Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 187 of 284
Found at i:63337746 original size:9 final size:9
Alignment explanation
Indices: 63337732--63337775 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
63337722 TATGCACTTA
63337732 ATAAAAATT
1 ATAAAAATT
63337741 ATAAAAA-T
1 ATAAAAATT
63337749 ATTAAAAATAT
1 A-TAAAAAT-T
63337760 ATTAAAAATT
1 A-TAAAAATT
63337770 ATAAAA
1 ATAAAA
63337776 TTTTATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 2 0.06
9 18 0.56
10 2 0.06
11 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:63337767 original size:20 final size:18
Alignment explanation
Indices: 63337733--63337824 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 18
63337723 ATGCACTTAA
63337733 TAAAAATTATAAAAATAT
1 TAAAAATTATAAAAATAT
*
63337751 TAAAAATATATTAAAA-AT
1 TAAAAAT-TATAAAAATAT
* *
63337769 TATAAAATTTTATAAAGTAGT
1 TA-AAAATTATA-AAAATA-T
* *
63337790 AAGAAAATTATAAAAAAAT
1 TA-AAAATTATAAAAATAT
*
63337809 GTAAAGAAATATAAAA
1 -TAAA-AATTATAAAA
63337825 TTTGTAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
18 13 0.23
19 18 0.32
20 15 0.27
21 10 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:63337846 original size:49 final size:49
Alignment explanation
Indices: 63337734--63337849 Score: 116
Period size: 49 Copynumber: 2.4 Consensus size: 49
63337724 TGCACTTAAT
* *
63337734 AAAAATTATAAAAA-TATTAAAAATATATTAAAAATTATAAAATTTTATA
1 AAAAAGTATAAAAATTA-TAAAAATATATTAAAAAATATAAAATTTTATA
**
63337783 AAGTAGTA-AGAAAATTATAAAAA-A-ATGTAAAGAAATATAAAATTTGTA-A
1 AAAAAGTATA-AAAATTATAAAAATATAT-TAAA-AAATATAAAATTT-TATA
63337832 AAAAAGTATAAAAATTAT
1 AAAAAGTATAAAAATTAT
63337850 TGTGACAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
47 2 0.04
48 6 0.11
49 42 0.76
50 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (49 bp):
AAAAAGTATAAAAATTATAAAAATATATTAAAAAATATAAAATTTTATA
Found at i:63338769 original size:10 final size:10
Alignment explanation
Indices: 63338756--63338798 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
63338746 TTTATAGATA
63338756 TTATTTTAAT
1 TTATTTTAAT
63338766 TTATTTTAAT
1 TTATTTTAAT
*
63338776 ATAGATTTTAAT
1 -T-TATTTTAAT
*
63338788 ATATTTTAAT
1 TTATTTTAAT
63338798 T
1 T
63338799 ATAAGCTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 18 0.67
11 1 0.04
12 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATTTTAAT
Found at i:63350315 original size:366 final size:365
Alignment explanation
Indices: 63349571--63351038 Score: 2212
Period size: 366 Copynumber: 4.0 Consensus size: 365
63349561 AGCTCTAACA
* * * *
63349571 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTG-TCCCATAACTGCCTCTGAAAGCACAT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCT-CCATAACTGCCTCTGAAAGCGCAT
**** *
63349635 CAGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAG
65 CAGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAG
* *
63349700 TTGGCAACAACAGCGCTAGCAATGCTGCTGCTGCCCCACCGTTTTTTCCTCCTACTGTAAACTAA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCT-C--CTGTAAACTAA
* * * * *
63349765 AATCGGCATAGGACTTTCAAACATCACACTCGCAGATAACCGCTGAGAACCAGTTTCGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCATACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
**
63349830 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGGTTGTGAAGTACCATCACATTTAGGAGTCATC
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCAT-
* * *
63349895 CGGAAAGTTTCATTATCAGACATCCAATCACATAAAGAAATCTTT
321 CTGCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
63349940 ATTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
63350005 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
** * * *
63350070 TGGCAACAACAGCTTTAGCACTGCTGCTTCTGCCCCACCGTTTCTTCCTCCTGTAAATTAAATTC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * * *
63350135 GGAATAGGACTTTCAAACCTCATACTTACAGATGACTGCTGAGAACCAATTTTGGGTAAGGGAAG
196 GGCATAGGACTTTCAAACATCATACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
63350200 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTGC
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGC
*
63350265 AAGTTCCATTACCAGACATCCAATCACATAAAGAAATCTTT
325 AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
63350306 GTTGCAGTTTGATGTTCAACTCGAGAAACTCCCTTTCGCT---TAACTGCCTCTGAAAGTGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
*
63350368 AGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAA-CATGCTCCTGTGCACAAAAG
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCA-GCTCCTGTGCACAAAAG
* * * * *
63350432 TTGGCAACAATAGAGCTAGCGCTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTGA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTT---CCTCCTGTAAACTAA
* * * * *
63350497 AATCGGCATAGGACTTTCAAACATTACATTCACAGATGGCTGCTGAGAACCAGTTCTGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCATACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
63350562 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGC-TTGTGAAGTACCATCACATTTAGGAGTCAT
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCA-CTTTGTGAAGTACCATCACATTTAGGAGTCAT
*
63350626 CTGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTT
321 CTG-CAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* * *
63350672 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
* *
63350737 AGAACTAACAACAGAAAAACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGGACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
* *
63350802 TGGCAACAACAGCACTAGCACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* *
63350867 GGCATAGGACTTTCAAACATCATACTCACAGATGACTGTTGAGAACCAGTTTTGGGAAAGGGAAG
196 GGCATAGGACTTTCAAACATCATACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
* * * **
63350932 GCATGAATCCTCAGCCTCTTTACAACCACTTCGTGAAGTACCATCGCATTTAGGAGTCATCAACC
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGC
63350997 AAGTTTCATTACCAGACATCCAATCA-AGTAAAGAAATCTTT
325 AAGTTTCATTACCAGACATCCAATCACA-TAAAGAAATCTTT
63351038 G
1 G
63351039 CTTCCTGCAT
Statistics
Matches: 999, Mismatches: 85, Indels: 33
0.89 0.08 0.03
Matches are distributed among these distances:
362 2 0.00
363 122 0.12
365 5 0.01
366 583 0.58
367 1 0.00
368 1 0.00
369 282 0.28
370 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (365 bp):
GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
AGAACTAACAACAGAAAGACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
GGCATAGGACTTTCAAACATCATACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCA
AGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
Found at i:63351252 original size:127 final size:127
Alignment explanation
Indices: 63351028--63351405 Score: 679
Period size: 127 Copynumber: 3.0 Consensus size: 127
63351018 AATCAAGTAA
*
63351028 AGAAATCTTTGCTTCCTGCATTCAAACACAT--AATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
63351091 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
*
63351153 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
* *
63351218 ACGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* **
63351280 AAAAATCTTTGTTTCCTGCGGTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
63351345 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
66 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
63351406 AACTTCCACC
Statistics
Matches: 241, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 30 0.12
127 211 0.88
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (127 bp):
AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:63352627 original size:13 final size:15
Alignment explanation
Indices: 63352609--63352645 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
63352599 AACTCGAGCA
63352609 TTAATTATTTAA-T-
1 TTAATTATTTAATTG
*
63352622 TTAATTAGTTAATTG
1 TTAATTATTTAATTG
63352637 TTAATTATT
1 TTAATTATT
63352646 ATTTAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 11 0.55
14 1 0.05
15 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTAATTATTTAATTG
Found at i:63352821 original size:22 final size:20
Alignment explanation
Indices: 63352774--63352823 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
63352764 TGAAGTGAAG
**
63352774 GTGATATTGAATTATGAAAT
1 GTGATATTGAATTAAAAAAT
*
63352794 GCGATATTGAATTTAAAAAAAT
1 GTGATATTGAA-TT-AAAAAAT
63352816 GTGATATT
1 GTGATATT
63352824 ATGGACTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.42
21 2 0.08
22 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (20 bp):
GTGATATTGAATTAAAAAAT
Found at i:63362459 original size:9 final size:9
Alignment explanation
Indices: 63362447--63362495 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
63362437 TAAACTAATT
*
63362447 AAATAAAGG
1 AAATAAAAG
63362456 AAATAAAAG
1 AAATAAAAG
63362465 AAATAAAAG
1 AAATAAAAG
* *
63362474 ATAGAAAAG
1 AAATAAAAG
*
63362483 AGATAAATAG
1 AAATAAA-AG
63362493 AAA
1 AAA
63362496 CAGAATAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 29 0.88
10 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:63363282 original size:14 final size:15
Alignment explanation
Indices: 63363244--63363284 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
63363234 TTTGTGATTG
63363244 ATATGAATTTGATTGAA
1 ATATGAA-TTGA-TGAA
63363261 AT-TGAATTGA-GAA
1 ATATGAATTGATGAA
63363274 ATATGAATTGA
1 ATATGAATTGA
63363285 ATACCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 4 0.17
16 4 0.17
17 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (15 bp):
ATATGAATTGATGAA
Found at i:63363574 original size:15 final size:16
Alignment explanation
Indices: 63363554--63363587 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
63363544 ATTGGCATTA
63363554 GAATTGAT-ATTGAAT
1 GAATTGATAATTGAAT
63363569 GAATTGATAAATTGAAT
1 GAATTGAT-AATTGAAT
63363586 GA
1 GA
63363588 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATTGATAATTGAAT
Found at i:63367025 original size:42 final size:42
Alignment explanation
Indices: 63366923--63367080 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
63366913 AGCTCGTACA
* * *
63366923 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCATAT-ACG
*
63366966 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAATCATATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCATATACG
* * * *
63367008 ATGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCAT-ATA-CG
*
63367052 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
63367081 AAAATCACAT
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 30 0.31
43 37 0.39
44 29 0.30
