCCCTTCGGG
**
63401239 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCAC--ATATATAC
63401289 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
63401336 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
63401383 ACTTTCACATTCATCACATCGGCCATT
1 ACTTTCACATTCATCACATCGGCCATT
63401410 TGGCCATACT
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 82 0.69
49 33 0.28
50 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
Found at i:63401352 original size:25 final size:24
Alignment explanation
Indices: 63401319--63401401 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
63401309 GGCCATTAGG
63401319 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
**** ***
63401343 CATTCATCACAT-CGGCCA-TTAGG
1 CATT-ATCACATATATACACTTTCA
63401366 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
63401390 CATTCATCACAT
1 CATT-ATCACAT
63401402 CGGCCATTTG
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 12 0.29
25 14 0.34
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (24 bp):
CATTATCACATATATACACTTTCA
Found at i:63405751 original size:50 final size:46
Alignment explanation
Indices: 63405680--63405795 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 46
63405670 TGTTTTCGAC
** * *
63405680 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCC----ATATATCTAAT
* * *
63405730 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTAAT
63405776 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
63405796 TCTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 29 0.50
50 29 0.50
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTAAT
Found at i:63409322 original size:36 final size:36
Alignment explanation
Indices: 63409280--63409366 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
63409270 GGGGGTAAAG
63409280 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
1 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
*
63409316 TTGTAACACCCCAAATTTTAAATAATTATTTTTTTA
1 TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
63409352 TTGTAACACCCCAAA
1 TTGTAACACCCCAAA
63409367 CTCGGCCTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (36 bp):
TTGTAACACCCCAAATTTTAAATAATTATTTTTGTA
Found at i:63416387 original size:49 final size:49
Alignment explanation
Indices: 63416331--63416937 Score: 1027
Period size: 49 Copynumber: 12.6 Consensus size: 49
63416321 TATTTGAATA
*
63416331 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416380 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416429 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416478 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416527 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416576 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416625 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
63416674 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
63416723 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
63416770 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
63416817 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
63416864 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
63416911 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
63416938 TCCCGAAGGG
Statistics
Matches: 542, Mismatches: 14, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
47 185 0.34
48 1 0.00
49 356 0.66
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:63422667 original size:25 final size:26
Alignment explanation
Indices: 63422639--63422695 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
63422629 AACATGTCAT
*
63422639 GTCATAATA-TCATAGGGGTATATCA
1 GTCATAATACTCATAGGGGTATACCA
** *
63422664 GTCATTTTACCTCGTAGGGGTATACCA
1 GTCATAATA-CTCATAGGGGTATACCA
63422691 GTCAT
1 GTCAT
63422696 TTCATCAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
27 19 0.73
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (26 bp):
GTCATAATACTCATAGGGGTATACCA
Found at i:63426793 original size:20 final size:20
Alignment explanation
Indices: 63426768--63426836 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
63426758 AATCGAGGTC
* *
63426768 ATCAATGCACTATCAAGGCT
1 ATCAATGCACTGTCGAGGCT
*
63426788 ATCAATGCACTGTCGAGGCC
1 ATCAATGCACTGTCGAGGCT
*
63426808 ATGAATGCACTGTCGAGGCT
1 ATCAATGCACTGTCGAGGCT
63426828 ATCAATGCA
1 ATCAATGCA
63426837 TTTTCTCAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCAATGCACTGTCGAGGCT
Found at i:63426815 original size:40 final size:40
Alignment explanation
Indices: 63426760--63426836 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
63426750 GCTCCCCGAA
*
63426760 TCGAGGTCATCAATGCACTATCAAGGCTATCAATGCACTG
1 TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCACTG
* * *
63426800 TCGAGGCCATGAATGCACTGTCGAGGCTATCAATGCA
1 TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCA
63426837 TTTTCTCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
TCGAGGCCATCAATGCACTATCAAGGCTATCAATGCACTG
Found at i:63428146 original size:23 final size:23
Alignment explanation
Indices: 63428116--63428187 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
63428106 TACATAAAAT
*
63428116 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
63428139 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
63428162 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
63428185 TTA
1 TTA
63428188 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:63428204 original size:35 final size:31
Alignment explanation
Indices: 63428127--63428209 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 31
63428117 TATTATACTA
*
63428127 TTTTA-TATTTTATTATTATATTATTTTACAC
1 TTTTATTATGTTATT-TTATATTATTTTACAC
*
63428158 TTTAATATATGTTATTTTATATTATTATTACATC
1 TTTTAT-TATGTTATTTTATATTATT-TTACA-C
63428192 ATATTTATTATG-TATTTT
1 -T-TTTATTATGTTATTTT
