Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 76 of 425
Found at i:21405602 original size:14 final size:14
Alignment explanation
Indices: 21405565--21405619 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
21405555 AATAATACAA
*
21405565 AAAATAATAT-TAT
1 AAAATAATATAAAT
* *
21405578 AATATATTATAAAT
1 AAAATAATATAAAT
21405592 AAAATAATATAAAT
1 AAAATAATATAAAT
*
21405606 AAATTAATA-AAAT
1 AAAATAATATAAAT
21405619 A
1 A
21405620 TATAAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 13 0.37
14 22 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATAATATAAAT
Found at i:21405618 original size:27 final size:29
Alignment explanation
Indices: 21405552--21405619 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 29
21405542 ATAGAAATAG
*
21405552 ATAAA-TAATACAA-AAAATAATATTATA
1 ATAAATTAATAAAATAAAATAATATTATA
*
21405579 ATATATT-AT-AAATAAAATAATA-TA-A
1 ATAAATTAATAAAATAAAATAATATTATA
21405604 ATAAATTAATAAAATA
1 ATAAATTAATAAAATA
21405620 TATAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
25 7 0.21
26 6 0.18
27 20 0.59
28 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAAATTAATAAAATAAAATAATATTATA
Found at i:21405624 original size:21 final size:22
Alignment explanation
Indices: 21405589--21405631 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
21405579 ATATATTATA
21405589 AATAAAATAATATAAATAAATT
1 AATAAAATAATATAAATAAATT
21405611 AATAAAAT-ATATAAATAAATT
1 AATAAAATAATATAAATAAATT
21405632 CTAATACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAAATAATATAAATAAATT
Found at i:21406943 original size:16 final size:15
Alignment explanation
Indices: 21406922--21406965 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
21406912 GGTTTATTGA
21406922 TTTAGGTTTTAGGAT
1 TTTAGGTTTTAGGAT
21406937 GTTTAGGCTTTTTAGGAT
1 -TTTAGG--TTTTAGGAT
*
21406955 TTAAGGTTTTA
1 TTTAGGTTTTA
21406966 AATTGATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.20
16 6 0.24
17 5 0.20
18 9 0.36
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.52
Consensus pattern (15 bp):
TTTAGGTTTTAGGAT
Found at i:21408438 original size:33 final size:32
Alignment explanation
Indices: 21408396--21408511 Score: 130
Period size: 32 Copynumber: 3.6 Consensus size: 32
21408386 ACACATACGG
* *
21408396 TTTTGTGAAATGATAAGAAATATCAGCTTTTAA
1 TTTTGTGAAATGATAACAAATATCAAC-TTTAA
*
21408429 TTTTGTGAAATTATAACAAAT-TACAACTTTAA
1 TTTTGTGAAATGATAACAAATAT-CAACTTTAA
*
21408461 TTTTGTAAAATGATAACAAATATCAA--TTAGCA
1 TTTTGTGAAATGATAACAAATATCAACTTTA--A
*
21408493 TTTTGTTAAATGATAACAA
1 TTTTGTGAAATGATAACAA
21408512 TATTCCTCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.04
32 47 0.64
33 23 0.32
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (32 bp):
TTTTGTGAAATGATAACAAATATCAACTTTAA
Found at i:21415953 original size:21 final size:22
Alignment explanation
Indices: 21415920--21415962 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
21415910 GAATTTTATA
21415920 AAAAAATTATTTTAAACATTTT
1 AAAAAATTATTTTAAACATTTT
* **
21415942 AAAATATT-TTTTTTACATTTT
1 AAAAAATTATTTTAAACATTTT
21415963 TTATAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
AAAAAATTATTTTAAACATTTT
Found at i:21416061 original size:13 final size:13
Alignment explanation
Indices: 21416043--21416083 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
21416033 TTATCATATC
21416043 TTTTAAAATTTTA
1 TTTTAAAATTTTA
21416056 TTTT-AAATTTTA
1 TTTTAAAATTTTA
* *
21416068 -TTTATAATTTAA
1 TTTTAAAATTTTA
21416080 TTTT
1 TTTT
21416084 TTTTCTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 3 0.12
12 14 0.58
13 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTAAAATTTTA
Found at i:21419704 original size:26 final size:26
Alignment explanation
Indices: 21419675--21419782 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
21419665 TGGTACAAAT
*
21419675 TGATAATGGGTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
21419701 TGATAATGTATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21419727 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21419753 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21419779 TGAT
1 TGAT
21419783 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21421441 original size:27 final size:26
Alignment explanation
Indices: 21421401--21421566 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
21421391 AGGAAGCGTC
*
21421401 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
21421428 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
21421455 CTGGTGGCTATGCCATGATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
* *
21421482 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
21421509 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
21421537 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
21421563 CTGG
1 CTGG
21421567 CAGCCATGCT
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.07
27 93 0.77
28 19 0.16
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:21421483 original size:54 final size:54
Alignment explanation
Indices: 21421401--21421566 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
21421391 AGGAAGCGTC
*
21421401 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
21421455 CTGGTGGCTATGCCATGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
21421509 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
21421563 CTGG
1 CTGG
21421567 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 86 0.83
55 17 0.17
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:21421557 original size:81 final size:81
Alignment explanation
Indices: 21421401--21421566 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
21421391 AGGAAGCGTC
*
21421401 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTAT
*
21421466 GCCATGATTATCTGAT
66 GCCATCATTATCTGAT
* *
21421482 CTGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGAC
* * *
21421545 TCTGTCA-CATTATCTGTT
63 TATGCCATCATTATCTGAT
21421563 CTGG
1 CTGG
21421567 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
80 2 0.03
81 58 0.77
82 15 0.20
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTAT
GCCATCATTATCTGAT
Found at i:21423647 original size:17 final size:17
Alignment explanation
Indices: 21423625--21423662 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21423615 TACTTTTATT
21423625 TTATAA-TATTAATATAA
1 TTATAATTA-TAATATAA
*
21423642 TTATAATTATAATATTA
1 TTATAATTATAATATAA
21423659 TTAT
1 TTAT
21423663 TAACAACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATTATAATATAA
Found at i:21430575 original size:20 final size:20
Alignment explanation
Indices: 21430550--21430587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21430540 GTCACAAATA
21430550 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
21430570 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
21430588 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:21430753 original size:25 final size:25
Alignment explanation
Indices: 21430725--21430773 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21430715 CCAAAGGACC
* *
21430725 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
21430750 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
21430774 GATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:21455664 original size:127 final size:127
Alignment explanation
Indices: 21455424--21455740 Score: 420
Period size: 127 Copynumber: 2.5 Consensus size: 127
21455414 GAAAATTCCT
* ** *
21455424 TAAAACCAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAATGCCTTATCGTGCTGGGTTTCG
1 TAAAA-CAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
** *
21455489 ATTTACCGTTTGTTCAAAATAATCAAATATTCGTTTAGAATTTTACTCGTGTTTTCTAAATCC
65 ATTTACCGTTTGCCCAAAATAATCAAATATTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