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCATATACG
Found at i:63378134 original size:20 final size:19
Alignment explanation
Indices: 63378105--63378155 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
63378095 ATGTACTTCA
*
63378105 TTTAATTTTTTA-TATTTGTT
1 TTTAAATTTTTAGT-TTT-TT
*
63378125 TTTAAATTTTGAGTTTTTT
1 TTTAAATTTTTAGTTTTTT
63378144 TTTAAATATTTT
1 TTTAAAT-TTTT
63378156 CATAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.35
20 16 0.62
21 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTAAATTTTTAGTTTTTT
Found at i:63379935 original size:31 final size:31
Alignment explanation
Indices: 63379892--63379952 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
63379882 TTTTAATTAA
* *
63379892 TTTCAAATTTTTTAAAATTTCTCA-TTAAACC
1 TTTCAAAATTTTTAAAAATT-TCAGTTAAACC
63379923 TTTCAAAATTTTTAAAAATTTCAGTTAAAC
1 TTTCAAAATTTTTAAAAATTTCAGTTAAAC
63379953 ACCTCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (31 bp):
TTTCAAAATTTTTAAAAATTTCAGTTAAACC
Found at i:63379966 original size:31 final size:31
Alignment explanation
Indices: 63379894--63379966 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
63379884 TTAATTAATT
* *
63379894 TCAAATTTTTTAAAATTTCTCATTAAACCTT
1 TCAAATTTTTTAAAAATTCTCATTAAACCTC
*
63379925 TCAAAATTTTTAAAAATT-TCAGTTAAACAC-C
1 TCAAATTTTTTAAAAATTCTCA-TTAAAC-CTC
*
63379956 TCGAATTTTTT
1 TCAAATTTTTT
63379967 TTGTAGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (31 bp):
TCAAATTTTTTAAAAATTCTCATTAAACCTC
Found at i:63386338 original size:30 final size:30
Alignment explanation
Indices: 63386302--63386363 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
63386292 ATGAGAGTTT
*
63386302 ATTAGTGGCTCACGTGAAGTGCACATGAAA
1 ATTAGTGGCTCACGTGAAATGCACATGAAA
*
63386332 ATTAGTGGCTCATGTGAAATGCACATGAAA
1 ATTAGTGGCTCACGTGAAATGCACATGAAA
63386362 AT
1 AT
63386364 CTTCTAAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (30 bp):
ATTAGTGGCTCACGTGAAATGCACATGAAA
Found at i:63389180 original size:52 final size:58
Alignment explanation
Indices: 63389075--63389181 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
63389065 AAAATATTCA
* * *
63389075 TTTATTTTTATATATTTTTAAAATTTATATATTAATATTTCTTGTCAACAATATTATT
1 TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATTATT
*
63389133 TTTATTCTTATATA-TTTT-AAATTTAT-TAAT-ATATTT-TT-TGAAAAATATT
1 TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATT
63389182 TATGCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 9 0.20
53 2 0.04
54 6 0.13
55 3 0.07
56 8 0.18
57 4 0.09
58 13 0.29
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (58 bp):
TTTATTCTTATATATTTTTAAAATTTATATAATAATATTTCTTGTCAAAAATATTATT
Found at i:63389898 original size:19 final size:20
Alignment explanation
Indices: 63389855--63389904 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
63389845 CTTTAAAATT
*
63389855 TATAAAATATTAAAAAATAC
1 TATAAAATATTAAAAAATAA
63389875 T-TAAAAT-TTAAAAACA-AA
1 TATAAAATATTAAAAA-ATAA
*
63389893 TATAAAAAATTA
1 TATAAAATATTA
63389905 CATGAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
TATAAAATATTAAAAAATAA
Found at i:63389899 original size:29 final size:29
Alignment explanation
Indices: 63389840--63389902 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 29
63389830 ACTATTTGTC
* *
63389840 AAATACTTTAAAATTTATAAAATATTAAA
1 AAATACTTTAAAATTTAAAAAAAATTAAA
63389869 AAATAC-TTAAAATTTAAAAACAAATATAAA
1 AAATACTTTAAAATTTAAAAA-AAAT-TAAA
63389899 AAAT
1 AAAT
63389903 TACATGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 13 0.43
29 9 0.30
30 8 0.27
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATACTTTAAAATTTAAAAAAAATTAAA
Found at i:63390533 original size:2 final size:2
Alignment explanation
Indices: 63390528--63390557 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
63390518 ATATATATAT
*
63390528 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
63390558 GCTGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63395785 original size:17 final size:18
Alignment explanation
Indices: 63395750--63395787 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
63395740 TAGAAAAGAA
*
63395750 AAAAAAGAAAAACGGTTC
1 AAAAAAGAAAAACGATTC
*
63395768 AAAAAAGAGAAA-GATTC
1 AAAAAAGAAAAACGATTC
63395785 AAA
1 AAA
63395788 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAAGAAAAACGATTC
Found at i:63396895 original size:23 final size:23
Alignment explanation
Indices: 63396864--63396907 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
63396854 ATTTTATGTA
*
63396864 TATACATACATATATATTTTCCT
1 TATACATACATACATATTTTCCT
*
63396887 TATATATACATACATATTTTC
1 TATACATACATACATATTTTC
63396908 ATATTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (23 bp):
TATACATACATACATATTTTCCT
Found at i:63396963 original size:4 final size:4
Alignment explanation
Indices: 63396954--63397006 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
63396944 TATTTTTATT
* * **
63396954 TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
63397000 TTTA TTT
1 TTTA TTT
63397007 GTTATTGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
3 2 0.05
4 38 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:63397006 original size:26 final size:26
Alignment explanation
Indices: 63396948--63397012 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
63396938 TATTGTTATT
*
63396948 TTTATTTTTATTTATTTATTTATATG
1 TTTATTTTTATTTATTTATTTATATA
** *
63396974 TCCATTTTTATTTATTTATTTATTTA
1 TTTATTTTTATTTATTTATTTATATA
63397000 TTTATTTGTTATT
1 TTTATTT-TTATT
63397013 GTATATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTATTTTTATTTATTTATTTATATA
Found at i:63397344 original size:110 final size:109
Alignment explanation
Indices: 63397136--63397452 Score: 408
Period size: 110 Copynumber: 2.9 Consensus size: 109
63397126 AAAAGAAATT
* * * *
63397136 TTTTTAAATGAGGCAATATTTAGCGTTTGGACATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATATTTTGCGTTT-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** * *
63397201 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCCTTTTCAGATA
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
**
63397246 TTTTAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACAAACCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATATTTTGCGTTT-GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
63397311 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCC-TTTCAAAAA
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
* * * * *
63397355 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATATTTTGCGTTTG-AAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
63397419 CGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
65 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
63397453 CTTGAATTTT
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
106 27 0.15
108 24 0.13
109 42 0.23
110 90 0.49
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATATTTTGCGTTTGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTC
GATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCAAAAA
Found at i:63401558 original size:10 final size:10
Alignment explanation
Indices: 63401545--63401584 Score: 66
Period size: 9 Copynumber: 4.2 Consensus size: 10
63401535 CCAAAAAAAG
63401545 AAAAAAATCA
1 AAAAAAATCA
63401555 AAAAAAATC-
1 AAAAAAATCA
63401564 AAAAAAAT-A
1 AAAAAAATCA
63401573 AAAAAAATCA
1 AAAAAAATCA
63401583 AA
1 AA
63401585 GTCAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:63401561 original size:19 final size:18
Alignment explanation
Indices: 63401537--63401584 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
63401527 TTCAGACTCC
*
63401537 AAAAAAAGAAAAAAATCAA
1 AAAAAAACAAAAAAAT-AA
*
63401556 AAAAAATCAAAAAAATAA
1 AAAAAAACAAAAAAATAA
*
63401574 AAAAAATCAAA
1 AAAAAAACAAA
63401585 GTCAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.83, C:0.06, G:0.02, T:0.08
Consensus pattern (18 bp):
AAAAAAACAAAAAAATAA
Found at i:63401580 original size:18 final size:19
Alignment explanation
Indices: 63401545--63401584 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
63401535 CCAAAAAAAG
63401545 AAAAAAATCAAAAAAAATC
1 AAAAAAATCAAAAAAAATC
63401564 AAAAAAAT-AAAAAAAATC
1 AAAAAAATCAAAAAAAATC
63401582 AAA
1 AAA
63401585 GTCAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAAATCAAAAAAAATC
Found at i:63403800 original size:46 final size:46
Alignment explanation
Indices: 63403671--63403980 Score: 471
Period size: 46 Copynumber: 6.8 Consensus size: 46
63403661 AACAGATCAA
63403671 TGAAGATAGCAGAT-TTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
63403716 TGAAGATAGCAGAT-TTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
63403761 TGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
63403807 TGAAGATAGCGGATCTTATCTTACTGTATTTGGCAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
63403853 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGTGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
** * * *
63403899 CAAAGATAACAGATCTTTTCTTCCTGTATTTGGTAGCGGAGGAGAT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
63403945 CGAAGATAGCAGATCTTGTTTTTCTGTATTTGGCAG
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAG
63403981 TAGAAGAGGT
Statistics
Matches: 243, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 0.24
46 184 0.76
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (46 bp):
TGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
Found at i:63404171 original size:44 final size:44
Alignment explanation
Indices: 63404123--63404304 Score: 126
Period size: 44 Copynumber: 4.1 Consensus size: 44
63404113 AGGGTAGGTT
*
63404123 GAAGATTGCAGATTCTGTCACCCTAAGTAATAGTGGAGCAGATC
1 GAAGATTGCAGATTCTATCACCCTAAGTAATAGTGGAGCAGATC
** * * *
63404167 GAAGA-TGGTGAATCTTATCTTCCC-AA-T-ATAGTGGAGAAGCAGATT
1 GAAGATTGCAGATTC-TATC-ACCCTAAGTAATAGT-G-G-AGCAGATC
* * * * * *
63404212 TAAGCCATT--AG-TCCTATCACCCTAAGCAGTAGTGGAGTAGGTC
1 GAAG--ATTGCAGATTCTATCACCCTAAGTAATAGTGGAGCAGATC
* *
63404255 GAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATC
1 GAAGATTGCAGATTCTATCACCCTAAGTAATAGTGGAGCAGATC
63404299 GAAGAT
1 GAAGAT
63404305 GGTGAATCAT
Statistics
Matches: 102, Mismatches: 22, Indels: 28
0.67 0.14 0.18
Matches are distributed among these distances:
41 3 0.03
42 5 0.05
43 21 0.21
44 51 0.50
45 15 0.15
46 5 0.05
47 1 0.01
48 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
GAAGATTGCAGATTCTATCACCCTAAGTAATAGTGGAGCAGATC
Found at i:63404444 original size:132 final size:132