63428210 TGTATATCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
31 4 0.09
32 10 0.23
33 13 0.30
34 7 0.16
35 5 0.12
36 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTATTATGTTATTTTATATTATTTTACAC
Found at i:63434821 original size:100 final size:101
Alignment explanation
Indices: 63434624--63434823 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 101
63434614 CACTTGTAGC
* * * * *
63434624 CGAAGCTATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACACGTGGCCTACCCATCTGATA
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
* *
63434689 CTCATAGTAGCCTGCACTTAGTACTACACACGTGAT
66 CACATAGTAGCCTACACTTAGTACTACACACGTGAT
* * * ** *
63434725 CGAAGTTATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGA-TTATCTGGTA
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
*
63434789 CACGTAGTAGCCTACACTTAGTACTACACACGTGA
66 CACATAGTAGCCTACACTTAGTACTACACACGTGA
63434824 CCTCACAATA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 39 0.46
101 46 0.54
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (101 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCGACCCATCTGATA
CACATAGTAGCCTACACTTAGTACTACACACGTGAT
Found at i:63435507 original size:30 final size:30
Alignment explanation
Indices: 63435473--63435532 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
63435463 CTTTAATACG
63435473 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
63435503 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
63435533 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:63436826 original size:50 final size:50
Alignment explanation
Indices: 63436772--63436871 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
63436762 TTAAAAGCCA
**
63436772 ATTTTGCTCATCTTCGGGTACATGGACGTGTATACCAAGGGAGACTCCAT
1 ATTTTGCTCATCTTCGGCAACATGGACGTGTATACCAAGGGAGACTCCAT
**
63436822 ATTTTGCTCATCTTCTTCAACATGGACGTGTATACCAAGGGAGACTCCAT
1 ATTTTGCTCATCTTCGGCAACATGGACGTGTATACCAAGGGAGACTCCAT
63436872 GGCTAGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (50 bp):
ATTTTGCTCATCTTCGGCAACATGGACGTGTATACCAAGGGAGACTCCAT
Found at i:63438097 original size:68 final size:67
Alignment explanation
Indices: 63438025--63438174 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
63438015 CATCATGTGT
* * * *
63438025 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
63438087 ATGTAG
62 ATGTAG
** * *
63438093 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
63438158 AG
66 AG
63438160 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
63438175 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:63438130 original size:64 final size:64
Alignment explanation
Indices: 63438049--63438232 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
63438039 AGACATTATG
* *
63438049 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
63438113 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
63438178 AA
63 AA
* * * *
63438180 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
63438233 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:63442208 original size:101 final size:99
Alignment explanation
Indices: 63442033--63442265 Score: 313
Period size: 101 Copynumber: 2.3 Consensus size: 99
63442023 CTGGTACGCA
* * * *
63442033 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGATACACATAGTAGCCTGCACTTA
* *
63442098 GTACTACACATGTGGCCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* * *
63442132 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGATACACATAGTAGCCTGCACT
** * *
63442197 TAGTACTACACATGCGACCTAATTATCTGGTACATG
64 TAGTACTACACATGCGACCTAACCATCTGATACACG
* *
63442233 TAGTAGCCTACACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
63442266 TCACAATAGC
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 29 0.25
100 4 0.03
101 83 0.72
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGATACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:63442266 original size:50 final size:50
Alignment explanation
Indices: 63442033--63442266 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
63442023 CTGGTACGCA
* *
63442033 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCTGATACACG
* **
63442082 TAGTAGCCTGCACTTAGTACTACACATGTGGCCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCTGATACACG
* * * * * * *
63442132 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-TTATCTGATACACG
* * *
63442183 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCTGATACACG
* * *
63442233 TAGTAGCCTACACTTAGTACTATACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
63442267 CACAATAGCT
Statistics
Matches: 156, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
49 31 0.20
50 85 0.54
51 40 0.26
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCTGATACACG
Found at i:63442947 original size:30 final size:30
Alignment explanation
Indices: 63442913--63442972 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
63442903 CTTTAATACG
63442913 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
63442943 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
63442973 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:63451049 original size:206 final size:205
Alignment explanation
Indices: 63450591--63451137 Score: 871
Period size: 206 Copynumber: 2.7 Consensus size: 205
63450581 GGCTGAGGCA
63450591 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
63450656 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * ** * ** *
63450721 ACAAAGTTTGGTGTCTCATATTCGATGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGTTT
131 TCGAAGTTTGGCGTCTCATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCTT
*
63450786 ATACTGAAGC
196 AGACTGAAGC
* * *
63450796 AGGTCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAAGGCATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