* *
21455552 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * * * * *
21455617 TTTCCCGTTTGCCCAAAATAGTCGAATATTTC-TTTGGGATTTCACTCGTGTTTTCTAAATTC
66 TTTACCGTTTGCCCAAAATAATCAAATA-TTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
* * * * * *
21455679 TAAGATAAGGAAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTT
1 TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTT
21455741 TAGTTTTTCG
Statistics
Matches: 165, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
127 157 0.95
128 8 0.05
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTACCGTTTGCCCAAAATAATCAAATATTCGTTTAGAATTTCACTCGTGTTTTCTAAATCC
Found at i:21467248 original size:45 final size:44
Alignment explanation
Indices: 21467191--21467704 Score: 269
Period size: 45 Copynumber: 11.6 Consensus size: 44
21467181 GCAAGTCTTA
* * *
21467191 TCTCCCTAAAGTTGTAGTGGAGTAGACTAAAGATAGTAGATCTGG
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* * ** * **
21467236 TCTCCTTGAAGTTGCAATGGAGCAGA-TCGGAGTAGAAG-TCTTA
1 TCTCCCTAAAGTTGCAATGGAGCAGACTAAGA-TAGTAGATCTGG
*
21467279 TCTCCCTAAAGTTGTAATGGAGCAGACTGAAGATAGTAGATCTGG
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* ** ** **
21467324 TCTCCCTAAAGTTGCAGTGGAGCAGA-TCGGAGTAACA-AGTCTTA
1 TCTCCCTAAAGTTGCAATGGAGCAGACTAAGA-TAGTAGA-TCTGG
* * * * *
21467368 TCTCCCTAAAGTTGTAGTGGAGCAGGCTGATGATAGCAGATCTGG
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* * * * **
21467413 TCTCCCTAAAGTTGCAGTAGAGC-GA-TCAG--AGTAACGAGTGTTA
1 TCTCCCTAAAGTTGCAATGGAGCAGACTAAGATAGT-A-GA-TCTGG
* * *
21467456 TCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAATAGTAGATCTGA
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* * * * **
21467501 TCTCCCTGAAGTTGCAGTGGAGCAGA-TCAGAGTAGCA-AGTCTTA
1 TCTCCCTAAAGTTGCAATGGAGCAGACTAAGA-TAGTAGA-TCTGG
* * * * *
21467545 TCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTGG
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* * * * * **
21467590 CCTCCCTGAAGTTGCAGTGGAGCAGA-TCAGAGTAGCA-AGTCTTA
1 TCTCCCTAAAGTTGCAATGGAGCAGACTAAGA-TAGTAGA-TCTGG
* * * * * *
21467634 TCTCCCTAAATTTGTAGTGGAGCAGATTGAAGATAGCAGATCTAG
1 TCTCCCTAAAGTTGCAATGGAGCAGACT-AAGATAGTAGATCTGG
* * *
21467679 TCTCCCTGAAGTTGCAGTAGAGCAGA
1 TCTCCCTAAAGTTGCAATGGAGCAGA
21467705 TCGGAGTAAC
Statistics
Matches: 364, Mismatches: 78, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
42 3 0.01
43 63 0.17
44 108 0.30
45 169 0.46
46 14 0.04
47 1 0.00
48 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAAGTTGCAATGGAGCAGACTAAGATAGTAGATCTGG
Found at i:21467413 original size:89 final size:89
Alignment explanation
Indices: 21467177--21467924 Score: 964
Period size: 89 Copynumber: 8.4 Consensus size: 89
21467167 AGCGGGTTGA
* * * * *
21467177 AGTAGCAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTAAAGATAGTAGATCTGGTCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
21467242 TGAAGTTGCAATGGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * *
21467266 AGT-AGAAGTCTTATCTCCCTAAAGTTGTAATGGAGCAGACTGAAGATAGTAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
21467330 TAAAGTTGCAGTGGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* *
21467354 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGATGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
* * *
21467419 TAAAGTTGCAGTAGAGC-GATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * * * * *
21467442 AGTAACGAGTGTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAATAGTAGATCTGATCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
21467507 TGAAGTTGCAGTGGAGCAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * *
21467531 AGTAGCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTGGCCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
21467596 TGAAGTTGCAGTGGAGCAGATCAG
66 TGAAGTTGCAGTGGAGCAGATCGG
* * * *
21467620 AGTAGCAAGTCTTATCTCCCTAAATTTGTAGTGGAGCAGATTGAAGATAGCAGATCTAGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
*
21467685 TGAAGTTGCAGTAGAGCAGATCGG
66 TGAAGTTGCAGTGGAGCAGATCGG
* ** *
21467709 AGTAACAAGTCTTATTTTTCTAAATTTGTAGTGGAGCA-AGCTGAAGATAGCAGATCTGGTCTCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-CTGAAGATAGCAGATCTGGTCTCC
* * *
21467773 CTGAAGTTGCAGTAGAGAAAATCGG
65 CTGAAGTTGCAGTGGAGCAGATCGG
* * * *
21467798 AGTAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGATCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
**** *
21467863 TGAAGCAATAGT-GAGCAGATCGA
66 TGAAGTTGCAGTGGAGCAGATCGG
** ** * *
21467886 AGCCACAAACCTTATCTCCCTAAAGTTGCAGAGGAGCAG
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAG
21467925 GTTGAGGTCA
Statistics
Matches: 579, Mismatches: 76, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
88 196 0.34
89 382 0.66
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (89 bp):
AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTGGTCTCCC
TGAAGTTGCAGTGGAGCAGATCGG
Found at i:21467479 original size:177 final size:178
Alignment explanation
Indices: 21467177--21467967 Score: 968
Period size: 177 Copynumber: 4.5 Consensus size: 178
21467167 AGCGGGTTGA
* * * * * *
21467177 AGTAGCAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTAAAGATAGTAGATCTGGTCTCCT
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGATAGCAGATCTGGTCTCCC
* * * *
21467242 TGAAGTTGCAATGGAGCAGATCGGAGT-A-GAAGTCTTATCTCCCTAAAGTTGTAATGGAGCAGA
66 TGAAGTTGCAGTAGAGCAGATCAGAGTAACG-AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA
* * *
21467305 CTGAAGATAGTAGATCTGGTCTCCCTAAAGTTGCAGTGGAGCAGATCGG
130 CTGAAGATAGCAGATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATCGG
*
21467354 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGATGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGATAGCAGATCTGGTCTCCC
* * *
21467419 TAAAGTTGCAGTAGAGC-GATCAGAGTAACGAGTGTTATCTCCCTAAAGTTGCAGTGGAGCAGAC
66 TGAAGTTGCAGTAGAGCAGATCAGAGTAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAC
* * * *
21467483 TAAAAATAGTAGATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATCAG
131 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATCGG
* * * * *
21467531 AGTAGCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTGGCCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGATAGCAGATCTGGTCTCCC
* * * * *
21467596 TGAAGTTGCAGTGGAGCAGATCAGAGTAGCAAGTCTTATCTCCCTAAATTTGTAGTGGAGCAGAT
66 TGAAGTTGCAGTAGAGCAGATCAGAGTAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAC
*
21467661 TGAAGATAGCAGATCT-AGTCTCCCTGAAGTTGCAGTAGAGCAGATCGG
131 TGAAGATAGCAGATCTGA-TCTCCCTGAAGTTGCAGTGGAGCAGATCGG
* ** * *
21467709 AGTAACAAGTCTTATTTTTCTAAATTTGTAGTGGAGCAAGCTGAAGATAGCAGATCTGGTCTCCC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGATAGCAGATCTGGTCTCCC
* * * *
21467774 TGAAGTTGCAGTAGAGAAAATCGGAGTAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
66 TGAAGTTGCAGTAGAGCAGATCAGAGTAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAC
* **** *
21467839 TGAAGATAGCAGATCTGATCTCCTTGAAGCAATAGT-GAGCAGATCGA
131 TGAAGATAGCAGATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATCGG
** ** * * * * **
21467886 AGCCACAAACCTTATCTCCCTAAAGTTGCAGAGGAGCAGGTTG-AGGTCA-CTAG-TCTCATCTC
1 AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGAT-AGC-AGATCTGGTCTC
*
21467948 CTTGAAGTTGCAGTAGAGCA
64 CCTGAAGTTGCAGTAGAGCA
21467968 TATTGAAGCT
Statistics
Matches: 529, Mismatches: 78, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
176 37 0.07
177 266 0.50
178 225 0.43
179 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (178 bp):
AGTAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGGCTGAAGATAGCAGATCTGGTCTCCC
TGAAGTTGCAGTAGAGCAGATCAGAGTAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGAC
TGAAGATAGCAGATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATCGG
Found at i:21468244 original size:17 final size:18