Alignment explanation
Indices: 63403993--63404430 Score: 781
Period size: 132 Copynumber: 3.3 Consensus size: 132
63403983 GAAGAGGTCA
63403993 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
63404058 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC-ATCACCCTAAGCAGTAGTAGG-GTAGG
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGT-GGAGTAGG
63404121 TTG
130 TTG
*
63404124 AAGATTGCAGATTCTGTCACCCTAAGTAATAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
*
63404189 CCAATATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
63404254 CG
131 TG
*
63404256 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCATATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
**
63404321 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAATAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
63404386 TG
131 TG
* *
63404388 AAGATTGCAGATTCTGTCCCCCTAAGCAGTAGTGGAGCAGATC
1 AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATC
63404431 AACAATAACG
Statistics
Matches: 294, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
131 102 0.35
132 192 0.65
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGATTGCAGATTCTGTCACCCTAAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
TG
Found at i:63405108 original size:18 final size:18
Alignment explanation
Indices: 63405073--63405110 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
63405063 AGAAAATAAT
*
63405073 AAAAAGAAAAACGGTTCA
1 AAAAAGAAAAACGATTCA
63405091 AAAAAGAGAAAA-GATTCA
1 AAAAAGA-AAAACGATTCA
63405109 AA
1 AA
63405111 GGTTGCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.66, C:0.08, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAACGATTCA
Found at i:63406284 original size:4 final size:4
Alignment explanation
Indices: 63406275--63406327 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
63406265 TATTTTTATT
* * **
63406275 TTTA TTTA TTTA TTTA TATG TCCA -TT- TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
63406321 TTTA TTT
1 TTTA TTT
63406328 GTTATTGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
3 2 0.05
4 38 0.95
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:63406327 original size:26 final size:26
Alignment explanation
Indices: 63406269--63406333 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
63406259 TATTGTTATT
*
63406269 TTTATTTTTATTTATTTATTTATATG
1 TTTATTTTTATTTATTTATTTATATA
** *
63406295 TCCATTTTTATTTATTTATTTATTTA
1 TTTATTTTTATTTATTTATTTATATA
63406321 TTTATTTGTTATT
1 TTTATTT-TTATT
63406334 GTATATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (26 bp):
TTTATTTTTATTTATTTATTTATATA
Found at i:63406650 original size:110 final size:109
Alignment explanation
Indices: 63406457--63406771 Score: 447
Period size: 110 Copynumber: 2.9 Consensus size: 109
63406447 AAAAGAAATT
* * *
63406457 TTTTAAAATAAGACAATGTTTTGCGTTTGGACATTCGAGAAAACATGTCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* ** *
63406522 CGATTTTTCTCGTTCAACCAAATGGCTTTATATCATCTTCAGAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCAT-TTCAAAAA
*
63406567 TTTTAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
63406632 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAA
* * * * *
63406676 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
1 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
* * *
63406740 CGA--TTTCTCGTTTAACCAAATTGCCAAATATC
66 CGATTTTTCTCGTTCAACCAAATAGCTAAATATC
63406772 CTCTTGATTT
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 26 0.14
108 25 0.13
109 43 0.23
110 93 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAA
Found at i:63408073 original size:296 final size:295
Alignment explanation
Indices: 63407413--63408586 Score: 1117
Period size: 298 Copynumber: 3.9 Consensus size: 295
63407403 ACTCAATTAA
* * * * * * * *
63407413 TATATAGAAGTAATGGAGATAATAACTTGTGCATATTAAAATGAAAATTTATAAATTAGAATAAA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
* * * * *
63407478 ATGAAGCTTTGGTTGAATGGTAAAATT-AAGATTTTGCTAACTCAATTAGTGTGGGTTCAAATCC
66 ATAAAGCTTTGGTTGAATGGTAAATTTAAAG-TTTTACTAATTCAATTGGTGTGGGTTCAAATCC
* * * * *
63407542 TACTGTATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGATTAAAATAACTATTGTTAAATA
130 CACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-AC----CTCAAATA
* * * * * *
63407607 GTATAACTTATTTTAATTACGAAAGTACATTTTTGTAATTTTCTAACCGAGTTGGTGGCCCAAAT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GAT
* * * * *
63407672 GGGGGTGACACCAACTTAATGAAACAATTAAT-AATTGTAAGG
254 GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAA-G
* * * * *
63407714 ATAGATATACAACTATTGGAGATAATAACTTATGTATATTAAAATAAAAATGAATAAAATATATT
1 -T--ATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATT
* *
63407779 AAAATAAAGAC-TTGGTT-AAGTGGTAAATTTAATA-TTTTACTAATTTAATTGGGGTGGGTTCA
63 AAAATAAAG-CTTTGGTTGAA-TGGTAAATTTAA-AGTTTTACTAATTCAATTGGTGTGGGTTCA
* * *
63407841 AATCCCACTATATTCTTATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATGACCTCAAAT
125 AATCCCACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAAT-ACCTCAAAT
* * ** *
63407906 AGTATAAATTATTTTAATTATG-AAGGGCATTTTTGTAATTTCCTAACTGATTTGGTGACTCGAT
189 AGTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGAT
*
63407970 CGAGGGTGACACCAACATAGTAAAACACTTAATAAATAGTAAG
254 -GAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTAAG
* *
63408013 TATATACAATTAGTAGAGATAATAA-TGTGTGCATATTAAAATAAAAATGTATAAAATATATTAA
1 TATATACAACTAATAGAGATAATAACT-TGTGCATATTAAAATAAAAATGTATAAAATATATTAA
* * * * *
63408077 AATGAAA-TTTTGGTTGAGTGATAAATTTAAAGTTTT-TTAGATCCAATTGGTGTGGGTTCAAAT
65 AAT-AAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTA-ATTCAATTGGTGTGGGTTCAAAT
** * *
63408140 ATCA-TCATATGCATATTTTAATTTATTTTTTGTTAAAATAAAAAGACTAAAATACCCTCAAACA
128 CCCACT-ATATGCATATTTTAATTT-GTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATA
* * *
63408204 GTATAACTTATTTTAATTACGAAATAACATTTTTATAATTTCCTAA-TCGAGTTGGTGACCTCGT
190 GTATAACTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACT-GAGTTGGTGA-CTCGA
* * *
63408268 TGAGGATGACACCAAGTTAGTAAAATACTTAATAAATAGTATA-
253 TGAGGGTGACACCAACTTAGTAAAACACTTAATAAATAGTA-AG
* * * *
63408311 TTTATACAACTAATTGAGATAATAACTTGTGCATATT-AAA-AAACATGATTATCAAATATATTA
1 TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATG--TATAAAATATATTA
** * * ** **
63408374 AAACGAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTATTAATTTAATTGGCATGTATTCAAATC
64 AAATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATC
** * * ** *
63408439 TTA-TCATATG--TATTTTAGTTGGTTTTTGTTAAAATAAAAA-TTTAAAATACCCTCAAATGGT
129 CCACT-ATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATA-CCTCAAATAGT
* * * ** * *
63408500 ACAACTTATTTTAATTACAGAAA-AATATTCTCATAATTTCCTAACTGAGTTGGTGACCCAGTTG
192 ATAACTTATTTTAATTAC-GAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTC-GATG
* * *
63408564 AAGGTGACACAAACTCAGTAAAA
255 AGGGTGACACCAACTTAGTAAAA
63408587 TTCAAAAAGA
Statistics
Matches: 732, Mismatches: 111, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
293 2 0.00
294 84 0.11
295 28 0.04
296 133 0.18
297 63 0.09
298 167 0.23
299 70 0.10
300 32 0.04
302 1 0.00
303 2 0.00
304 147 0.20
305 2 0.00
306 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (295 bp):
TATATACAACTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAA
ATAAAGCTTTGGTTGAATGGTAAATTTAAAGTTTTACTAATTCAATTGGTGTGGGTTCAAATCCC
ACTATATGCATATTTTAATTTGTTTTTGTTAAAATAAAAAGACTAAAATACCTCAAATAGTATAA
CTTATTTTAATTACGAAAGAACATTTTTGTAATTTCCTAACTGAGTTGGTGACTCGATGAGGGTG
ACACCAACTTAGTAAAACACTTAATAAATAGTAAG
Found at i:63411734 original size:2 final size:2
Alignment explanation
Indices: 63411727--63411756 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
63411717 GTCTATATTG
63411727 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63411757 AAACTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63413179 original size:17 final size:18
Alignment explanation
Indices: 63413157--63413190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63413147 ATAATTGTAA
*
63413157 TTTAAAT-TTTAATTATT
1 TTTAAATGTGTAATTATT
63413174 TTTAAATGTGTAATTAT
1 TTTAAATGTGTAATTAT
63413191 CACAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAAATGTGTAATTATT
Found at i:63424576 original size:533 final size:533
Alignment explanation
Indices: 63423799--63424824 Score: 1568
Period size: 533 Copynumber: 1.9 Consensus size: 533
63423789 AAAAAAAGTT
* *
63423799 TATAATTTAAATACTCACGTTATATAGTTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
1 TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
* *
63423864 GCAAGTTGATGTGAGAGTTAAAAAAAATCGATATAATAACAAGTTTGACCCTCAACTTTTACATA
66 GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
* *
63423929 TTATATCAATTTAATCATAATTTTAAAAAACTAACCCTCAAACTTTACAAATATTCTCAATTTGA
131 TTATATCAATTTAATCATAATTTAAAAAAACTAACCCTCAAACTTTACAAATAATCTCAATTTGA
* * * *
63423994 TGATACTAATTCTAAAAATTTCAACGAATTAAATATATAAAAATACATAAATATTTTTCAAAAAA
196 TGATACTAATTCTAAAAAATTCAAC-AATGAAACACATAAAAATACATAAATATTTTTCAAAAAA
63424059 TATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATAT
260 TATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATAT
*
63424124 AAAAATAAATAAATATTTTCACAAAATATAAT-AATAAATTT-AAATTTTTATATT-A-A-T-AT
325 AAAAATAAA-AAATA-TAT-A-AAAATA-AATGAAT-AATTTCAAATTTTTATATTAATATTAAT
* * *
63424183 TAAATAAAATGAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTTAGTTTTCTCCACAAATTA
384 TAAATAAAATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTA
**
63424248 AGATTTCTACTTAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAA
449 AGATTTCTACCCAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAA
63424313 CTTTTACTTTGATTAATTTA
514 CTTTTACTTTGATTAATTTA
*
63424333 TATAATTTAAACACTCACGTTATATAATTTGATTATTTTGATCACTCTTGTTAAAATCACAAATA
1 TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
* *
63424398 GCAAGTTGATGTGACAGTTAAAAAAATTAG-TATAATAACAAGTTTGACCCTCAACTTTTCCATA
66 GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
* * * *
63424462 TTATATCAATTTAATCATAATTTAAAAAAAAACTAACCCTCAATATTTTATACATAATCTTAATT
131 TTATATCAATTTAATCATAATTT--AAAAAAACTAACCCTCAA-ACTTTACAAATAATCTCAATT
*
63424527 TGATGATACTAATTCTAGAAAAATTC-A-AA-GAAACACATAAAAATACATAAATATTTTTGAAA
193 TGATGATACTAATTCTA-AAAAATTCAACAATGAAACACATAAAAATACATAAATATTTTTCAAA
* * *
63424589 AAATATATTAATAAATTTAAAATATATATGAATAAAAATAATATTGTTGACAAGAAATATTAATA
257 AAATATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATA
** * *
63424654 TATAAATTTTAAAAATATATAAAAATAAATGAATATTTTCAAATTTTTATATTAATATTAACATT