63450861 TTTCACGTGCTTACGATGAAGCAAATTTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
63450926 TCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAAACACATAGCAGATCTAACCTTCAGATGCT
131 TCGAAGTTTGGCGTCT-CATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCT
63450991 TAGACTGAAGC
195 TAGACTGAAGC
* * *
63451002 AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
** *
63451067 TTTCGTGTGCTTAC-ACTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
66 TTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
63451131 ATCGAAG
130 ATCGAAG
63451138 AAGAAGATGT
Statistics
Matches: 314, Mismatches: 26, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
205 139 0.44
206 175 0.56
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGCGTCTCATATTCGACAGAGAGCAAACACATAGCAGATCTAACCTTCAGATGCTT
AGACTGAAGC
Found at i:63451157 original size:43 final size:44
Alignment explanation
Indices: 63451095--63451182 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
63451085 AAGTAAATCT
* * *
63451095 AAGATGATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAG
1 AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
* * * *
63451138 AAGAAGATGTGGCGTCTCTGTGTTCGACAGAGAGCAGATCGAAG
1 AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
63451182 A
1 A
63451183 TATCAACATG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 20 0.54
44 17 0.46
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (44 bp):
AAGAAGATGTGGCATCTCTGTATTCGACAGAGAACAAATCGAAG
Found at i:63451699 original size:20 final size:20
Alignment explanation
Indices: 63451674--63451727 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
63451664 CCCCGAATCG
63451674 AGGCCATCAATGCACTGTCA
1 AGGCCATCAATGCACTGTCA
* *
63451694 AGGCCATCAATTCACTGTCG
1 AGGCCATCAATGCACTGTCA
63451714 AGGCCATCAATGCA
1 AGGCCATCAATGCA
63451728 TTTTCTCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (20 bp):
AGGCCATCAATGCACTGTCA
Found at i:63452982 original size:5 final size:5
Alignment explanation
Indices: 63452966--63453083 Score: 55
Period size: 5 Copynumber: 23.6 Consensus size: 5
63452956 ATTATTTACC
* * * * *
63452966 TATAT CTATAT TATAT TTTAT TACAT GATAT T-TAT TATAC TATTT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * * *
63453016 TTTA- T-TAT TATAT TATTT TACACT TAAAT ATATGT TATTT TATAT TATTAT
1 TATAT TATAT TATAT TATAT TATA-T TATAT -TATAT TATAT TATAT TA-TAT
* *
63453067 TACAT CATAT T-TAT TAT
1 TATAT TATAT TATAT TAT
63453084 GTATTTTCGT
Statistics
Matches: 82, Mismatches: 23, Indels: 15
0.68 0.19 0.12
Matches are distributed among these distances:
3 2 0.02
4 10 0.12
5 53 0.65
6 17 0.21
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:63453001 original size:24 final size:25
Alignment explanation
Indices: 63452944--63453009 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
63452934 AAAAAAACTT
*
63452944 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
63452968 TATCTATATTATATT-TTA-TTACATGA
1 TAT-T-TATTATATTATTATTTACAT-A
*
63452994 TATTTATTATACTATT
1 TATTTATTATATTATT
63453010 TTATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 9 0.26
27 6 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:63453085 original size:35 final size:32
Alignment explanation
Indices: 63453009--63453090 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
63452999 ATTATACTAT
* *
63453009 TTTATATTTTATTATTATATTATTTTACACTTA
1 TTTATATGTTATT-TTATATTATTTTACACATA
**
63453042 AATATATGTTATTTTATATTATTATTACATCATA
1 TTTATATGTTATTTTATATTATT-TTACA-CATA
63453076 TTTATTATG-TATTTT
1 TTTA-TATGTTATTTT
63453091 CGTATATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 10 0.25
33 15 0.38
34 11 0.28
35 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTATATGTTATTTTATATTATTTTACACATA
Found at i:63454996 original size:15 final size:16
Alignment explanation
Indices: 63454976--63455008 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63454966 ATGGACTTCT
63454976 TTATTA-AATTTTAAA
1 TTATTAGAATTTTAAA
*
63454991 TTATTAGTATTTTAAA
1 TTATTAGAATTTTAAA
63455007 TT
1 TT
63455009 GGGTATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATTAGAATTTTAAA
Found at i:63457697 original size:24 final size:24
Alignment explanation
Indices: 63457665--63457711 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
63457655 TGGGCCGAAN
63457665 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63457689 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63457712 GCACTTCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63457783 original size:9 final size:9
Alignment explanation
Indices: 63457769--63457825 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63457759 ATCTCGTGTG
63457769 CATATCATA
1 CATATCATA
*
63457778 CATATCATGTG
1 CATATCA--TA
63457789 CATATCATA
1 CATATCATA
* *
63457798 CATGTCATGTG
1 CATATCA--TA
63457809 CATATCATA
1 CATATCATA
63457818 CATATCAT
1 CATATCAT
63457826 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:63457788 original size:20 final size:20
Alignment explanation
Indices: 63457765--63457827 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
63457755 GAACATCTCG
63457765 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
63457785 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
63457805 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
63457825 TGT
1 TGT
63457828 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:63457892 original size:25 final size:25
Alignment explanation
Indices: 63457864--63457911 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63457854 ATATATAAAC
* * *
63457864 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63457889 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63457912 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63460233 original size:112 final size:112