Alignment explanation
Indices: 21468209--21468246 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21468199 CCCAAATTCA
21468209 AAACCCAAAACATAGCCC
1 AAACCCAAAACATAGCCC
*
21468227 AAACCCAATACA-AGCCC
1 AAACCCAAAACATAGCCC
21468244 AAA
1 AAA
21468247 TAAACTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.53, C:0.37, G:0.05, T:0.05
Consensus pattern (18 bp):
AAACCCAAAACATAGCCC
Found at i:21469474 original size:28 final size:28
Alignment explanation
Indices: 21469436--21469495 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
21469426 TTAAATCTTT
21469436 TTTTTTTGTATTATTCATTCTAAAATAA
1 TTTTTTTGTATTATTCATTCTAAAATAA
21469464 TTTTTTTGTATTATTCATTCTAAAATAA
1 TTTTTTTGTATTATTCATTCTAAAATAA
21469492 TTTT
1 TTTT
21469496 ATTACTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTTTGTATTATTCATTCTAAAATAA
Found at i:21470355 original size:126 final size:126
Alignment explanation
Indices: 21470177--21470494 Score: 397
Period size: 127 Copynumber: 2.5 Consensus size: 126
21470167 GAAAGTTCCT
21470177 TAAAACCAAGGCAATATTCGATGTTTGGAAATTCGGGGAAT-AGTGCCCTATCGTGCTGGGTTTC
1 TAAAA-CAAGGCAATATTCGATGTTTGGAAATTC-GGGAATCA-TGCCCTATCGTGCTGGGTTTC
** * * *
21470241 GATTTCCCGTTTGTTC-AAATAATCGAATATTCCTTTAGAATTTTACTCGTGTTTTCTAAATCC
63 GATTTCCCGTTTGCCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
* * * * * *
21470304 TAAAACAAGGCAATGTTTGATATTTGGAAATTCGGGAAATCATGCCTTATCGTGCTAGGTTTCAA
1 TAAAACAAGGCAATATTCGATGTTTGGAAATTCGGG-AATCATGCCCTATCGTGCTGGGTTTCGA
* * * *
21470369 TTTCCCGTTTGCCCAAAATAGTCAAATATTTCTTTGGAATTTCACTCATGTTTTCTAAATTC
65 TTTCCCGTTTGCCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
* * * * *
21470431 TAAGATAAGGCAATATTCAATGTTTGGAAATTCAGGGAATCGTGCCCTACCGTGCTGGGTTTCG
1 TAAAACAAGGCAATATTCGATGTTTGGAAATTC-GGGAATCATGCCCTATCGTGCTGGGTTTCG
21470495 GTTTTTCATT
Statistics
Matches: 161, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
125 3 0.02
126 60 0.37
127 95 0.59
128 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (126 bp):
TAAAACAAGGCAATATTCGATGTTTGGAAATTCGGGAATCATGCCCTATCGTGCTGGGTTTCGAT
TTCCCGTTTGCCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTTTCTAAATCC
Found at i:21475218 original size:40 final size:40
Alignment explanation
Indices: 21475173--21475352 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
21475163 GATTTCGATA
21475173 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * *
21475213 TATATATAGCACTTAGTGTGCAATTCAAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * * * *
21475253 TATATATGGCATTTAGTGTGTGATTCGAAATAGTTTTGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* *
21475293 TATATATGGCACTTGGTGTGCAAGA-CCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGGC
*
21475334 TATATAAGGCACTTAGTGT
1 TATATATGGCACTTAGTGT
21475353 AATAGCCCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 87 0.74
41 29 0.25
42 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:21476626 original size:43 final size:44
Alignment explanation
Indices: 21476574--21476721 Score: 160
Period size: 43 Copynumber: 3.4 Consensus size: 44
21476564 TGAGATTACA
* * *
21476574 TGTATGACCATGTCTGGGACATTGTCATTGTAT-TGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTATG
* *
21476617 TGTAAGACCATGTCTGGGATATTGGCATCGT-TATATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTAT-G
* * * **
21476660 TGTAAGACCCTGTCTGGGACAATGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTATG
*
21476703 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
21476722 TATCGCATTG
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.02
43 85 0.98
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGATTATG
Found at i:21479404 original size:10 final size:9
Alignment explanation
Indices: 21479381--21479406 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21479371 TTTGGTTTTG
21479381 GTTTTTGAT
1 GTTTTTGAT
21479390 GTTTTTGAT
1 GTTTTTGAT
21479399 GTTTTTGA
1 GTTTTTGA
21479407 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:21479454 original size:33 final size:33
Alignment explanation
Indices: 21479412--21479477 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
21479402 TTTGAGATCC
21479412 TTGAAACATGATATAGCTATTTCTATCATTATT
1 TTGAAACATGATATAGCTATTTCTATCATTATT
21479445 TTGAAACATGATATAGCTATTTCTATCATTATT
1 TTGAAACATGATATAGCTATTTCTATCATTATT
21479478 CCGATGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (33 bp):
TTGAAACATGATATAGCTATTTCTATCATTATT
Found at i:21480175 original size:10 final size:9
Alignment explanation
Indices: 21480152--21480177 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21480142 TTTGGTTTTG
21480152 GTTTTTGAT
1 GTTTTTGAT
21480161 GTTTTTGAT
1 GTTTTTGAT
21480170 GTTTTTGA
1 GTTTTTGA
21480178 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:21481216 original size:46 final size:46
Alignment explanation
Indices: 21481067--21481239 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
21481057 GTGTTATTGT
* * * *
21481067 GAGCTAGTGTAAGACATGTCTGGGACAAGCATCGGCC-AGATTATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGA-GATGA
* * *
21481113 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA-AGACGA
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTAGAGATGA
* *
21481161 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGAGATG-A
21481208 -AGCCAGTGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATC
21481240 AGTTATGAGA
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 56 0.51
47 27 0.25
48 24 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTAGAGATGA
Found at i:21481250 original size:46 final size:47
Alignment explanation
Indices: 21481072--21481280 Score: 177
Period size: 46 Copynumber: 4.5 Consensus size: 47
21481062 ATTGTGAGCT
* * * *
21481072 AGTGTAAGA-CATGTCTGGGACAAGCATCGGC-CAGATTATG-AGAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCTTAGA-GATGTA-AGCC
* * *
21481118 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA-AGACG-AGAGCT
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGC-TTAGAGATGTA-AGCC
* *
21481166 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCTTAGAGATGTAAGCC
* *
21481212 AGTGTAAGA-CATGTCTAGGACATGCATCAG-TTATGAGATGT--GTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCTTA-GAGATGTAAGCC
* *
21481256 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTAGGACATG
21481281 GCATTGGCAT
Statistics
Matches: 139, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 60 0.43
47 27 0.19
48 24 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCTTAGAGATGTAAGCC
Found at i:21485927 original size:10 final size:9
Alignment explanation
Indices: 21485904--21485929 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21485894 TTTGGTTTTG
21485904 GTTTTTGAT
1 GTTTTTGAT
21485913 GTTTTTGAT
1 GTTTTTGAT
21485922 GTTTTTGA
1 GTTTTTGA
21485930 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:21491570 original size:40 final size:40
Alignment explanation
Indices: 21491525--21491692 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21491515 CGGAATATAA
21491525 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21491565 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
21491605 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
21491645 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21491685 CCGGATAT
1 CCGGATAT
21491693 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21495906 original size:39 final size:40
Alignment explanation
Indices: 21495814--21496055 Score: 368
Period size: 40 Copynumber: 6.1 Consensus size: 40
21495804 GCTAAGATCT
21495814 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
21495854 GAAGGCATTTGTGCTAGTTACTATATCCGAGCTAAGT-CC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
21495893 GAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