322 TATAAAAATAAAAAATATATAAAAATAAATGAATAATTTCAAATTTTTATATTAATATT-A-ATT
*
63424719 AAATAAAATAAAAATCTCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAA
385 AAATAAAATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAA
*
63424784 GATTTCTACCCAGTTTCAACTGTGATAGTATCATCATCTAA
450 GATTTCTACCCAGTTTCAACTATGATAGTATCATCATCTAA
63424825 CACGAAAGAC
Statistics
Matches: 447, Mismatches: 33, Indels: 23
0.89 0.07 0.05
Matches are distributed among these distances:
528 7 0.02
529 22 0.05
530 2 0.00
531 3 0.01
532 6 0.01
533 156 0.35
534 91 0.20
535 119 0.27
536 34 0.08
537 7 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (533 bp):
TATAATTTAAACACTCACGTTATATAATTCGATTATTTTGATCACTCTTGTTAAAATCACAAATA
GCAAGTTGATGTGACAGTTAAAAAAAATAGATATAATAACAAGTTTGACCCTCAACTTTTACATA
TTATATCAATTTAATCATAATTTAAAAAAACTAACCCTCAAACTTTACAAATAATCTCAATTTGA
TGATACTAATTCTAAAAAATTCAACAATGAAACACATAAAAATACATAAATATTTTTCAAAAAAT
ATACTAATAAATTTAAAATATACATGAATAAAAATAATATTGTTGACAAAAAATATTAATATATA
AAAATAAAAAATATATAAAAATAAATGAATAATTTCAAATTTTTATATTAATATTAATTAAATAA
AATAAAAATCCCCCGCCTCATTCCTCTCCCTCTCCCCCTCAGTTTTCTCAACAAATTAAGATTTC
TACCCAGTTTCAACTATGATAGTATCATCATCTAATTGACCTGTGCAATGCATACAAACTTTTAC
TTTGATTAATTTA
Found at i:63428947 original size:180 final size:181
Alignment explanation
Indices: 63428636--63429031 Score: 551
Period size: 180 Copynumber: 2.2 Consensus size: 181
63428626 GATAGATTGA
* * * * **
63428636 AGATCATAGCAAACTTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATTT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * *
63428701 CCCTAAAGCTGCAGTGGAGCAAACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
** * * *
63428766 AGATTAAAGCTATAAATTGCAGATTTTATCTCTCTAAAGTTGCAATAGGGT
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
* *
63428817 AG-TCATATCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTATAAGTCTTAACT
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
* * * * *
63428881 CCCTGAAGTTGTAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
66 CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
* * *
63428946 AGATTAAAGCTATAAATTAAATATCTTATCTTTCTAAAGTTGCAGTAGAGC
131 AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
* *
63428997 AGATCATAGCAAACCTTATCTCCCTTAAGTTGTAG
1 AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAG
63429032 TGGAATAGTG
Statistics
Matches: 187, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 156 0.83
181 31 0.17
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (181 bp):
AGATCATAGCAAACTTTATCTCCCTGAAGTTGTAGCGAAGCAGGTTGAAGTTACAAGTCTTAACT
CCCTAAAGCTGCAGTAGAGCAAACTGAAGATAACGAATCTTATTTCCCTAAAGTTGCAGTGGAAC
AGATTAAAGCTATAAATTAAAGATCTTATCTCTCTAAAGTTGCAATAGAGC
Found at i:63430951 original size:26 final size:25
Alignment explanation
Indices: 63430909--63431314 Score: 200
Period size: 26 Copynumber: 16.1 Consensus size: 25
63430899 AAAATTGTTA
*
63430909 TTTATTTATTTATTTATTTTAAATCT
1 TTTATATA-TTATTTATTTTAAATCT
* *
63430935 TTTCATATATTACTTATTTTAAATTGT
1 TTT-ATATATTATTTATTTTAAA-TCT
* *
63430962 TTTAT-TATTACTTATTTTAAGT-T
1 TTTATATATTATTTATTTTAAATCT
* *
63430985 TTTTTTTCATGTATTATTATTTTAAA-C-
1 TTTATAT-AT-TA-T-TTATTTTAAATCT
* * *
63431012 -TTATACATTATTCATTTTAAATTGT
1 TTTATATATTATTTATTTTAAA-TCT
* * *
63431037 TTTATATAGTATTCATTTCAAA-CT
1 TTTATATATTATTTATTTTAAATCT
*
63431061 GTTT-TAT-TGTATACTATTTTAAA-CT
1 -TTTATATAT-TAT-TTATTTTAAATCT
* *
63431086 AGTATATATATTAGTTATTTTAAAT-T
1 --TTTATATATTATTTATTTTAAATCT
*
63431112 GCTTTATATATTATTTATTTTAAACTGT
1 --TTTATATATTATTTATTTTAAA-TCT
* *
63431140 TTTATATTTTATTTATCTTAAAT-T
1 TTTATATATTATTTATTTTAAATCT
** * * *
63431164 TTT-TCATATGGTTTATTTTGAACCAA
1 TTTAT-ATATTATTTATTTTAAATC-T
* *
63431190 TTTGTATATTATTTATTTTAAATTT
1 TTTATATATTATTTATTTTAAATCT
*
63431215 TTTCATATATTA-TT-TTTTAAA-AT
1 TTT-ATATATTATTTATTTTAAATCT
*
63431238 TTT-TATATTATTTACTTTAAAT-T
1 TTTATATATTATTTATTTTAAATCT
* * *
63431261 GTTTCATTTATCATTTATTTTAAACCT
1 -TTT-ATATATTATTTATTTTAAATCT
* *
63431288 TTT-TATATTATTTACTTTAAATTT
1 TTTATATATTATTTATTTTAAATCT
63431312 TTT
1 TTT
63431315 TTACATATTA
Statistics
Matches: 293, Mismatches: 54, Indels: 68
0.71 0.13 0.16
Matches are distributed among these distances:
21 7 0.02
22 11 0.04
23 18 0.06
24 56 0.19
25 37 0.13
26 136 0.46
27 17 0.06
28 11 0.04
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTATATATTATTTATTTTAAATCT
Found at i:63431202 original size:50 final size:48
Alignment explanation
Indices: 63431125--63431314 Score: 176
Period size: 50 Copynumber: 3.9 Consensus size: 48
63431115 TTATATATTA
** *
63431125 TTTATTTTAAA-CTGTTTTATATTTTATTTA-TCTTAAATTTTTTCATAT
1 TTTATTTTAAACCAATTTT-TATATTATTTACT-TTAAATTTTTTCATAT
* * *
63431173 GGTTTATTTTGAACCAATTTGTATATTATTTATTTTAAATTTTTTCATAT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
* * *
63431223 ATTATTTTTTAA--AATTTTTATATTATTTACTTTAAATTGTTTCATTTAT
1 TTTA-TTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCA--TAT
63431272 CATTTATTTTAAACC--TTTTTATATTATTTACTTTAAATTTTTT
1 --TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTT
63431315 TTACATATTA
Statistics
Matches: 118, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
47 29 0.25
48 3 0.03
49 9 0.08
50 69 0.58
51 8 0.07
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (48 bp):
TTTATTTTAAACCAATTTTTATATTATTTACTTTAAATTTTTTCATAT
Found at i:63431231 original size:23 final size:23
Alignment explanation
Indices: 63431205--63431276 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
63431195 ATATTATTTA
63431205 TTTTAAATTTTTTCATATATTATT
1 TTTTAAATTTTTTCATATATTA-T
*
63431229 TTTTAAAATTTTT-ATATTATT-T
1 TTTTAAATTTTTTCATA-TATTAT
* * * *
63431251 ACTTTAAATTGTTTCATTTATCAT
1 -TTTTAAATTTTTTCATATATTAT
63431275 TT
1 TT
63431277 ATTTTAAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.46
24 19 0.51
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAAATTTTTTCATATATTAT
Found at i:63431307 original size:97 final size:97
Alignment explanation
Indices: 63431092--63431328 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 97
63431082 AACTAGTATA
* * *
63431092 TATATTAGTTATTTTAAATTGCTTTATATATTATTTATTTTAAACTGTTTTATATTTTATTTATC
1 TATATTATTTATTTTAAATT-TTTTATATATTA-TT-TTTTAAAATGTTTTATA-TTTATTTATC
* ** *
63431157 TTAAATTTTTTCATATGGTTTATTTTGAACCAATTTG
62 TTAAATTGTTTCATATCATTTATTTTAAACC-ATTTG
63431194 TATATTATTTATTTTAAATTTTTTCATATATTATTTTTTAAAAT-TTTTATA-TTATTTA-CTTT
1 TATATTATTTATTTTAAATTTTTT-ATATATTATTTTTTAAAATGTTTTATATTTATTTATC-TT
*
63431256 AAATTGTTTCATTTATCATTTATTTTAAACC-TTTT
64 AAATTGTTTCA--TATCATTTATTTTAAACCATTTG
* *
63431291 TATATTATTTACTTTAAATTTTTTTTACATATTATTTT
1 TATATTATTTATTTTAAA--TTTTTTATATATTATTTT
63431329 GTTTTGTTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
96 1 0.01
97 39 0.33
98 11 0.09
99 28 0.24
100 8 0.07
101 5 0.04
102 27 0.23
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (97 bp):
TATATTATTTATTTTAAATTTTTTATATATTATTTTTTAAAATGTTTTATATTTATTTATCTTAA
ATTGTTTCATATCATTTATTTTAAACCATTTG
Found at i:63435817 original size:26 final size:27
Alignment explanation
Indices: 63435784--63435844 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
63435774 TATAAGATTA
63435784 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
63435810 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
63435838 ATTATTT
1 ATTATTT
63435845 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:63437383 original size:54 final size:55
Alignment explanation
Indices: 63437314--63437423 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
63437304 GAACAAATTG
*
63437314 ATATCTCTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
*
63437369 ATATCACTCT-AAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
63437423 A
1 A
63437424 GTAAAGTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 44 0.83
55 9 0.17
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (55 bp):
ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTACAAAAATTTTAAA
Found at i:63441058 original size:17 final size:15
Alignment explanation
Indices: 63441022--63441061 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
63441012 ATTTATTTCA
63441022 TAATATAATAATAAT
1 TAATATAATAATAAT
*
63441037 TAATATAATTTATAATT
1 TAATATAA-TAATAA-T
63441054 TAATATAA
1 TAATATAA
63441062 AACCTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATAATAATAAT
Found at i:63444523 original size:26 final size:27
Alignment explanation
Indices: 63444490--63444550 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
63444480 CATCAGATTA
63444490 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
63444516 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
63444544 ATTATTT
1 ATTATTT
63444551 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:63447218 original size:2 final size:2
Alignment explanation
Indices: 63447211--63447250 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
63447201 ACAGCCTATT
63447211 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
63447251 CATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:63451345 original size:45 final size:43
Alignment explanation
Indices: 63451279--63451538 Score: 301
Period size: 45 Copynumber: 6.0 Consensus size: 43
63451269 TTAGAACGAA
* *
63451279 TATCCATTAATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--G
*
63451324 TATCCATGAATATAAAGGTGGTTGCTAAATGTTGATTCCACCGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-G
*
63451368 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCG
1 -TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
** * * *
63451412 TATCTTTGATTATAAAAGG-GGTTGCTATGTGCTGATTCC-CCG
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACCG
*
63451454 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
** * * * *
63451497 TATCTTTGATTATGAAAGG-GGTTGCTATGTGCTAATTCCACC
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACC
63451539 AGATATCATT
Statistics
Matches: 190, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
41 5 0.03
42 32 0.17
43 61 0.32
44 13 0.07
45 79 0.42
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
Found at i:63451448 original size:43 final size:42
Alignment explanation
Indices: 63451289--63451576 Score: 231
Period size: 45 Copynumber: 6.6 Consensus size: 42
63451279 TATCCATTAA
* * ** *
63451289 TATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC--GTATCTTTGAT
* * ** *
63451334 TATAAAGGTGGTTGCTAAATGTTGATTCCACCGGATATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