Alignment explanation
Indices: 63460036--63460261 Score: 443
Period size: 112 Copynumber: 2.0 Consensus size: 112
63460026 AAAATAAGGG
63460036 AAAATTTACCTAGAGCAATTCGGCATTCATCTTTAGCTATTAGGAGGTAAGCTTTGAATTTGTTG
1 AAAATTTACCTAGAGCAATTCGGCATTCATCTTTAGCTATTAGGAGGTAAGCTTTGAATTTGTTG
63460101 ATTTGGTTTTATAATATGCTAAGTTAAATTGTGGATGCACTCTTGGT
66 ATTTGGTTTTATAATATGCTAAGTTAAATTGTGGATGCACTCTTGGT
*
63460148 AAAATTTGCCTAGAGCAATTCGGCATTCATCTTTAGCTATTAGGAGGTAAGCTTTGAATTTGTTG
1 AAAATTTACCTAGAGCAATTCGGCATTCATCTTTAGCTATTAGGAGGTAAGCTTTGAATTTGTTG
63460213 ATTTGGTTTTATAATATGCTAAGTTAAATTGTGGATGCACTCTTGGT
66 ATTTGGTTTTATAATATGCTAAGTTAAATTGTGGATGCACTCTTGGT
63460260 AA
1 AA
63460262 TGTCAAGAAA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (112 bp):
AAAATTTACCTAGAGCAATTCGGCATTCATCTTTAGCTATTAGGAGGTAAGCTTTGAATTTGTTG
ATTTGGTTTTATAATATGCTAAGTTAAATTGTGGATGCACTCTTGGT
Found at i:63472856 original size:40 final size:40
Alignment explanation
Indices: 63472744--63472880 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
63472734 CAGTTATTTG
* *
63472744 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
** *
63472784 TGGCACTTAGCATGCGATTCAACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
* * * * * *
63472824 TGGCACTTAGTGTGTGATTTGAGATAGTTTTGGCTATGTT
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
63472864 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
63472881 GATATCGAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
Found at i:63482060 original size:42 final size:43
Alignment explanation
Indices: 63481957--63482074 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
63481947 TTATGTGGAA
*
63481957 AAATGCCACTATAGAACATGACCTTTAGCGGCACTTTTCCCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * **
63482000 AAATGCCACTAACGAACATGACCTCTAGCGGTGC-TTTCCTCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCC-CAC
*
63482043 AAATGCC-GTAAAGAACATGACCTTTAGCGGCA
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCA
63482075 TTTGTGGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.39
43 39 0.61
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
Found at i:63489167 original size:27 final size:27
Alignment explanation
Indices: 63489136--63489193 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
63489126 ACAATCATAC
63489136 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
*
63489163 ATCACATAGGGGCATAATAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
63489190 ATCA
1 ATCA
63489194 ATTAAGGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAGTCATTTT
Found at i:63502973 original size:28 final size:28
Alignment explanation
Indices: 63502912--63503567 Score: 1287
Period size: 28 Copynumber: 23.5 Consensus size: 28
63502902 ATTAAGTCCA
* *
63502912 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63502939 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63502967 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63502995 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503023 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503051 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503079 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503107 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503135 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503163 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503191 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503219 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503247 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503275 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503303 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503331 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503359 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503387 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503415 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503443 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503471 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503499 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503527 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
63503555 CACACTTAGTGCT
1 CACACTTAGTGCT
63503568 GTACAATTTA
Statistics
Matches: 626, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
27 19 0.03
28 607 0.97
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (28 bp):
CACACTTAGTGCTACATAATCAAACTCG
Found at i:63508886 original size:51 final size:51
Alignment explanation
Indices: 63508762--63508981 Score: 263
Period size: 51 Copynumber: 4.4 Consensus size: 51
63508752 ACTAGTGACT
*
63508762 CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* * *
63508811 CAAGTGTGGTACCATGTGAAGGCCAGTTTATGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * * * *
63508863 CAAGTGTAGTACTATGTG-AGGCCATTTTGTGAAGAAGGTAGCTTTGATTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
63508913 CAAG-GATGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTG-TGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
63508964 CAAG-GATGGTACTATGTG
1 CAAGTG-TGGTACTATGTG
63508982 CAGGTCACCG
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
49 32 0.21
50 28 0.19
51 66 0.44
52 23 0.15
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:63508967 original size:101 final size:101
Alignment explanation
Indices: 63508757--63508981 Score: 264
Period size: 101 Copynumber: 2.2 Consensus size: 101
63508747 ACGTCACTAG
*
63508757 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGGTCACAAGTGTGGT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGATCACAAGTGTGGT
*
63508821 ACCATGTGAAGGCCAGTTTATGAAGAAAGATAGCTT
66 ACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
* * * * * *