21495933 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
21495973 GAAGGCA-TTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
21496012 GAAGGCATTTGTG-TGAGTTG-CTATATCC-AGCTAAATCCC
1 GAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAAGTCCC
21496051 GAAGG
1 GAAGG
21496056 TACTTGGGTT
Statistics
Matches: 188, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 90 0.48
40 96 0.51
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:21495932 original size:79 final size:80
Alignment explanation
Indices: 21495800--21496055 Score: 387
Period size: 79 Copynumber: 3.2 Consensus size: 80
21495790 CGGATGATAA
*
21495800 CCGAGCTAAGAT-CTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGAGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTT
21495864 GTGCTAGTTACTATAT
65 GTGCTAGTTACTATAT
* *
21495880 CCGAGCTAAGT-CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
21495944 TGCTAGTGACTATAT
66 TGCTAGTTACTATAT
* *
21495959 CCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
21496023 TG-TGAGTTGCTATAT
66 TGCT-AGTTACTATAT
*
21496038 CC-AGCTAAATCCCGAAGG
1 CCGAGCTAAGTCCCGAAGG
21496056 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 15 0.09
79 128 0.79
80 19 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (80 bp):
CCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCTAGTTACTATAT
Found at i:21500925 original size:28 final size:28
Alignment explanation
Indices: 21500885--21500942 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
21500875 AAGCCCAAAA
21500885 AGCTCCGAACCTCAGTAATATTTCTCGG
1 AGCTCCGAACCTCAGTAATATTTCTCGG
21500913 AGCTCCGAACCTCAGTAATATTTCTCGG
1 AGCTCCGAACCTCAGTAATATTTCTCGG
21500941 AG
1 AG
21500943 GCTTCAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
AGCTCCGAACCTCAGTAATATTTCTCGG
Found at i:21505040 original size:40 final size:40
Alignment explanation
Indices: 21504995--21505162 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
21504985 CGGAATATAA
21504995 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21505035 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
21505075 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
21505115 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21505155 CCGGATAT
1 CCGGATAT
21505163 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21509621 original size:10 final size:10
Alignment explanation
Indices: 21509600--21509644 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
21509590 AAATTACAAA
21509600 ATTAAAAA-T
1 ATTAAAAAGT
21509609 ATTAAAAAGT
1 ATTAAAAAGT
*
21509619 ATT-AAAATT
1 ATTAAAAAGT
*
21509628 TTTAAAAAGT
1 ATTAAAAAGT
21509638 A-TAAAAA
1 ATTAAAAA
21509645 TCATAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
ATTAAAAAGT
Found at i:21509624 original size:19 final size:19
Alignment explanation
Indices: 21509600--21509645 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
21509590 AAATTACAAA
21509600 ATTAAAAATATTAAAAAGT
1 ATTAAAAATATTAAAAAGT
* *
21509619 ATTAAAATTTTTAAAAAGT
1 ATTAAAAATATTAAAAAGT
21509638 A-TAAAAAT
1 ATTAAAAAT
21509646 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
ATTAAAAATATTAAAAAGT
Found at i:21514880 original size:30 final size:31
Alignment explanation
Indices: 21514840--21514913 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
21514830 AAGCTTTAAG
*
21514840 TTTAATTTTTAACATT-T-GGAATTTAATTTT
1 TTTAATTTTTAA-ATTATAAGAATTTAATTTT
* *
21514870 TTT-ATTTTTTATTTATAAGAATTTAATTTT
1 TTTAATTTTTAAATTATAAGAATTTAATTTT
*
21514900 TTTACTTTTTAAAT
1 TTTAATTTTTAAAT
21514914 CTAGTTGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.06
29 8 0.23
30 18 0.51
31 7 0.20
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (31 bp):
TTTAATTTTTAAATTATAAGAATTTAATTTT
Found at i:21516333 original size:7 final size:7
Alignment explanation
Indices: 21516321--21516349 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
21516311 CAATATAAAG
21516321 AGAAAAA
1 AGAAAAA
21516328 AGAAAAA
1 AGAAAAA
21516335 AGAAAAA
1 AGAAAAA
21516342 AGAAAAA
1 AGAAAAA
21516349 A
1 A
21516350 ACCCTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:21522303 original size:48 final size:43
Alignment explanation
Indices: 21522232--21522405 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 43
21522222 CTCACATATC
*
21522232 CGTGCCGATGCCATGT-CTCAGACATAGTCTTACACTGACACCTCTAT
1 CGTGCCGATG-CATGTCCT-AGACAT-GTCTTACACTGACACATC--T
21522279 ACGTGCCGATGCAATGTCCTAGACATGGTCTTACACTGACACATCT
1 -CGTGCCGATGC-ATGTCCTAGACAT-GTCTTACACTGACACATCT
* * *
21522325 CGTAGCCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCT
1 CGT-GCCGATGCATGTCCTAGACATGTCTTACACTGAC--ACATCT
* * *
21522371 CGAGGCCGATGCATGTCCCAAACATGTCTTACACT
1 CG-TGCCGATGCATGTCCTAGACATGTCTTACACT
21522406 AGCTCTCGTC
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.10
45 15 0.13
46 46 0.41
47 1 0.01
48 37 0.33
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (43 bp):
CGTGCCGATGCATGTCCTAGACATGTCTTACACTGACACATCT
Found at i:21522369 original size:46 final size:48
Alignment explanation
Indices: 21522099--21522499 Score: 252
Period size: 47 Copynumber: 8.5 Consensus size: 48
21522089 ATGCTGACGC
* * * **
21522099 CATGTCCCAGATATGGTCTTACACTGGCTCATCCA--TC-AATTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGTAGCCGATG
* * * * *
21522145 CCATGTCCCAGACATGGTCTTACACTGACTATA-A-ATCG-AGGCTGACG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * *
21522192 TAATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGCCGATG
* * * * *
21522242 CCATGTCTCAGACATAGTCTTACACTGACACCT-CTAT-ACGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGC-TCTAC-ATCTCGTAGCCGATG
* *
21522290 CAATGTCCTAGACATGGTCTTACACT-G-AC-ACATCTCGTAGCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
*
21522336 CATGTCCCAGACAT-GTCTTACATTGGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * * *
21522382 CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTC-AATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * *
21522428 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCAGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
*
21522476 CATGTCCCATACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
21522500 AGCACACAAA
Statistics
Matches: 283, Mismatches: 47, Indels: 49
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.04
45 20 0.07
46 74 0.26
47 85 0.30
48 54 0.19
49 3 0.01
50 32 0.11
51 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:21522476 original size:94 final size:96
Alignment explanation
Indices: 21522099--21522502 Score: 340
Period size: 94 Copynumber: 4.3 Consensus size: 96
21522089 ATGCTGACGC
* * *
21522099 CATGTCCCAGATATGGTCTTACACT-G-GCTCATCCATCAAT-TCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TCAATGCCGATGCCATGTCCCAGACATG
* * *
21522161 GTCTTACACTGACTAT-A-AATCGAGGCTGACG
64 GTCTTACACTGACTCTCATAATCGAGGCCGATG
* * ** *
21522192 TAATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCTCAGACAT
1 -CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAATGCCGATGCCATGTCCCAGACAT
* * *
21522257 AGTCTTACACTGACACCTC-T-ATACG-TGCCGATG
63 GGTCTTACACTGAC-TCTCATAAT-CGAGGCCGATG
* * * *
21522290 CAATGTCCTAGACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATG-CATGTCCCAGACAT-
1 C-ATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GCCGATGCCATGTCCCAGACATG
* * *
21522350 GTCTTACATTGGCT-TACAT-CTCGAGGCCGATG
64 GTCTTACACTGACTCT-CATAATCGAGGCCGATG
* * *
21522382 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGT
* * *
21522446 CTTACACTGGCTCTCATAAT-GTGGCAGATG
66 CTTACACTGACTCTCATAATCGAGGCCGATG
*
21522476 CATGTCCCATACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
21522503 ACACAAATTA
Statistics
Matches: 252, Mismatches: 37, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