*
63451379 TATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATTC-ACCGTATCTTTGAT
* * * *
63451422 TATAAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCCTTGAA
1 TAT-AAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
*
63451464 TATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACCGTATCTTTGAT
* * * *
63451507 TATGAAAGG-GGTTGCTATGTGCTAATTCCACCAGATATCATTGTT
1 TAT-AAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
* * *
63451552 TATAAGGGTGG-TGCTATGTGATGAT
1 TATAAAGGTGGTTGCTAAGTGCTGAT
63451577 CCATCGTGTA
Statistics
Matches: 210, Mismatches: 24, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
41 5 0.02
42 30 0.14
43 62 0.30
44 31 0.15
45 82 0.39
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (42 bp):
TATAAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
Found at i:63451480 original size:85 final size:87
Alignment explanation
Indices: 63451278--63451576 Score: 356
Period size: 85 Copynumber: 3.4 Consensus size: 87
63451268 ATTAGAACGA
* ** *
63451278 ATATCCATT-AATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAATATAAAGG
1 ATATCC-TTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--GTATCTTTGATTATAAAGG
** *
63451342 TGGTTGCTAAATGTTGATTCCACCGG
63 -GGTTGCTATGTGCTGATTCCACCGG
* *
63451368 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCGTATCTTTGATTATAAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
63451433 TTGCTATGTGCTGATTCC-CC-G
65 TTGCTATGTGCTGATTCCACCGG
63451454 -TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATGAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
* *
63451518 TTGCTATGTGCTAATTCCACCAG
65 TTGCTATGTGCTGATTCCACCGG
* ** * * *
63451541 ATATCATTGTTTATAAGGGTGG-TGCTATGTGATGAT
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGAT
63451577 CCATCGTGTA
Statistics
Matches: 185, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
85 78 0.42
86 3 0.02
87 15 0.08
88 45 0.24
89 6 0.03
90 38 0.21
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (87 bp):
ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATAAAGGGGT
TGCTATGTGCTGATTCCACCGG
Found at i:63454399 original size:36 final size:36
Alignment explanation
Indices: 63454359--63454430 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63454349 ACCCTCACTT
63454359 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
63454395 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
63454431 ATCTTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (36 bp):
TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
Found at i:63458788 original size:22 final size:22
Alignment explanation
Indices: 63458763--63458805 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
63458753 AGCATCAATC
63458763 CTAATAAAAATTAACATCAGTA
1 CTAATAAAAATTAACATCAGTA
* *
63458785 CTAATGAAAATTAGCATCAGT
1 CTAATAAAAATTAACATCAGT
63458806 CAATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
CTAATAAAAATTAACATCAGTA
Found at i:63461741 original size:6 final size:6
Alignment explanation
Indices: 63461730--63461777 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
63461720 AATAATTATA
63461730 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
63461778 AAACCACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:63461928 original size:36 final size:37
Alignment explanation
Indices: 63461888--63461966 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 37
63461878 ATTTAATGCA
* * *
63461888 ATAAAATATTTATTATATTTAT-TTGTATTTTTTAAT
1 ATAAAAAAATTATTATATTTATATAGTATTTTTTAAT
63461924 ATAAAAAAATTATTATATTTATGATAGTATTTTTTAAT
1 ATAAAAAAATTATTATATTTAT-ATAGTATTTTTTAAT
63461962 ATAAA
1 ATAAA
63461967 TACTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 20 0.53
38 18 0.47
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (37 bp):
ATAAAAAAATTATTATATTTATATAGTATTTTTTAAT
Found at i:63472961 original size:38 final size:38
Alignment explanation
Indices: 63472919--63472995 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
63472909 CACCATTTGC
*
63472919 CTTACTCTATTATGTATGTATAATATTAAAAACCATTA
1 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
63472957 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
1 CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
63472995 C
1 C
63472996 AACCTCTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (38 bp):
CTTACTCCATTATGTATGTATAATATTAAAAACCATTA
Found at i:63476771 original size:30 final size:30
Alignment explanation
Indices: 63476703--63476776 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 30
63476693 TGCGAACCCA
* *
63476703 GTGTCCAATGTAAATAAATATTATTTGAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
63476733 GTGT----TGTAAATAAATAATATTTCAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
63476759 GTGTCCAATGTAAATAAA
1 GTGTCCAATGTAAATAAA
63476777 AAAAACTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 24 0.63
30 14 0.37
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (30 bp):
GTGTCCAATGTAAATAAATAATATTTCAAG
Found at i:63477401 original size:24 final size:24
Alignment explanation
Indices: 63477366--63477411 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
63477356 TTAATGATGT
* *
63477366 TTAAATTAGATTTTATTATTATAA
1 TTAAATTAGATTATAATATTATAA
63477390 TTAAACTT-GATTATAATATTAT
1 TTAAA-TTAGATTATAATATTAT
63477412 TTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAATTAGATTATAATATTATAA
Found at i:63483746 original size:32 final size:31
Alignment explanation
Indices: 63483705--63483766 Score: 115
Period size: 32 Copynumber: 2.0 Consensus size: 31
63483695 TATCTTTTCT
63483705 ATTATACTTTTAAGGCTAAAGGATATTATAAC
1 ATTATACTTTTAAGGCTAAAGGATA-TATAAC
63483737 ATTATACTTTTAAGGCTAAAGGATATATAA
1 ATTATACTTTTAAGGCTAAAGGATATATAA
63483767 GGAACTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (31 bp):
ATTATACTTTTAAGGCTAAAGGATATATAAC
Found at i:63485444 original size:45 final size:45
Alignment explanation
Indices: 63485380--63485470 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
63485370 TTAGAGAAGT
* *
63485380 TGGATTTCTTGATCATGTGATTTCAATAGAAGGCATACGGGTTGA
1 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
63485425 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
1 TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
63485470 T
1 T
63485471 CCGAGCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (45 bp):
TGGATTTCTTAATCATGTGATTTCAACAGAAGGCATACGGGTTGA
Found at i:63499429 original size:34 final size:34
Alignment explanation
Indices: 63499377--63499444 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
63499367 GCATTTTTGA
* *
63499377 CACTATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
*
63499410 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACT-ATACTGAAAAGGGCTAAGGCCCAAGACTGT
63499445 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTATACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:63503328 original size:20 final size:20
Alignment explanation
Indices: 63503303--63503341 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63503293 GAATTTTTTG
63503303 GGTAATTTTCAGGTAATTCA
1 GGTAATTTTCAGGTAATTCA
**
63503323 GGTAATTTTTGGGTAATTC
1 GGTAATTTTCAGGTAATTC
63503342 GGTTAATTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (20 bp):
GGTAATTTTCAGGTAATTCA
Found at i:63503348 original size:9 final size:9
Alignment explanation
Indices: 63503314--63503375 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
63503304 GTAATTTTCA
*
63503314 GGTAATTCA
1 GGTAATTCG
*
63503323 GGTAATTTTTG
1 GGTAA--TTCG
63503334 GGTAATTCG
1 GGTAATTCG
*
63503343 GTTAATTCG
1 GGTAATTCG
*
63503352 GTTAA-TCG
1 GGTAATTCG
63503360 GGTAATTCG
1 GGTAATTCG
63503369 GGTAATT
1 GGTAATT
63503376 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.16
9 31 0.69
11 7 0.16
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:63503365 original size:17 final size:17
Alignment explanation
Indices: 63503333--63503374 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
63503323 GGTAATTTTT
*
63503333 GGGTAATTCGGTTAATTC
1 GGGTAA-TCGGGTAATTC
*
63503351 GGTTAATCGGGTAATTC
1 GGGTAATCGGGTAATTC
63503368 GGGTAAT
1 GGGTAAT
63503375 TTTTAACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (17 bp):
GGGTAATCGGGTAATTC
Found at i:63505199 original size:20 final size:20
Alignment explanation
Indices: 63505174--63505212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63505164 GAATTTTTTG
63505174 GGTAATTTTCAGGTAATTCA
1 GGTAATTTTCAGGTAATTCA
**
63505194 GGTAATTTTTGGGTAATTC
1 GGTAATTTTCAGGTAATTC
63505213 GGTTAATTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (20 bp):
GGTAATTTTCAGGTAATTCA
Found at i:63505219 original size:9 final size:9
Alignment explanation
Indices: 63505185--63505246 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
63505175 GTAATTTTCA
*
63505185 GGTAATTCA
1 GGTAATTCG
*
63505194 GGTAATTTTTG
1 GGTAA--TTCG
63505205 GGTAATTCG
1 GGTAATTCG
*
63505214 GTTAATTCG
1 GGTAATTCG
*
63505223 GTTAA-TCG
1 GGTAATTCG
63505231 GGTAATTCG
1 GGTAATTCG
63505240 GGTAATT
1 GGTAATT
63505247 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.16
9 31 0.69
11 7 0.16
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:63505236 original size:17 final size:17
Alignment explanation
Indices: 63505204--63505245 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
63505194 GGTAATTTTT
*
63505204 GGGTAATTCGGTTAATTC
1 GGGTAA-TCGGGTAATTC
*
63505222 GGTTAATCGGGTAATTC
1 GGGTAATCGGGTAATTC
63505239 GGGTAAT
1 GGGTAAT
63505246 TTTTAACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (17 bp):
GGGTAATCGGGTAATTC
Found at i:63507194 original size:13 final size:14
Alignment explanation
Indices: 63507160--63507197 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
63507150 TTTTCTTATG
63507160 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
63507175 TAT-TTATTT-GTT
1 TATATTATTTCGTT
63507187 TATATTATTTC
1 TATATTATTTC
63507198 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:63507224 original size:15 final size:15
Alignment explanation
Indices: 63507204--63507237 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
63507194 TTTCTATGTC
63507204 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
63507219 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
63507234 ATTG
1 ATTG
63507238 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:63517359 original size:56 final size:56
Alignment explanation