63508857 TG-GTCACAAGTGTAGTACTATGTG-AGGCCATTTTGTGAAGAAGGTAGCTTTGATTACAAG-GA
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAG-AGATAGC-TTGATCACAAGTG-
* * *
63508919 TGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
62 TGGTACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
63508958 TGACTACAAG-GATGGTACTATGTG
1 TGACTACAAGTG-TGGTACTATGTG
63508982 CAGGTCACCG
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
99 1 0.01
100 17 0.16
101 51 0.49
102 36 0.34
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (101 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGGGAAGAGATAGCTTGATCACAAGTGTGGT
ACCATGTGAAGGCCACTTTATGAAGAAAGATAGCTT
Found at i:63523767 original size:40 final size:40
Alignment explanation
Indices: 63523723--63523984 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
63523713 GCTCCTCGTT
* *
63523723 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
63523763 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63523803 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63523842 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63523881 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
63523920 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
63523961 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63523985 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:63530349 original size:20 final size:20
Alignment explanation
Indices: 63530324--63530368 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
63530314 CATTAATTAT
*
63530324 ATTTTATTAAATGGAAA-TAA
1 ATTTTAATAAAT-GAAACTAA
*
63530344 ATTTTAATACATGAAACTAA
1 ATTTTAATAAATGAAACTAA
63530364 ATTTT
1 ATTTT
63530369 TAAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTTAATAAATGAAACTAA
Found at i:63531957 original size:14 final size:14
Alignment explanation
Indices: 63531939--63531969 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
63531929 GTATTTTAGA
63531939 ATTTTTTA-TTTTT
1 ATTTTTTACTTTTT
63531952 ATTTTTTACTTTTT
1 ATTTTTTACTTTTT
63531966 ATTT
1 ATTT
63531970 AATAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTTACTTTTT
Found at i:63533603 original size:50 final size:50
Alignment explanation
Indices: 63533495--63533678 Score: 235
Period size: 50 Copynumber: 3.7 Consensus size: 50
63533485 CTGGTACGCA
* * *
63533495 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* ** * *
63533544 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* * * * *
63533594 TAGTTGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCAGGTACACG
63533645 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
63533679 TACAATAGAT
Statistics
Matches: 113, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 30 0.27
50 44 0.39
51 39 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
Found at i:63533661 original size:101 final size:99
Alignment explanation
Indices: 63533495--63533678 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 99
63533485 CTGGTACGCA
* * * * *
63533495 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGTACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
63533560 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
63533594 TAGTTGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATCAGGTACACATAGTAGCCTGCACT
63533659 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
63533679 TACAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:63535449 original size:18 final size:20
Alignment explanation
Indices: 63535412--63535453 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
63535402 TCATTGTTTC
63535412 AAAATCAATTGATTTACAGA
1 AAAATCAATTGATTTACAGA
*
63535432 AAAATCAA-T-ATTTTCAGA
1 AAAATCAATTGATTTACAGA
63535450 AAAA
1 AAAA
63535454 ATGTTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 1 0.05
20 8 0.38
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAATCAATTGATTTACAGA
Found at i:63536024 original size:20 final size:20
Alignment explanation
Indices: 63535991--63536033 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
63535981 TACCTGCAAG
63535991 AAAACAAAAGGGAC-AACAAC
1 AAAACAAAAGGGACGAA-AAC
63536011 AAAA-AAAAGAGGACGAAAAC
1 AAAACAAAAG-GGACGAAAAC
63536031 AAA
1 AAA
63536034 TTGTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
20 14 0.67
21 2 0.10
ACGTcount: A:0.70, C:0.14, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAACAAAAGGGACGAAAAC
Found at i:63537221 original size:23 final size:22
Alignment explanation
Indices: 63537158--63537237 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
63537148 CTCTATACTT
*
63537158 TATTATTTTTTATACATGTTATTTA
1 TATTATTTTTTA-A-AT-TTATGTA
*
63537183 TATTAATTTTTAAATTTATGTA
1 TATTATTTTTTAAATTTATGTA
* *
63537205 TATTATTTGTTTAAATTAATGCA
1 TATTATTT-TTTAAATTTATGTA
63537228 TATTATTTTT
1 TATTATTTTT
63537238 GCATATTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.31
23 22 0.45
24 1 0.02
25 11 0.22
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTATTTTTTAAATTTATGTA
Found at i:63539389 original size:19 final size:19
Alignment explanation
Indices: 63539367--63539406 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
63539357 ATTTTATGTA
63539367 AAGGAATTTATTTTCTAGG
1 AAGGAATTTATTTTCTAGG
*
63539386 AAGGAATTTGTTTTCTAGG
1 AAGGAATTTATTTTCTAGG
63539405 AA
1 AA
63539407 AGTTGTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.40
Consensus pattern (19 bp):
AAGGAATTTATTTTCTAGG
Found at i:63542231 original size:12 final size:11
Alignment explanation
Indices: 63542179--63542234 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
63542169 AAAGGCAACC
63542179 AAAAAGAAAAA
1 AAAAAGAAAAA
* *
63542190 TAAAAGTACAAA
1 AAAAAG-AAAAA
* *
63542202 AAACA-AAGAA
1 AAAAAGAAAAA
63542212 AAAAAGAAAAA
1 AAAAAGAAAAA
63542223 AAAAGAGAAAAA
1 AAAA-AGAAAAA