90 11 0.04
91 15 0.06
92 33 0.13
93 30 0.12
94 85 0.34
95 3 0.01
96 6 0.02
97 33 0.13
98 34 0.13
99 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGT
CTTACACTGACTCTCATAATCGAGGCCGATG
Found at i:21529655 original size:30 final size:30
Alignment explanation
Indices: 21529621--21529681 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
21529611 TTCCCAAGCC
21529621 TAGGGGCAAAA-GTGTAAATATGCAAAAGTT
1 TAGGGGCAAAATG-GTAAATATGCAAAAGTT
* *
21529651 TAGGGGCAAAATGGTAATTTTGCAAAAGTT
1 TAGGGGCAAAATGGTAAATATGCAAAAGTT
21529681 T
1 T
21529682 GTATTAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAAATATGCAAAAGTT
Found at i:21542160 original size:7 final size:7
Alignment explanation
Indices: 21542150--21542244 Score: 58
Period size: 7 Copynumber: 14.0 Consensus size: 7
21542140 TTTTATATAC
21542150 TAATAAA
1 TAATAAA
21542157 TAATAAA
1 TAATAAA
*
21542164 TAATGTAA
1 TAAT-AAA
*
21542172 TAATATA
1 TAATAAA
21542179 TAATAAA
1 TAATAAA
**
21542186 -AGGAAGA
1 TAATAA-A
21542193 TAAT--A
1 TAATAAA
*
21542198 TAAGAAA
1 TAATAAA
*
21542205 TAATATA
1 TAATAAA
21542212 TAAT-AA
1 TAATAAA
*
21542218 -AATATA
1 TAATAAA
21542224 TAATGAAA
1 TAAT-AAA
21542232 T-ATAAA
1 TAATAAA
21542238 TAATAAA
1 TAATAAA
21542245 ATAACATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
5 7 0.11
6 9 0.14
7 39 0.60
8 10 0.15
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:21542214 original size:19 final size:18
Alignment explanation
Indices: 21542192--21542271 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
21542182 TAAAAGGAAG
21542192 ATAATATAAGAAATAATAT
1 ATAATATAA-AAATAATAT
21542211 ATAATA-AAATATATAATGAAAT
1 ATAATATAAA-A-ATAAT---AT
*
21542233 ATAA-ATAATAAAATAACAT
1 ATAATAT-A-AAAATAATAT
21542252 ATAAT-TAAAAATAATAT
1 ATAATATAAAAATAATAT
21542269 ATA
1 ATA
21542272 CTATTTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
17 13 0.26
18 4 0.08
19 18 0.36
21 1 0.02
22 10 0.20
23 2 0.04
24 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:21542224 original size:26 final size:26
Alignment explanation
Indices: 21542195--21542247 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
21542185 AAGGAAGATA
*
21542195 ATATAA-GAAATAATATATAATAAAAT
1 ATATAATGAAAT-ATAAATAATAAAAT
21542221 ATATAATGAAATATAAATAATAAAAT
1 ATATAATGAAATATAAATAATAAAAT
21542247 A
1 A
21542248 ACATATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (26 bp):
ATATAATGAAATATAAATAATAAAAT
Found at i:21542246 original size:14 final size:12
Alignment explanation
Indices: 21542206--21542247 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
21542196 TATAAGAAAT
21542206 AATATATAATAA
1 AATATATAATAA
21542218 AATATATAATGAA
1 AATATATAAT-AA
*
21542231 ATATAAATAATAA
1 A-ATATATAATAA
21542244 AATA
1 AATA
21542248 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:21543906 original size:44 final size:44
Alignment explanation
Indices: 21543842--21544061 Score: 268
Period size: 44 Copynumber: 5.0 Consensus size: 44
21543832 TCAGGAATGT
* *
21543842 CAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
21543886 CAAATCTATTATCTTCGATCTGTTCTCTGACAATACAGAGACGC
1 CAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* ** *
21543930 CAAATCT-TCTATC-TCTGATCTGCTCTCCGTTAATACAGAGATGC
1 CAAATCTGT-TATCTTC-GATCTGCTCTCTGACAATACAGAGACGC
* * * * *
21543974 CAGA--TGTCATCTTCGATCTGCTCTCTGTCAATACAAAGATGC
1 CAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
21544016 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
21544060 CA
1 CA
21544062 GATGTCACCG
Statistics
Matches: 150, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.21
43 6 0.04
44 112 0.75
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
CAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:21544078 original size:86 final size:86
Alignment explanation
Indices: 21543842--21544068 Score: 303
Period size: 86 Copynumber: 2.6 Consensus size: 86
21543832 TCAGGAATGT
* * * *
21543842 CAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTATTATCTTCGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAGA--TGTCATCTTCGATCT
* *
21543907 GTTCTCTGACAATACAGAGACGC
64 GCTCTCTGACAATACAAAGACGC
* * ** *
21543930 CAAATCTTCTATC-TCTGATCTGCTCTCCGTTAATACAGAGATGCCAGATGTCATCTTCGATCTG
1 CAAATCTGCTATCTTC-GATCTGCTCTCTGACAATACAGAGACGCCAGATGTCATCTTCGATCTG
* *
21543994 CTCTCTGTCAATACAAAGATGC
65 CTCTCTGACAATACAAAGACGC
21544016 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAGATGTCA
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAGATGTCA
21544069 CCGGTGATCT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 77 0.65
87 3 0.03
88 39 0.33
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (86 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAGATGTCATCTTCGATCTGC
TCTCTGACAATACAAAGACGC
Found at i:21556184 original size:7 final size:7
Alignment explanation
Indices: 21556174--21556235 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
21556164 TTTTATATAC
21556174 TAATAAA
1 TAATAAA
21556181 TAATAAA
1 TAATAAA
*
21556188 TAATGTAA
1 TAAT-AAA
*
21556196 TAATATA
1 TAATAAA
21556203 TAAT-AA
1 TAATAAA
*
21556209 -AATATA
1 TAATAAA
21556215 TAATGAAA
1 TAAT-AAA
21556223 T-ATAAA
1 TAATAAA
21556229 TAATAAA
1 TAATAAA
21556236 ATAACATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.07
6 6 0.14
7 26 0.59
8 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (7 bp):
TAATAAA
Found at i:21556212 original size:12 final size:12
Alignment explanation
Indices: 21556197--21556238 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
21556187 ATAATGTAAT
21556197 AATATATAATAA
1 AATATATAATAA
21556209 AATATATAATGAA
1 AATATATAAT-AA
*
21556222 ATATAAATAATAA
1 A-ATATATAATAA
21556235 AATA
1 AATA
21556239 ACATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 13 0.48
13 6 0.22
14 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:21556239 original size:12 final size:12
Alignment explanation
Indices: 21556175--21556239 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
21556165 TTTATATACT
21556175 AATAAATAAT-A
1 AATAAATAATAA
*
21556186 AAT-AAT-GTAA
1 AATAAATAATAA
*
21556196 TAATATATAATAA
1 -AATAAATAATAA
*
21556209 AATATATAATGAA
1 AATAAATAAT-AA
21556222 ATATAAATAATAA
1 A-ATAAATAATAA
21556235 AATAA
1 AATAA
21556240 CATATAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 6 0.14
12 16 0.36
13 9 0.20
14 8 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:21556239 original size:41 final size:43
Alignment explanation
Indices: 21556168--21556252 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 43
21556158 TTTAATTTTT
** *
21556168 ATATACTAATAAATAATAAATAATGTAATAATATATAA-TAAA
1 ATATACTAATAAATAATAAATAATAAAATAACATATAATTAAA
21556210 ATATA-TAATGAAAT-ATAAATAATAAAATAACATATAATTAAA
1 ATATACTAAT-AAATAATAAATAATAAAATAACATATAATTAAA
21556252 A
1 A
21556253 ATAATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 24 0.63
42 14 0.37
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (43 bp):
ATATACTAATAAATAATAAATAATAAAATAACATATAATTAAA
Found at i:21568769 original size:46 final size:46
Alignment explanation
Indices: 21568719--21568894 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
21568709 TGGTTGAGCA
21568719 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21568765 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21568810 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21568858 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21568895 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21568875 original size:93 final size:93
Alignment explanation
Indices: 21568716--21568887 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21568706 GGATGGTTGA
* * *