Indices: 63517254--63517377 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
63517244 AAATAAATCG
* * * **
63517254 AATAGTTGAGTGACAATTTTGTAACTTTTCATAGTTGGATGACTTAAAAAATTACT
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
* ** * *
63517310 AATAGTTGGGTGACTTTTTTGTAACTTTTAACAATTTGATGACAAAAAAAA-AAC-
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
*
63517364 CATAGTTGAGTGAC
1 AATAGTTGAGTGAC
63517378 TACTAATGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 12 0.21
55 2 0.04
56 42 0.75
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (56 bp):
AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACAAAAAAAATTACT
Found at i:63517586 original size:17 final size:17
Alignment explanation
Indices: 63517564--63517601 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
63517554 TGAATTAATA
*
63517564 CAAACCCGAAAT-AAATC
1 CAAACCCAAAATGAAA-C
63517581 CAAACCCAAAATGAAAC
1 CAAACCCAAAATGAAAC
63517598 CAAA
1 CAAA
63517602 ATTTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.58, C:0.29, G:0.05, T:0.08
Consensus pattern (17 bp):
CAAACCCAAAATGAAAC
Found at i:63519101 original size:21 final size:25
Alignment explanation
Indices: 63519060--63519106 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
63519050 AATGAAGTTG
63519060 ATTTAAATAAATCACTAAAAT-TTT
1 ATTTAAATAAATCACTAAAATATTT
63519084 ATTTAAA-AAA-CA-TAAAATATTT
1 ATTTAAATAAATCACTAAAATATTT
63519106 A
1 A
63519107 AAAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 3 0.14
24 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTTAAATAAATCACTAAAATATTT
Found at i:63519335 original size:20 final size:20
Alignment explanation
Indices: 63519299--63519336 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63519289 ACCCTAACTC
*
63519299 GAATCCTAAACTTAAACCTT
1 GAATCCTAAACTCAAACCTT
63519319 GAAT-CTAAACCTCAAACC
1 GAATCCTAAA-CTCAAACC
63519337 CCCAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
GAATCCTAAACTCAAACCTT
Found at i:63521665 original size:18 final size:17
Alignment explanation
Indices: 63521632--63521678 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
63521622 AATATAGCTT
*
63521632 TTTTTTAGTTTAAAAATA
1 TTTTTTA-TTTAAAAAAA
63521650 TTTTTTATTTAAAAAAA
1 TTTTTTATTTAAAAAAA
* *
63521667 TTGTCTATTTAA
1 TTTTTTATTTAA
63521679 TAATGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTTTTATTTAAAAAAA
Found at i:63523122 original size:22 final size:21
Alignment explanation
Indices: 63523095--63523143 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
63523085 CATTTGGTGA
*
63523095 AAATATGTTTGAAA-ATTTTATC
1 AAATAT-TTTCAAACATTTT-TC
63523117 AAATATTTTCAAAGCATTTTTC
1 AAATATTTTCAAA-CATTTTTC
63523139 AAATA
1 AAATA
63523144 CACTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATATTTTCAAACATTTTTC
Found at i:63526200 original size:21 final size:23
Alignment explanation
Indices: 63526174--63526221 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
63526164 AATCTGCTAC
63526174 TTTTTGTTGTTGTTTT-T-ATTG
1 TTTTTGTTGTTGTTTTGTCATTG
63526195 TTTTTGTTGTTGTTTTGTCATTG
1 TTTTTGTTGTTGTTTTGTCATTG
63526218 TTTT
1 TTTT
63526222 GGTGTCGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 16 0.64
22 1 0.04
23 8 0.32
ACGTcount: A:0.04, C:0.02, G:0.19, T:0.75
Consensus pattern (23 bp):
TTTTTGTTGTTGTTTTGTCATTG
Found at i:63528603 original size:31 final size:31
Alignment explanation
Indices: 63528565--63528624 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
63528555 AAAAGAAAGA
63528565 TCAAATTTTAACATATTAAAGGGACTAAATT
1 TCAAATTTTAACATATTAAAGGGACTAAATT
63528596 TCAAATTTTAACATATTAAAGGGACTAAA
1 TCAAATTTTAACATATTAAAGGGACTAAA
63528625 AAGTAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (31 bp):
TCAAATTTTAACATATTAAAGGGACTAAATT
Found at i:63531053 original size:6 final size:6
Alignment explanation
Indices: 63531042--63531068 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63531032 GGATTATGAA
63531042 GATAAT GATAAT GATAAT GATAAT GAT
1 GATAAT GATAAT GATAAT GATAAT GAT
63531069 GTGGGCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
GATAAT
Found at i:63532910 original size:3 final size:3
Alignment explanation
Indices: 63532884--63533106 Score: 80
Period size: 3 Copynumber: 72.7 Consensus size: 3
63532874 AAAAAAAGGA
* * * *
63532884 AAT AGT AAT AGT AAT AAT ATT AAT AAT AAAT AAT GAT AAT AAGT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T A-AT
* *
63532932 GAGA- AAT -AT GAA- AAT AAT AAT AAT TAT AAT AGT AAT -AT CAAT GAA-
1 -A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
* * * * *
63532977 AAT ATT AAT AAT ATT AAAT AAAT AAT AAT ATT AAC AAT AATT TAT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT
** ** * * * **
63533025 AAT GTT AAT AGG AAC AA- AAT AAC AAT AAT ACT AAT AAT AAT AAT GCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
63533072 AGT AAT AAT AAG GAT AAT AAT AGT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63533107 AAAGGTCAAT
Statistics
Matches: 158, Mismatches: 48, Indels: 28
0.68 0.21 0.12
Matches are distributed among these distances:
2 11 0.07
3 124 0.78
4 19 0.12
5 4 0.03
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63536473 original size:15 final size:15
Alignment explanation
Indices: 63536455--63536484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63536445 CGAATAATAG
63536455 TAGTAAAAATAGTAA
1 TAGTAAAAATAGTAA
*
63536470 TAGTAATAATAGTAA
1 TAGTAAAAATAGTAA
63536485 CGAAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
TAGTAAAAATAGTAA
Found at i:63537168 original size:21 final size:21
Alignment explanation
Indices: 63537142--63537185 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
63537132 CGAACCAAGA
*
63537142 AAAAAATGAAA-AAATAAGAGC
1 AAAAAAT-AAATAAATAAAAGC
63537163 AAAAAATAAATAAATAAAAGC
1 AAAAAATAAATAAATAAAAGC
63537184 AA
1 AA
63537186 TCACCTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAAAATAAATAAATAAAAGC
Found at i:63537610 original size:15 final size:14
Alignment explanation
Indices: 63537590--63537623 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
63537580 GGGATACTAC
*
63537590 AATTATCTTAATATT
1 AATTATCCTAATA-T
63537605 AATTATCCTAATAT
1 AATTATCCTAATAT
63537619 AATTA
1 AATTA
63537624 AAATAGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTATCCTAATAT
Found at i:63539986 original size:44 final size:44
Alignment explanation
Indices: 63539936--63540026 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
63539926 ACTCTATTTT
* * *
63539936 TTAGTTTTCCACTTAAACTCTTATTAGTGTAGGTTATTTTATTA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
63539980 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
63540024 TTA
1 TTA
63540027 TTTGACCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
Found at i:63540139 original size:11 final size:11
Alignment explanation
Indices: 63540123--63540167 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
63540113 TTTTAATATT
*
63540123 TTTATTCTGTG
1 TTTATTATGTG
63540134 TTTATTATGTG
1 TTTATTATGTG
** *
63540145 TGAATTTTGTG
1 TTTATTATGTG
63540156 TTTATTATGTG
1 TTTATTATGTG
63540167 T
1 T
63540168 GAATTTACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.62
Consensus pattern (11 bp):
TTTATTATGTG
Found at i:63540155 original size:22 final size:22
Alignment explanation
Indices: 63540130--63540173 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
63540120 ATTTTTATTC
63540130 TGTGTTTATTATGTGTGAATTT
1 TGTGTTTATTATGTGTGAATTT
63540152 TGTGTTTATTATGTGTGAATTT
1 TGTGTTTATTATGTGTGAATTT
63540174 ACATGTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (22 bp):
TGTGTTTATTATGTGTGAATTT
Found at i:63541335 original size:41 final size:41
Alignment explanation
Indices: 63541278--63541434 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
63541268 TTTTGTAAGT
*
63541278 TCAGGCTTTATGCCTAGCAGGCTTTATACCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* **
63541319 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * * *
63541360 TCAGACTTTATGTCTAGCAGGCTTTGTGTCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
63541401 TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
63541435 TTTTATACAA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 2 0.02
41 92 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:63542380 original size:138 final size:137
Alignment explanation
Indices: 63542238--63542541 Score: 393
Period size: 138 Copynumber: 2.2 Consensus size: 137
63542228 TGATGTATTG
* * *
63542238 TGTATATGCTGCCCATTTGTTATATATATATATAGTTCAA-TTTT-AGTGTAAAAATGTTGCTCA
1 TGTATATGCTGCCCATTTGTTGTATATATAT-T-G-TCAAGTTTTGA-TGTAAAAATGCTGCTAA
* * *
63542301 A-T-GT-GGTATATGCTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGTAAAAGTGTT
62 ATTGGTAGGTATATGCTGCCTAATTGCTGTA-A-ATATGCTGTTAAATTTTGGTGTAAAAGTGCT
63542363 GTTAAATTTGGTA
125 GTTAAATTTGGTA
* * * * *
63542376 TGTATATGCTGCCTATTTGCTGTATATATGTTGTCAAGTTTTGATGTAAAAGTGCTGTTAAATTT
1 TGTATATGCTGCCCATTTGTTGTATATATATTGTCAAGTTTTGATGTAAAAATGCTGCTAAA-TT
*
63542441 GGTATGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
65 GGTAGGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
63542506 ATTTGGTA
130 ATTTGGTA
*
63542514 TGTATATGCTGTCCATTTGTTGTATATA
1 TGTATATGCTGCCCATTTGTTGTATATA
63542542 AGCTGTCCAA
Statistics
Matches: 145, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
135 4 0.03
136 19 0.13
137 2 0.01
138 95 0.66
139 3 0.02
140 22 0.15
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (137 bp):
TGTATATGCTGCCCATTTGTTGTATATATATTGTCAAGTTTTGATGTAAAAATGCTGCTAAATTG
GTAGGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAA
TTTGGTA
Found at i:63542436 original size:69 final size:69
Alignment explanation
Indices: 63542306--63542584 Score: 355
Period size: 69 Copynumber: 4.0 Consensus size: 69
63542296 GCTCAATGTG
* *
63542306 GTATATGCTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGTAAAAGTGTTGTTAAATT
1 GTATATGCTGCCTAATTGCTGTATA--TATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATT
63542371 TGGTAT
64 TGGTAT
* * * * *
63542377 GTATATGCTGCCTATTTGCTGTATATATGTTGTCAAGTTTTGATGTAAAAGTGCTGTTAAATTTG
1 GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
63542442 GTAT
66 GTAT
*
63542446 GTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
1 GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
63542511 GTAT
66 GTAT
* * * * * * **
63542515 GTATATGCTGTCC-ATTTGTTGTATATAAGCTGTCCAAAATTTGGTGTATAAA-TGCTATTTCAT
1 GTATATGCTG-CCTAATTGCTGTATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAAAT
63542578 TTGGTAT
63 TTGGTAT
63542585 ATATTTGTTG
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
69 128 0.70
70 29 0.16
71 26 0.14
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (69 bp):
GTATATGCTGCCTAATTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTG
GTAT
Found at i:63542562 original size:25 final size:24
Alignment explanation
Indices: 63542504--63542564 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
63542494 AAGTGCTGTT
* * *
63542504 AAATTTGGTATGTATATGCTGTCC
1 AAATTTGGTGTATATAAGCTGTCC
*
63542528 --ATTTGTTGTATATAAGCTGTCC
1 AAATTTGGTGTATATAAGCTGTCC
63542550 AAAATTTGGTGTATA
1 -AAATTTGGTGTATA
63542565 AATGCTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 18 0.62
25 11 0.38
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (24 bp):
AAATTTGGTGTATATAAGCTGTCC
Found at i:63546589 original size:23 final size:23
Alignment explanation
Indices: 63546563--63546606 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
63546553 ACCCATAATG
63546563 TAATATCCC-GAAAATTACTACTT
1 TAATA-CCCTGAAAATTACTACTT
63546586 TAATACCCTGAAAATTACTAC
1 TAATACCCTGAAAATTACTAC
63546607 AGTTAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATACCCTGAAAATTACTACTT
Found at i:63558453 original size:16 final size:15
Alignment explanation
Indices: 63558415--63558458 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
63558405 TACAAAAAAG
*
63558415 AAATTAAACTATGATT
1 AAATTAAA-AATGATT
63558431 AATATTAAAAATGATCT
1 AA-ATTAAAAATGAT-T
63558448 AAATTAAAAAT
1 AAATTAAAAAT
63558459 ATTTATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATTAAAAATGATT
Found at i:63560156 original size:33 final size:33
Alignment explanation
Indices: 63560116--63560237 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 33
63560106 ATATGAATTT
63560116 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
63560149 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* **
63560182 TTTTATGATCTAATTGATG-AAAT-ATATGAGT
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* *
63560213 TTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTCAATA
63560238 TTAAGTGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
31 23 0.28
32 6 0.07
33 52 0.64
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTATGATCTAATTGATGTCAATAATATGAAC
Found at i:63560227 original size:64 final size:66
Alignment explanation
Indices: 63560116--63560237 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 66
63560106 ATATGAATTT
* * *
63560116 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGTCAATAATATGAA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
63560181 C
66 C
**
63560182 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATA
63560238 TTAAGTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 29 0.57
65 3 0.06
66 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (66 bp):
TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
C
Found at i:63560511 original size:205 final size:205
Alignment explanation
Indices: 63560149--63560598 Score: 744
Period size: 205 Copynumber: 2.2 Consensus size: 205
63560139 TAATATGAAC
* * * *
63560149 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGAAATATATGAGTT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
63560214 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
66 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
63560279 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
131 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
63560344 TATATAAATT
196 TATATAAATT
* * *
63560354 TTTTAAGATCTAATTGATGTCAATAATATGATTTTTTATGATCTGATTAATGAAAGATATGAGTC
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
63560419 TTTATGATATAATTGATATCAAT-TGTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
66 TTTATGATATAATTGATATCAATAT-TAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
* * * *
63560483 TGTATCGTGCATGCTTTTTAGTTCATCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAA
130 TGGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAA
*
63560548 ATATATGAATT
195 ATATATAAATT
* *
63560559 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGAT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGAT
63560599 ACAATTGATG
Statistics
Matches: 229, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
203 16 0.07
204 4 0.02
205 209 0.91
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (205 bp):
TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
TATATAAATT
Found at i:63560596 original size:31 final size:32
Alignment explanation
Indices: 63560543--63560608 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
63560533 AGTAGAATGA
*
63560543 ATGAAATATATGAATTTTTTATGAT-CTAATTG
1 ATGAAATATATGAAGTTTTTATGATAC-AATTG
63560575 ATGAAATATATG-AGTTTTTATGATACAATTG
1 ATGAAATATATGAAGTTTTTATGATACAATTG
63560606 ATG
1 ATG
63560609 TCAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (32 bp):
ATGAAATATATGAAGTTTTTATGATACAATTG
Found at i:63560741 original size:171 final size:172
Alignment explanation
Indices: 63560379--63560748 Score: 507
Period size: 172 Copynumber: 2.2 Consensus size: 172
63560369 GATGTCAATA
* * *
63560379 ATAT-GATTTTTTATGATCTGATTAATGAAAGATATGAGTCTTTATGATATAATTGATATCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
** * * *
63560443 GTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTATGTATCGTGCATGCTTTTTAGTTCA
66 GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
**
63560508 TCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAAAT
131 TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* * * *
63560550 ATATGAATTTTTTATGATCTAATTGATGAAATATATGAGTTTTTATGATACAATTGATGTCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
* * *
63560615 ATTTAGACTTTTCT-CCCTTCCCATTCTAGGTGCATTTGTGA-GGAT-GATGCATGC-TTTTAGC
66 -GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGT-ATGGATCG-TGCATGCTTTTTAGC
*
63560676 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATTAATGAAAT
128 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
*
63560721 ATATGGATTTTTTATGATCTAAGTGATG
1 ATATGGATTTTTTATGATCTAATTGATG
63560749 TCAATTATAT
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
171 79 0.45
172 87 0.50
173 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (172 bp):
ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
Found at i:63566528 original size:153 final size:154
Alignment explanation
Indices: 63566211--63566500 Score: 361
Period size: 153 Copynumber: 1.9 Consensus size: 154
63566201 GTGGAATATG
* * *
63566211 TGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATTGTTAAAGTAGTGTGATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* ** * * * *
63566276 GGTACTTTTTGCAATTCCTCAGGGACGTATGCCTCTGCCCCTTGGAAGTTTTCAGTGGTTTATGG
66 GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
* *
63566341 ATGAACTAGTTGGATGTCAGTGGAA
131 ATGAACTAGTTGGATGACACT-GAA
* * * *
63566366 TGCTGTTGAAATCC-TT-TGTATATTTATCGACCTATGACCATCGTTAGAGTAGTATTATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* * * *
63566429 GGTA-TTTTTGGCAATTCGTCAGGGACATACACATCGGGCCCTTAGAGGTTTTTAGTGATTTATG
66 GGTACTTTTT-GCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATG
63566493 GATGAACT
130 GATGAACT
63566501 GGTTCCTGAT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
152 5 0.04
153 96 0.83
154 2 0.02
155 13 0.11
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (154 bp):
TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
ATGAACTAGTTGGATGACACTGAA
Found at i:63573828 original size:15 final size:14
Alignment explanation
Indices: 63573795--63573833 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
63573785 ATTTGATTGA
63573795 AAAATGACTTCTAG
1 AAAATGACTTCTAG
*
63573809 AAAATGATTTCTAG
1 AAAATGACTTCTAG
63573823 ACAAATGACTT
1 A-AAATGACTT
63573834 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:63575909 original size:71 final size:71
Alignment explanation
Indices: 63575789--63575924 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
63575779 TTGAATTTGA
* *
63575789 GGTTTAACTTAGTTGATCCTTGTGAGTGGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
63575854 AACTTG
66 AACTTG
* * * *
63575860 GGTTTAACTCGGTTGATTCTTGTGAGTAGG-ATTGTTGAAACTTAGTGGACCAGAAAAGTAAATA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATT-TTGAAACTTAATGGACCAAAAAAGTAAATA
63575924 A
65 A
63575925 TTCGAGTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 3 0.05
71 55 0.95
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (71 bp):
GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
AACTTG
Found at i:63576305 original size:109 final size:109
Alignment explanation
Indices: 63576193--63576568 Score: 383
Period size: 109 Copynumber: 3.5 Consensus size: 109
63576183 TAGAGTTACT
*
63576193 CCATTTGATTTATTAATATGATTATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * * * *
63576258 TGGGAAAGCAACAATGTATTGTAGCAATTGTGTGTAGGTTTAGT
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * **
63576302 CCATTTGATTTACTAATATGATCATTTGAACACACTAGTATTTCAATTTATATTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * *
63576367 TGAGAGGGAAACAAAGTATTGTGGCAATTGTGTCTAGGCTTGGC
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * * * * *
63576411 CCATTT-AGTTAATTAATATGATTATTT-AACAC-C-C-TTTTTCAATTTATGCTAATACC---T
1 CCATTTGA-TTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTAT
* *** * *
63576468 TT-GGAAGGGGAACAAAGTACCATGGTAGTTGTGTCTAGGTTTAGC
65 TTGGGAA-GGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * ** *
63576513 CCATTTGGTTTATTATTATGATCATTTGAACATGCTCGTATTTTAATTTACGTTAA
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAA
63576569 CGTTAAGTCA
Statistics
Matches: 218, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
101 2 0.01
102 55 0.25
103 4 0.02
104 1 0.00
105 19 0.09
106 14 0.06
107 1 0.00
108 6 0.03
109 116 0.53
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (109 bp):
CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
Found at i:63577566 original size:9 final size:10
Alignment explanation
Indices: 63577540--63577573 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
63577530 TAAGGGTGTA
63577540 TTTAAAATTT
1 TTTAAAATTT
63577550 TTTAAAATTT
1 TTTAAAATTT
*
63577560 TTTAAATTTT
1 TTTAAAATTT
63577570 TTTA
1 TTTA
63577574 TATATTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:63580916 original size:65 final size:65
Alignment explanation
Indices: 63580842--63580965 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