63542235 CAGTAAAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
10 7 0.21
11 13 0.38
12 14 0.41
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:63542242 original size:20 final size:20
Alignment explanation
Indices: 63542179--63542247 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
63542169 AAAGGCAACC
*
63542179 AAAAAGAAAAATAAAAGTACAA
1 AAAAAGAGAAA-AAAAGTA-AA
* *
63542201 AAAACAAAGAAAAAAAGAAAA
1 AAAA-AGAGAAAAAAAGTAAA
*
63542222 AAAAAGAGAAAAACAGTAAA
1 AAAAAGAGAAAAAAAGTAAA
*
63542242 ACAAAG
1 AAAAAG
63542248 GTCATAGTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 18 0.46
21 6 0.15
22 10 0.26
23 5 0.13
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.04
Consensus pattern (20 bp):
AAAAAGAGAAAAAAAGTAAA
Found at i:63544418 original size:226 final size:226
Alignment explanation
Indices: 63544105--63544581 Score: 819
Period size: 226 Copynumber: 2.1 Consensus size: 226
63544095 GATAGCGAAT
63544105 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
* *
63544170 AATTGCAGTAGAGCAGATCATAGTAAGCCCTATCTCTCTAAAGTTGCAGTGGAACAGGTTAAAAT
66 AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
*
63544235 GACAGGTCTTATTTCCCTGAAGTTGTAGTGGAGCAGACCAAAAACGGCAAATCTTATCTCCATGT
131 GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGCAAATCTTATCTCCATGT
63544300 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
196 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
*
63544331 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTATCTCTTTGA
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
* * * * * *
63544396 AGTTGCAGTAGAGCATATCATAGCAAGCCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT
66 AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
* * *
63544461 GACAGGTCTTATTTCCCTGAGGTTGCAGTGGAGTAGACCAAAGACGGCAAATCTTATCTCCATGT
131 GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGCAAATCTTATCTCCATGT
63544526 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
196 ATCGGCAATGGAGCAGATTTAAGCCATAAGC
* *
63544557 CTTATCTCCCTAAAGTTGCAGTGGA
1 CTTATTTCCCTGAAGTTGCAGTGGA
63544582 GCAGGCTCAA
Statistics
Matches: 236, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
226 236 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (226 bp):
CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTTTGA
AATTGCAGTAGAGCAGATCATAGCAAGCCCTATCTCCCTAAAGTTGCAGTGGAACAGGTTAAAAT
GACAGGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAAACGGCAAATCTTATCTCCATGT
ATCGGCAATGGAGCAGATTTAAGCCATAAGC
Found at i:63544817 original size:44 final size:45
Alignment explanation
Indices: 63544734--63544827 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
63544724 AGCCACTAGC
*** *
63544734 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGACGATTGTAG-T
1 CTTATCTCTCTAAGGTAGCAAGAGAGCAGACCGAAGATTGTAGAT
*
63544778 CTTATCTTTCTAAGGTAGCAAG-GAAGCAGACCGAAGATTGTAGAT
1 CTTATCTCTCTAAGGTAGCAAGAG-AGCAGACCGAAGATTGTAGAT
63544823 CTTAT
1 CTTAT
63544828 TTCCCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 36 0.84
45 6 0.14
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAGCAAGAGAGCAGACCGAAGATTGTAGAT
Found at i:63545468 original size:17 final size:16
Alignment explanation
Indices: 63545448--63545488 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
63545438 TTTTCAAAGG
63545448 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
63545465 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
63545481 CCCAAATT
1 CCCAAATT
63545489 GACCAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Found at i:63547362 original size:10 final size:10
Alignment explanation
Indices: 63547344--63547410 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
63547334 TTTACATACA
63547344 TATTATATAT
1 TATTATATAT
*
63547354 TATTCTATAT
1 TATTATATAT
*
63547364 TATTATGTCAT
1 TATTATAT-AT
* *
63547375 T-TTGTATAC
1 TATTATATAT
63547384 TATTATATAT
1 TATTATATAT
* *
63547394 TTTTATCTAT
1 TATTATATAT
63547404 ATATTAT
1 -TATTAT
63547411 CATTATTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 2 0.05
10 33 0.77
11 8 0.19
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTATATAT
Found at i:63547369 original size:20 final size:19
Alignment explanation
Indices: 63547339--63547407 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
63547329 TTATTTTTAC
63547339 ATACATATTATATATTATTCT
1 ATAC-TATTATATATT-TTCT
* * *
63547360 ATATTATTATGTCATTTTGT
1 ATACTATTATAT-ATTTTCT
63547380 ATACTATTATATATTTT-T
1 ATACTATTATATATTTTCT
63547398 AT-CTA-TATAT
1 ATACTATTATAT
63547408 TATCATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 3 0.07
19 5 0.12
20 20 0.48
21 6 0.14
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (19 bp):
ATACTATTATATATTTTCT
Found at i:63549848 original size:22 final size:25
Alignment explanation
Indices: 63549805--63549855 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
63549795 TTTTATACTT
* *
63549805 TATTATTTTTTATACATGTTATTTA
1 TATTAATTTTTATACATGTTATGTA
63549830 TATTAATTTTT-TA-AT-TTATGTA
1 TATTAATTTTTATACATGTTATGTA
63549852 TATT
1 TATT
63549856 CTTTGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 2 0.08
25 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTAATTTTTATACATGTTATGTA
Found at i:63565334 original size:69 final size:69
Alignment explanation
Indices: 63565221--63565794 Score: 318
Period size: 69 Copynumber: 8.3 Consensus size: 69
63565211 AGATAATCAG
* * * * *** *
63565221 TTGAGAGCTTTGCTCTTGTTAACTATATTGGAGTCTATGGCTCTTCACCTGCTAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
63565286 ATAC
66 ATAC
* * ** * * *
63565290 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGTTGCAACTCTTTGCTTACAAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
* *
63565355 GTAG
66 ATAC
* * *** * * *
63565359 ATGAGAGTTTTGCTCTCATTAACAGTGTTGAAGGCTGCAGCTCTTCACCTGTGAGCCTTAGTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