21568716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21568781 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21568809 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21568874 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21568888 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21570354 original size:17 final size:19
Alignment explanation
Indices: 21570315--21570357 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
21570305 ATCCCCACAT
21570315 GTGTGTTGGTTGGTATAGGTG
1 GTGTGTTGGTTGGTAT--GTG
21570336 GTGTGTTGGTTGG-AT-TG
1 GTGTGTTGGTTGGTATGTG
21570353 GTGTG
1 GTGTG
21570358 GTTATATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.07, C:0.00, G:0.49, T:0.44
Consensus pattern (19 bp):
GTGTGTTGGTTGGTATGTG
Found at i:21573065 original size:2 final size:2
Alignment explanation
Indices: 21573058--21573099 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
21573048 TTTTCAATGC
*
21573058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
21573100 CAATTAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21597765 original size:47 final size:48
Alignment explanation
Indices: 21597700--21597913 Score: 174
Period size: 47 Copynumber: 4.6 Consensus size: 48
21597690 AGAGCCGGAA
** * * *
21597700 TAAGACCATGTCCAGGACATGGCATCGGCATTGAGATGAGT-GCTAGCG
1 TAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGAGTAGCCAGTG
* * * *
21597748 TAAGA-CATGTCTGGGACAT-ACATCGGCCTCGAAATG-TTAGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGAGTAGCCAGTG
* ** *
21597794 TCAGA-CATGTCTGGGACAT-GCATTAGCTACGAGATGA-TAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAGTAGCCAGTG
* * * * *
21597840 TAAGACCATGTCTTGAACATGGCATCGACTTGAGATGTG-AGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTAGCCAGTG
*
21597887 TAAGACCATGTTTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
21597914 AAACCTTACC
Statistics
Matches: 131, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
45 3 0.02
46 55 0.42
47 62 0.47
48 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGTAGCCAGTG
Found at i:21599212 original size:27 final size:27
Alignment explanation
Indices: 21599174--21599227 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21599164 AGATTAAAGT
21599174 AGAAATTAAAAAGGTTTTAATTTGGAC
1 AGAAATTAAAAAGGTTTTAATTTGGAC
21599201 AGAAATTAAAAAGGTTTTAATTTGGAC
1 AGAAATTAAAAAGGTTTTAATTTGGAC
21599228 CGAGTCACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (27 bp):
AGAAATTAAAAAGGTTTTAATTTGGAC
Found at i:21603466 original size:20 final size:19
Alignment explanation
Indices: 21603441--21603480 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21603431 ACTAATCTGA
21603441 TCAAAACATAAAATTCTAAG
1 TCAAAAC-TAAAATTCTAAG
**
21603461 TCAAAACTGTAATTCTAAG
1 TCAAAACTAAAATTCTAAG
21603480 T
1 T
21603481 TACACGGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (19 bp):
TCAAAACTAAAATTCTAAG
Found at i:21613654 original size:40 final size:40
Alignment explanation
Indices: 21613567--21613824 Score: 308
Period size: 40 Copynumber: 6.5 Consensus size: 40
21613557 TGGATGATAA
* *
21613567 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGCGCGAGTTACTA-TAT
** * *
21613608 CCGGGCTAAGTCCCGAAGGCATTTGCATGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
21613648 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
*
21613688 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * *
21613728 CCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * *
21613768 CCGGGCTATGTCCCAAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* *
21613807 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21613825 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 21, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
38 14 0.07
39 16 0.08
40 143 0.74
41 21 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:21617849 original size:5 final size:6
Alignment explanation
Indices: 21617833--21617864 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
21617823 CTATTATTTT
*
21617833 TAAAAA TAAAAA TAAAAA TAAAAA TAACAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
21617865 TAACTAAAAC
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:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:21620330 original size:21 final size:22
Alignment explanation
Indices: 21620291--21620331 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21620281 ATCCCTTTTT
21620291 ATAATACATAAATTAATTAAAA
1 ATAATACATAAATTAATTAAAA
* *
21620313 ATAATATA-AAATTTATTAA
1 ATAATACATAAATTAATTAA
21620332 TATATAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATACATAAATTAATTAAAA
Found at i:21620338 original size:22 final size:22
Alignment explanation
Indices: 21620290--21620338 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
21620280 TATCCCTTTT
21620290 TATAATACATAAATTAATTAAA
1 TATAATACATAAATTAATTAAA
* * *
21620312 AATAATATA-AAATTTATTAATA
1 TATAATACATAAATTAATTAA-A
21620334 TATAA
1 TATAA
21620339 CCTTTATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAATACATAAATTAATTAAA
Found at i:21621120 original size:20 final size:19
Alignment explanation
Indices: 21621084--21621134 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
21621074 AAAGACTATT
*
21621084 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
21621103 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
21621123 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
21621135 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:21621953 original size:49 final size:47
Alignment explanation
Indices: 21621893--21622013 Score: 170
Period size: 49 Copynumber: 2.5 Consensus size: 47
21621883 TACAAGCTAA
*
21621893 TGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACTGAT-G-TGAGAGCCAG
** **
21621942 TGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACTGATGTGAGAGCCAG
21621989 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
21622014 GTCGGCATCT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 17 0.26
48 16 0.24
49 33 0.50
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACTGATGTGAGAGCCAG
Found at i:21622003 original size:97 final size:96
Alignment explanation
Indices: 21621797--21622013 Score: 237
Period size: 97 Copynumber: 2.3 Consensus size: 96
21621787 TATGTGTACT
* **
21621797 AGTGTAAGA-CATGTCTAGGACAT-GCATAGACATTAAGACGAGAGTTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTAGGACATGGCATAGACATGAAGACGAGAGCCAGTGTAAGACATGTCTG
* * *
21621860 GGACATGCATTGGCCTTGAGATATACAAGCT
66 GGACATGCATTCGACTTGAGATATACAAGCC
* * * *
21621891 AATGTAAGACC-TGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGTGTAAGACCTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATAGACA-TGA-AGACGAGAGCCAGTGTAAGACATGTC
* * * *
21621955 TGGGACATGGCA-TCGACTT-TGATGTGCTAGCC
64 TGGGACAT-GCATTCGACTTGAGATATACAAGCC
*
21621987 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTAGGACATGGC
21622014 GTCGGCATCT
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
94 20 0.20
95 9 0.09
96 20 0.20
97 49 0.49
98 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATAGACATGAAGACGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATTCGACTTGAGATATACAAGCC
Found at i:21624186 original size:2 final size:2
Alignment explanation
Indices: 21624179--21624204 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21624169 AGAAAGATTT
21624179 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21624205 AATAAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21629380 original size:44 final size:44
Alignment explanation
Indices: 21629317--21629848 Score: 672
Period size: 44 Copynumber: 12.1 Consensus size: 44
21629307 TGGGAACACC
* * *
21629317 AATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * *
21629361 AATCTG-TCATCTTCGATCTGCTCTCTGTCAACACAGAGATGTCA
1 AATCTGCT-ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * *
21629405 AATCTGCTATCTTCGATCTGCCCTATGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * *
21629449 AATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACTCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
21629493 AATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * * *
21629537 AATCTGTTATCTTCGATCTACTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
*
21629581 AATCTGCTATCTTTGATCTGCTCT-TCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCT-GCCAATACAGAGACGCCA
* *
21629625 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
** * * * *
21629669 AATCTATTATCTTCGATCTGATCCCTACCAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * **
21629713 AATCTGTTATCTTCGATCTGCTCTCTGTCAACACAGAGATACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* *
21629757 AATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
* * * *
21629801 AATCTGTTATCTTCGATCTGCTCTCTGTCAACACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
21629845 AATC
1 AATC
21629849 CGCAGGATTC
Statistics
Matches: 430, Mismatches: 54, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
43 2 0.00
44 427 0.99
45 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCA
Found at i:21636361 original size:70 final size:71
Alignment explanation
Indices: 21636211--21636373 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
21636201 GAGATGTATC
21636211 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21636276 AGGACA
66 AGGACA
21636282 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21636346 AGGACA
66 AGGACA
21636352 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21636374 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21642652 original size:41 final size:41
Alignment explanation
Indices: 21642607--21642724 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21642597 TGAAAGATAA
21642607 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21642648 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21642678 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21642719 ATGTAG
1 ATGTAG
21642725 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21642663 original size:71 final size:71
Alignment explanation
Indices: 21642575--21642738 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21642565 GAGATGTATC
21642575 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21642640 AGGACA
66 AGGACA
21642646 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21642711 AGGACA
66 AGGACA
21642717 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21642739 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21644621 original size:24 final size:24
Alignment explanation
Indices: 21644594--21644656 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
21644584 CTTATTATGT
21644594 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
21644618 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
21644642 TCGCACACATAGTGC
1 TCGCACACATAGTGC
21644657 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:21652650 original size:24 final size:24
Alignment explanation
Indices: 21652623--21652685 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
21652613 CTTATTATGT
21652623 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
21652647 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
21652671 TCGCACACATAGTGC
1 TCGCACACATAGTGC
21652686 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:21662185 original size:131 final size:131
Alignment explanation
Indices: 21661790--21662185 Score: 300
Period size: 131 Copynumber: 3.0 Consensus size: 131
21661780 TTGCCTCACC
* * * * * * * * * *
21661790 TTAGAAAATACGAGTGAAA-TTCTGAAGGGATCTTCAATTATTTTGAGCAAATGAAAAAGCGCAA
1 TTAGAAGACACGAGTGAAACTT-TGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAA
* * * * * * * * * *
21661854 CCCAGCAAGATAGGGCTCGATTCTCAAATCGCCAAACATCGAACATCGCCTTCGTTTTGCAAGG-
65 CCCAACACGATAGGGCACGATTCCCGAATTGCCAAACACCGAATATCACCTTCGTTTT-AAAGGA
*
21661918 TTT
129 ATT
* * * * * * *
21661921 TTA-ATAAACATGAATCAAAAC-CTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACA
1 TTAGA-AGACACGAGT-GAAACTTTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACA
* * * * **
21661984 ACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAAGGA
64 ACCCAACACGATAGGGCACGATTCCCGAATTGCCAAACACCGAATATCACCTTCGTTTTAAAGGA
*
21662049 CTT
129 ATT
* * **
21662052 TTAGAAGACACGAGTGAAACTTTGAAGGGATATTCGATTATTTTGAGCAAACGCA-AAATTGCAA
1 TTAGAAGACACGAGTGAAACTTTGAAGGAATATTCGATTATTTTGAACAAACG-AGAAATCACAA
* * * * *
21662116 CCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAATCTCATCTTCGTTTTAAA-GA
65 CCCAACACGATAGGGCACGATTCC-CGAATTGCCAAACACCGAATATCACCTTCGTTTTAAAGGA
21662180 ATT
129 ATT
21662183 TTA
1 TTA
21662186 AAAAAAAAAT
Statistics
Matches: 206, Mismatches: 51, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
130 9 0.04
131 163 0.79
132 34 0.17
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
TTAGAAGACACGAGTGAAACTTTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAAC
CCAACACGATAGGGCACGATTCCCGAATTGCCAAACACCGAATATCACCTTCGTTTTAAAGGAAT
T
Found at i:21669518 original size:11 final size:11
Alignment explanation
Indices: 21669491--21669522 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
21669481 TGTTTAAATT
21669491 TAATTTTTTAA
1 TAATTTTTTAA
21669502 -AA-TTTTTAA
1 TAATTTTTTAA
21669511 TAATTTTTTAA
1 TAATTTTTTAA
21669522 T
1 T
21669523 TGAATCAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.37
10 4 0.21
11 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:21681154 original size:41 final size:41
Alignment explanation
Indices: 21681109--21681226 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21681099 TGAAAGATAA
21681109 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21681150 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21681180 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21681221 ATGTAG
1 ATGTAG
21681227 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21681165 original size:71 final size:71
Alignment explanation
Indices: 21681077--21681240 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21681067 GAGATGTATC
21681077 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21681142 AGGACA
66 AGGACA
21681148 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21681213 AGGACA
66 AGGACA
21681219 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21681241 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21688741 original size:41 final size:41
Alignment explanation
Indices: 21688696--21688813 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
21688686 TGAAAGATAA
21688696 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
21688737 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21688767 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
21688808 ATGTAG
1 ATGTAG
21688814 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:21688752 original size:71 final size:71
Alignment explanation
Indices: 21688664--21688827 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21688654 GAGATGTATC
21688664 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21688729 AGGACA
66 AGGACA
21688735 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
21688800 AGGACA
66 AGGACA
21688806 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
21688828 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:21690509 original size:26 final size:26
Alignment explanation
Indices: 21690473--21690580 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21690463 TGAAATTCCA
21690473 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21690499 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21690525 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21690551 ATCATGGAACATTTACTTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