63580832 AAATGGTATT
* * *
63580842 TATTGCATATTAGTATTTGTACGTAAGCATCAAATATGGCC-TAAAATCATCTTGAGCTCGTTTT
1 TATTGCATATTAGTATATGTACGTAAGCAGCAAATAT-ACCTTAAAATCATCTTGAGCTCGTTTT
63580906 G
65 G
63580907 TATTGCATATTAGTATATGTACGTAAGCAGCAAATATACCTTAAAATCATCTTGAGCTC
1 TATTGCATATTAGTATATGTACGTAAGCAGCAAATATACCTTAAAATCATCTTGAGCTC
63580966 ATTTCGGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 2 0.04
65 53 0.96
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (65 bp):
TATTGCATATTAGTATATGTACGTAAGCAGCAAATATACCTTAAAATCATCTTGAGCTCGTTTTG
Found at i:63584283 original size:15 final size:15
Alignment explanation
Indices: 63584263--63584292 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63584253 TAGCAAAAAA
63584263 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
63584278 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
63584293 AGAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAATTTAAATAT
Found at i:63585443 original size:6 final size:6
Alignment explanation
Indices: 63585432--63585463 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
63585422 TATAATAATG
*
63585432 AGGAGA AGGAGA AGGAGA AGGAGA AGTAGA AG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AG
63585464 AAGCAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (6 bp):
AGGAGA
Found at i:63593585 original size:80 final size:82
Alignment explanation
Indices: 63593435--63593591 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 82
63593425 TAGGAAGGGC
* * * *
63593435 TATGTTTATGAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTTGCTATTTTTTAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
63593500 ATTTAGAATTCAAAAGT
66 ATTTAGAATTCAAAAGT
* *
63593517 TATGTTTATAAGTTGCATCTCTAATGATCTA-T-TAAAAAAAACTTGGCTATTGTATAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
63593580 ATTTAGAATTCA
66 ATTTAGAATTCA
63593592 GTAAATGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 39 0.57
81 1 0.01
82 29 0.42
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (82 bp):
TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
ATTTAGAATTCAAAAGT
Found at i:63597950 original size:19 final size:21
Alignment explanation
Indices: 63597926--63597965 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
63597916 AGCATAAATT
63597926 ATATAATATA-TAT-AACATA
1 ATATAATATATTATAAACATA
63597945 ATATAATATATTATAAACATA
1 ATATAATATATTATAAACATA
63597966 GAAAATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATATTATAAACATA
Found at i:63599794 original size:18 final size:18
Alignment explanation
Indices: 63599753--63599796 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
63599743 CTTTTAAGTT
63599753 TGTAATATTTTATATTATA
1 TGTAAT-TTTTATATTATA
63599772 T-TAATTTTTATA-TATTA
1 TGTAATTTTTATATTA-TA
63599789 TGTAATTT
1 TGTAATTT
63599797 ATAACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 10 0.43
18 10 0.43
19 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TGTAATTTTTATATTATA
Found at i:63605347 original size:31 final size:31
Alignment explanation
Indices: 63605309--63605367 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
63605299 GATAGCCTAG
63605309 TGACTTAAATAAAAACTTTCAAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAGTTCAA
* **
63605340 TGACTTAAATGAAAACTTTTGAATAGTT
1 TGACTTAAATAAAAACTTTCAAATAGTT
63605368 TATTGACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAA
Found at i:63609227 original size:16 final size:15
Alignment explanation
Indices: 63609207--63609244 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
63609197 AAAAATTTTA
63609207 ATAAATTAAAATAAT
1 ATAAATTAAAATAAT
63609222 ATTAAATTAAAATAAT
1 A-TAAATTAAAATAAT
63609238 ATAAATT
1 ATAAATT
63609245 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAATTAAAATAAT
Found at i:63615450 original size:15 final size:16
Alignment explanation
Indices: 63615422--63615451 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63615412 TCAAAAAATA
63615422 AATAAAATAATCATAC
1 AATAAAATAATCATAC
63615438 AATAAAA-AATCATA
1 AATAAAATAATCATA
63615452 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAATCATAC
Found at i:63615955 original size:18 final size:19
Alignment explanation
Indices: 63615916--63615956 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
63615906 ATTGTTTGGA
*
63615916 TATTGTATAATTCTTATTT
1 TATTGTATAATTCTTATAT
63615935 TATTGT-TAATT-TTACTAT
1 TATTGTATAATTCTTA-TAT
63615953 TATT
1 TATT
63615957 TTAGGGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTATAT
Found at i:63618918 original size:95 final size:94
Alignment explanation
Indices: 63618747--63618939 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 94
63618737 ACTATTTGGC
* * *
63618747 AGTTAAGTTTGGCTTCAATTTTCAATTTGGTACTTGAATATTTTTTTGCCAATTTGGTACATGAG
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
*
63618812 TTTGGCCACAATGTTCATTTTGGTACCTG
66 TTTGGCCACAATGTTCATTTTGGTACCTA
*
63618841 AGTTGAGTTTGGCTTCAATCTTCAATTTGGCACCT-AA-ATTCTTTTTGTCCCAATTTGGTACAT
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATT-TTTTTG--CCAATTTGGTACAT
*
63618904 GAGTTTGGCTACAATGTTCATTTTGGTACCTA
63 GAGTTTGGCCACAATGTTCATTTTGGTACCTA
63618936 AGTT
1 AGTT
63618940 TTTTTGTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.03
93 8 0.09
94 31 0.34
95 48 0.53
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (94 bp):
AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
TTTGGCCACAATGTTCATTTTGGTACCTA
Found at i:63621180 original size:19 final size:19
Alignment explanation
Indices: 63621151--63621202 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
63621141 GGCCACATTT
*
63621151 CAATTGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
63621170 TAATGGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
63621189 CAATGAGTTTTTTT
1 CAATGGGTTTTTTT
63621203 TTTAAATGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (19 bp):
CAATGGGTTTTTTTAACGG
Found at i:63623259 original size:56 final size:55
Alignment explanation
Indices: 63623166--63623273 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
63623156 AGTAGTTACG
* *
63623166 TTAGAAATCAAATTGATAAATATAATGCCCCATAATAATATCCTATAATATCCCA
1 TTAGAAATCAAATTGATAAAGATAATACCCCATAATAATATCCTATAATATCCCA
* *
63623221 TTAGAAATCAAATTGTTAAGAGATAATATCCCATAATAATATCCTATAATATC
1 TTAGAAATCAAATTGATAA-AGATAATACCCCATAATAATATCCTATAATATC
63623274 TGTTAAAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 18 0.38
56 30 0.62
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (55 bp):
TTAGAAATCAAATTGATAAAGATAATACCCCATAATAATATCCTATAATATCCCA
Found at i:63624024 original size:37 final size:37
Alignment explanation
Indices: 63623967--63624072 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
63623957 TATGATCACT
*
63623967 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
63624002 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
63624039 TATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
63624073 GAAGCTATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:63624114 original size:52 final size:52
Alignment explanation
Indices: 63624035--63624199 Score: 243
Period size: 46 Copynumber: 3.2 Consensus size: 52
63624025 TAAGTGTAGC
* *
63624035 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
63624088 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
63624140 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
63624186 CACTTTGTCACTTG
1 CACTTT-TCACTTG
63624200 ATCAGAAGTA
Statistics
Matches: 101, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
46 44 0.44
49 1 0.01
50 1 0.01
52 43 0.43
53 12 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:63636362 original size:4 final size:4
Alignment explanation
Indices: 63636355--63636397 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
63636345 ATGCATGCAT
*
63636355 TATG TATG TATG AATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
63636398 ACAGACCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:63636879 original size:217 final size:217
Alignment explanation
Indices: 63636356--63636991 Score: 966
Period size: 212 Copynumber: 3.0 Consensus size: 217
63636346 TGCATGCATT
* * * * *
63636356 ATGTATGTATGA-ATGTATGTATGTATGTATGTATGTATGTATACAGACCATATTTACCAT-TAA
1 ATGTATGTAT-ATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCT-A
* * *
63636419 CAATAACACCTAACAATGAGAGTACCATATGGGAGAAAAAACATGCATAGGTTGGTCACCATTTG
64 CAAGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTG
*
63636484 AATCAATGCCTG-TAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTA-TTAGCCATGACTT
129 AAACAATGCC-GATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTT
63636547 TTCTCCTAACATATTTACCACCAAC
193 TTCTCCTAACATATTTACCACCAAC
* * *
63636572 A-G---GTATATATACATGTAGGTATGCATGTATGTGTGTATACACACCATATTTTCCATCAACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
63636633 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
63636698 ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
131 ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
63636763 TCCTAACATATTTACCACCAAC
196 TCCTAACATATTTACCACCAAC
63636785 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
1 ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
* * * *
63636850 AGAACACCTAACAAGGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTGCACTAATTAA
66 AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGT-CACCATTTGA
* ** * *
63636915 AACAATGCCTATAAGAAATCAAAGGCAT-TAATATCAACTGCAGGCCCATTTAGCAATGACTTTT
130 AACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTT
* *
63636979 GTCTTAACATATT
195 CTCCTAACATATT
63636992 CATCGATATA
Statistics
Matches: 385, Mismatches: 26, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
211 2 0.01
212 155 0.40
213 39 0.10
214 1 0.00
215 1 0.00
216 1 0.00
217 152 0.39
218 34 0.09
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (217 bp):
ATGTATGTATATATATATGTAGGTATGCATGTATGTATGTATACACACCATATTTTCCATCTACA
AGAACACCTAACAATGAGAGTACCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAA
ACAATGCCGATAAGAAATCAAAGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTC
TCCTAACATATTTACCACCAAC
Found at i:63637916 original size:13 final size:12
Alignment explanation
Indices: 63637898--63637928 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
63637888 GGGAAAAGTG
63637898 AGAAAAAAAGAAA
1 AGAAAAAAAG-AA
63637911 AGAAAAAAAGAA
1 AGAAAAAAAGAA
63637923 AGAAAA
1 AGAAAA
63637929 TTGGAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAA
Done.