*
63565424 ATAG
66 ATAC
* * * * * *
63565428 TTG-GAGCTTTGTTCTTACTAACTGTGTTAGAGGCTGTACCTCTTCACCTGCGAGCCTTAATATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
*
63565492 ACAGC
66 ATA-C
* * * * ** *
63565497 -TGGGAACTTTAG-TCTTGCTAACTGTGTTGGAGGCTGCGGCTTTTTGCCTACGAGCCTTAGTAT
1 TTGAGAGCTTT-GCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTAT
*
63565560 GACAAC
65 GA-TAC
* * * * * * ** * * *
63565566 TAG-GAACTTTACTCTTGCTAATTGTGTTGGAGACTGCAGCTATTTGCATACGAGCCTTACTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
*
63565630 ACAAC
66 A-TAC
* *** * * * ** * * * *
63565635 -GGA-AGCAACGCTCTCGCTAACTGTATTAGAGGCTGTGGCTCTTCGCCTGTGAGCTTTACTATG
1 TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
*
63565698 AAAGC
66 ATA-C
* * * * * * * **
63565703 -TGGGAGCTTTGCTCTCGCTAACTATGCTAGG-GGCTACGGATCTTTGCCTGCGAGCCTTAGTAT
1 TTGAGAGCTTTGCTCTTGCTAACTGTG-TTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTAT
* *
63565766 GACAG
65 GATAC
* *
63565771 TTGGGAGCTTTGCTCTCGCTAACT
1 TTGAGAGCTTTGCTCTTGCTAACT
63565795 ATGTAACACT
Statistics
Matches: 391, Mismatches: 103, Indels: 22
0.76 0.20 0.04
Matches are distributed among these distances:
67 2 0.01
68 100 0.26
69 284 0.73
70 5 0.01
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (69 bp):
TTGAGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCAGCTCTTCACCTGCGAGCCTTAGTATG
ATAC
Found at i:63567271 original size:39 final size:39
Alignment explanation
Indices: 63567227--63567542 Score: 614
Period size: 39 Copynumber: 8.1 Consensus size: 39
63567217 AATTATATTA
*
63567227 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567266 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567305 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567344 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567383 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567422 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567461 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
63567500 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
63567539 CCAG
1 CCAG
63567543 TGTCTTGCAT
Statistics
Matches: 275, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 275 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:63569280 original size:69 final size:69
Alignment explanation
Indices: 63569198--63569565 Score: 336
Period size: 69 Copynumber: 5.3 Consensus size: 69
63569188 GTTTCACCTA
* *
63569198 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGTGAGCCTTAGTATGGCAG
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACAG
63569263 TTGG
66 TTGG
*
63569267 GAGCTTTGCTCTCACTAATTGTCCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGGA-A
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTAT-GACA
63569331 GTTGG
65 GTTGG
* * * *
63569336 GAGCTTTGCTCTCATTAATTGT-ATAGGAGGTTTC-AGCTCTTCACCTGCGAGCCTTAGTATGAC
1 GAGCTTTGCTCTCACTAATTGTGCTAGG-GGTTACGA-CTCTTCGCCTGCGAGCCTTAGTATGAC
63569399 A-TCTGG
64 AGT-TGG
* * * * * * ** * * * * *
63569405 GAGCTCTGCTCTCTCTAACTCT-ATTGGAGGTTGTGACTCTTCGCTTGCAAGTCTTAATTTGACA
1 GAGCTTTGCTCTCACTAATTGTGCTAGG-GGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACA
** *
63569469 ACTAG
65 GTTGG
* * * * * * *
63569474 GAGCTTTGCTCTCACTAACTATGCTAGGGGCTGTA-G-CTATTCTCATGTGAGCCTTACTATGAC
1 GAGCTTTGCTCTCACTAATTGTGCTAGGGG-T-TACGACTCTTCGCCTGCGAGCCTTAGTATGAC
63569537 AGTTGG
64 AGTTGG
* *
63569543 GAGCTTTTCTCTCGCTAATTGTG
1 GAGCTTTGCTCTCACTAATTGTG
63569566 ATGTGGGCTG
Statistics
Matches: 245, Mismatches: 44, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
68 8 0.03
69 229 0.93
70 7 0.03
71 1 0.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (69 bp):
GAGCTTTGCTCTCACTAATTGTGCTAGGGGTTACGACTCTTCGCCTGCGAGCCTTAGTATGACAG
TTGG
Found at i:63569555 original size:138 final size:137
Alignment explanation
Indices: 63569383--63569678 Score: 343
Period size: 138 Copynumber: 2.2 Consensus size: 137
63569373 TCTTCACCTG
* * *
63569383 CGAGCCTTAGTATGACA-TCTGGGAGCTCTGCTCTCTCTAACTCT-AT-TGGAGGTTGT-GACTC
1 CGAGCCTTAATATGACAGT-TGGGAGCTCTGCTCTCGCTAACTCTGATGT-G-GGCTGTAG-CTC
** *
63569444 TTCGCTTGCAAGTCTTAATTTGACAACTAGGAGCTTTGCTCTCACTAACTATGCTAGGGGCTGTA
62 TTCGCTCACAAGTCTTAATTTGACAACTAGGAGCTTTGCTCTCACTAACTATGCT-GAGGCTGTA
*
63569509 GCTATTC-TCATG
126 GCTATTCGTC-TA
* * * * * * *
63569521 TGAGCCTTACTATGACAGTTGGGAGCTTTTCTCTCGCTAATTGTGATGTGGGCTGTAGCTCTTTG
1 CGAGCCTTAATATGACAGTTGGGAGCTCTGCTCTCGCTAACTCTGATGTGGGCTGTAGCTCTTCG
* * *
63569586 CTCACAAGTCTTAGTTTGACAACTAGGAGCTTTGCTCTCACTAGCTGTGCTGAGGCTGTAGCTAT
66 CTCACAAGTCTTAATTTGACAACTAGGAGCTTTGCTCTCACTAACTATGCTGAGGCTGTAGCTAT
63569651 TCGTCTA
131 TCGTCTA
63569658 CGAG-CTTAATATGACAGTTGG
1 CGAGCCTTAATATGACAGTTGG
63569679 ATGCTAGGGG
Statistics
Matches: 135, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
136 16 0.12
137 19 0.14
138 94 0.70
139 5 0.04
140 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (137 bp):
CGAGCCTTAATATGACAGTTGGGAGCTCTGCTCTCGCTAACTCTGATGTGGGCTGTAGCTCTTCG
CTCACAAGTCTTAATTTGACAACTAGGAGCTTTGCTCTCACTAACTATGCTGAGGCTGTAGCTAT
TCGTCTA
Found at i:63580023 original size:13 final size:14
Alignment explanation
Indices: 63579993--63580025 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
63579983 GAGAGGAAGA
63579993 AAGGAGAAAAATGG
1 AAGGAGAAAAATGG
*
63580007 AAGGAGAAAGA-GG
1 AAGGAGAAAAATGG
63580020 AAGGAG
1 AAGGAG
63580026 TGGCCAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (14 bp):
AAGGAGAAAAATGG
Found at i:63584844 original size:20 final size:20
Alignment explanation
Indices: 63584803--63584845 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
63584793 ATTTCCTACG
* *
63584803 TTGGCCCATTTTTTCGGTTT
1 TTGGCCCATTTTCTCGCTTT
63584823 TTGGCCCA-TTTCTCGCTCTT
1 TTGGCCCATTTTCTCGCT-TT
63584843 TTG
1 TTG
63584846 ACTCTCCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.05, C:0.26, G:0.19, T:0.51
Consensus pattern (20 bp):
TTGGCCCATTTTCTCGCTTT
Found at i:63589241 original size:27 final size:26
Alignment explanation
Indices: 63589177--63589359 Score: 186
Period size: 27 Copynumber: 6.8 Consensus size: 26
63589167 AGCATGGCTG
* *
63589177 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
63589203 TCAGATATAGATAATCGTGGCTGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
63589231 CCAGAACAGATATATGTAGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
63589258 CCAGATTAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
63589285 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
63589312 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
63589339 CCAGATCAGATAATCGTGGCA
1 CCAGAACAGATAAT-GTGGCA
63589360 ACCGGTTTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.04
27 113 0.84
28 15 0.11
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63589296 original size:81 final size:81
Alignment explanation
Indices: 63589177--63589359 Score: 235
Period size: 81 Copynumber: 2.3 Consensus size: 81
63589167 AGCATGGCTG
* * * * *
63589177 CCAGAACAGATAAT-GTGACAGAGTCATCAGATATAGATAATCGTGGC-TGAGCCACCAGAACAG
1 CCAGATCAGATAATCGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAT-AGCCACCAGAACAG
63589240 ATATATGTAGCAGAGCCA
64 ATATATGTAGCAGAGCCA
* * * * *
63589258 CCAGATTAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACCAGAACAGAT
1 CCAGATCAGATAATCGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGAT
*
63589323 ATATGTGGCAGAGCCA
66 ATATGTAGCAGAGCCA
63589339 CCAGATCAGATAATCGTGGCA
1 CCAGATCAGATAATCGTGGCA
63589360 ACCGGTTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 71 0.82
82 16 0.18
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (81 bp):
CCAGATCAGATAATCGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGAT
ATATGTAGCAGAGCCA
Found at i:63590606 original size:26 final size:26
Alignment explanation
Indices: 63590570--63590679 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
63590560 CATGAAATTC
63590570 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63590596 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
63590622 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63590648 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
63590674 TTATCA
1 TTATCA
63590680 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63596298 original size:26 final size:28
Alignment explanation
Indices: 63596245--63596299 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
63596235 TGTTCTTTTC
63596245 ACCCCTTTTTCTTTTAATAAAACTTCAT
1 ACCCCTTTTTCTTTTAATAAAACTTCAT
*
63596273 ACCCC-TTTT-TTTTAATAAAATTTCAT
1 ACCCCTTTTTCTTTTAATAAAACTTCAT
63596299 A
1 A
63596300 TTTCATCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.65
27 4 0.15
28 5 0.19
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (28 bp):
ACCCCTTTTTCTTTTAATAAAACTTCAT
Found at i:63596352 original size:26 final size:26
Alignment explanation
Indices: 63596323--63596476 Score: 254
Period size: 26 Copynumber: 5.9 Consensus size: 26
63596313 ATTCTTTAAT
63596323 AAACATTTACCTAACCCATTATCATG
1 AAACATTTACCTAACCCATTATCATG
63596349 AAACATTTACCTAACCCATTATCATG
1 AAACATTTACCTAACCCATTATCATG
* *
63596375 GAACATTTACCTAACCTATTATCATG
1 AAACATTTACCTAACCCATTATCATG
63596401 AAACATTTACCTAACCCATTATCATG
1 AAACATTTACCTAACCCATTATCATG
* *
63596427 GAACATTTACCTAACCTATTATCATG
1 AAACATTTACCTAACCCATTATCATG
* *
63596453 GAACATTTACCTAACCTATTATCA
1 AAACATTTACCTAACCCATTATCA
63596477 ATTTGTATCA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 122 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
AAACATTTACCTAACCCATTATCATG
Found at i:63596452 original size:78 final size:78
Alignment explanation
Indices: 63596323--63596476 Score: 290
Period size: 78 Copynumber: 2.0 Consensus size: 78
63596313 ATTCTTTAAT
63596323 AAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
1 AAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
63596388 ACCTATTATCATG
66 ACCTATTATCATG
* *
63596401 AAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTA
1 AAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
63596466 ACCTATTATCA
66 ACCTATTATCA
63596477 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (78 bp):
AAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
ACCTATTATCATG
Found at i:63602604 original size:15 final size:15
Alignment explanation
Indices: 63602586--63602624 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
63602576 TCATATATAT
63602586 ATAATTCATTTAACA
1 ATAATTCATTTAACA
63602601 ATAATTCATTTAACA
1 ATAATTCATTTAACA
*
63602616 ATAGTTCAT
1 ATAATTCAT
63602625 CAAGATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATTCATTTAACA
Found at i:63605805 original size:43 final size:43
Alignment explanation
Indices: 63605757--63605838 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
63605747 CAATTATCTT
63605757 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
1 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
*
63605800 AGATATGATATTGGGATACAATGATCAAATTGAATAAGT
1 AGATATGAAATTGGGATACAATGATCAAATTGAATAAGT
63605839 AGAAGAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (43 bp):
AGATATGAAATTGGGATACAATGATCAAATTGAATAAGTTTTA
Found at i:63613137 original size:17 final size:18
Alignment explanation
Indices: 63613101--63613140 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
63613091 CGGGTCACTT
*
63613101 GCCCATGTTGGCCCACAC
1 GCCCATGTTGGCCCAAAC
*
63613119 GCCCATG-TGGCGCAAAC
1 GCCCATGTTGGCCCAAAC
63613136 GCCCA
1 GCCCA
63613141 GATTGGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.42, G:0.25, T:0.12
Consensus pattern (18 bp):
GCCCATGTTGGCCCAAAC
Done.