21690577 ATCA
1 ATCA
21690581 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21693014 original size:40 final size:39
Alignment explanation
Indices: 21692970--21693085 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 39
21692960 TGAGTTACCA
*
21692970 TAGTGAATCAGGAACAAATCCTATTCACTTTATATATT-TC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-AT-TTCTC
*
21693010 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
21693049 TGAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 T-AGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
21693086 CTCGAGAAGG
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
38 2 0.03
39 4 0.06
40 58 0.82
41 7 0.10
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
Found at i:21693970 original size:16 final size:16
Alignment explanation
Indices: 21693945--21693978 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21693935 CCCCATTTTC
21693945 TCCCTTTTC-TTTCTT
1 TCCCTTTTCTTTTCTT
21693960 TCCCTTTTTCTTTTCTT
1 TCCC-TTTTCTTTTCTT
21693977 TC
1 TC
21693979 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TCCCTTTTCTTTTCTT
Found at i:21693998 original size:25 final size:25
Alignment explanation
Indices: 21693950--21694006 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
21693940 TTTTCTCCCT
*
21693950 TTTCTTTCTTTCCCTTTTTCTTTTC
1 TTTCTTTCTTCCCCTTTTTCTTTTC
*
21693975 TTTCTTTC-TCCCCTGTTT-TTTT-
1 TTTCTTTCTTCCCCTTTTTCTTTTC
21693997 TTTCGTTTCT
1 TTTC-TTTCT
21694007 ATTATGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 8 0.29
24 8 0.29
25 8 0.29
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTCTTTCTTCCCCTTTTTCTTTTC
Found at i:21694217 original size:8 final size:8
Alignment explanation
Indices: 21694204--21694234 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
21694194 TTTAATTAAT
21694204 ATAATATA
1 ATAATATA
21694212 ATAATATA
1 ATAATATA
21694220 ATAATATA
1 ATAATATA
21694228 ATAATAT
1 ATAATAT
21694235 TTACTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:21697817 original size:130 final size:131
Alignment explanation
Indices: 21697582--21697833 Score: 371
Period size: 130 Copynumber: 1.9 Consensus size: 131
21697572 ATTATTCATC
* * ** * *
21697582 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCACGGAATCGTGTCCTATCGT
1 TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
* *
21697647 GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCTTTTGGAATTTCACCCACGTCT
66 GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACCCACGTCT
21697712 T
131 T
* * *
21697713 TAAAAATTCTTCAAAATGAAGGCAATACTCGATGTTTGGCAAGTC-GGGAATCGTGCCCTATCGT
1 TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
* * *
21697777 GCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCAC
66 GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCAC
21697834 TCGTGTTTTC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 69 0.64
131 38 0.36
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAATTCTTCAAAACGAAGGCAATACTCGATATTTGGCAAGTCACGGAATCGTGCCCTATCGT
GCTAGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACCCACGTCT
T
Found at i:21707158 original size:9 final size:9
Alignment explanation
Indices: 21707144--21707211 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
21707134 ATAAGTATAA
21707144 AATTAACCG
1 AATTAACCG
*
21707153 AATTAACCA
1 AATTAACCG
* *
21707162 AATTTATCG
1 AATTAACCG
21707171 AATTAACCG
1 AATTAACCG
*
21707180 AATTACCCG
1 AATTAACCG
21707189 AATTAACCG
1 AATTAACCG
21707198 AATTAACCG
1 AATTAACCG
21707207 AATTA
1 AATTA
21707212 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:21707242 original size:6 final size:6
Alignment explanation
Indices: 21707231--21707277 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
21707221 AATTATATGT
* *
21707231 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
21707278 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:21707450 original size:18 final size:18
Alignment explanation
Indices: 21707427--21707463 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21707417 TTTTTTTATT
21707427 AATTTTTACGGTTAACCG
1 AATTTTTACGGTTAACCG
*
21707445 AATTTTTTCGGTTAACCG
1 AATTTTTACGGTTAACCG
21707463 A
1 A
21707464 CCAGTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (18 bp):
AATTTTTACGGTTAACCG
Found at i:21710667 original size:27 final size:27
Alignment explanation
Indices: 21710627--21710679 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21710617 AATAATATAA
* *
21710627 AAAAATTATGAAAATTTTCTAAAAATAT
1 AAAAATAATGAAAATTTT-GAAAAATAT
21710655 AAAAATAAT-AAAATTTTGAAAAATA
1 AAAAATAATGAAAATTTTGAAAAATA
21710680 AATTCTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 8 0.35
28 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAATAATGAAAATTTTGAAAAATAT
Found at i:21711744 original size:21 final size:21
Alignment explanation
Indices: 21711720--21711770 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
21711710 CCGTTGTTTT
*
21711720 TAATCTCACCGC-TACAATATC
1 TAATCTCACCGCAT-CAATAAC
* *
21711741 TAATCTCATCGCATCAGTAAC
1 TAATCTCACCGCATCAATAAC
21711762 TAATCTCAC
1 TAATCTCAC
21711771 TACTACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATCTCACCGCATCAATAAC
Found at i:21720222 original size:5 final size:5
Alignment explanation
Indices: 21720179--21720214 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
21720169 CAATTATCAG
21720179 TATAA TATAA TATAA TATAA TATAA TATAA TA-AA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
21720215 ATAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:21724027 original size:19 final size:18
Alignment explanation
Indices: 21724003--21724059 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
21723993 CCCTTAATTT
21724003 ATATATATAATTTTGTTAA
1 ATATATATAATTTT-TTAA
* *
21724022 ATATATTTTATTTTTTAA
1 ATATATATAATTTTTTAA
*
21724040 AAATATCAGTTAATTTTTTA
1 ATATAT-A--TAATTTTTTA
21724060 TATAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 12 0.40
21 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (18 bp):
ATATATATAATTTTTTAA
Found at i:21724682 original size:28 final size:29
Alignment explanation
Indices: 21724638--21724710 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
21724628 ATGAAAAATA
* *
21724638 AATTAAAAAACTTAAAAGCA-A-GTTTATT
1 AATT-AAAAACTTAAAAGAATATGTTTAAT
*
21724666 AATTAAAAACTTGAAAATAATATGTTTAAT
1 AATTAAAAACTT-AAAAGAATATGTTTAAT
21724696 AATTAAAAACATTAA
1 AATTAAAAAC-TTAA
21724711 TTAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.21
28 9 0.24
29 1 0.03
30 18 0.47
31 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTAAAAACTTAAAAGAATATGTTTAAT
Found at i:21729708 original size:5 final size:6
Alignment explanation
Indices: 21729672--21729735 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
21729662 CAACCCAATC
* * *
21729672 ATAAAA ATTAAAA AT-AAT TTAATAA ATAAAA ATAAAA ATCTAAAA CTAAAA
1 ATAAAA A-TAAAA ATAAAA ATAA-AA ATAAAA ATAAAA A--TAAAA ATAAAA
21729723 ATAAAA ATAAAA A
1 ATAAAA ATAAAA A
21729736 ATATAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 3 0.06
6 29 0.62
7 10 0.21
8 5 0.11
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:21729736 original size:20 final size:20
Alignment explanation
Indices: 21729698--21729736 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21729688 ATTTAATAAA
**
21729698 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
21729718 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
21729737 TATAATTTTA
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:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:21729767 original size:9 final size:9
Alignment explanation
Indices: 21729753--21729820 Score: 93
Period size: 9 Copynumber: 7.6 Consensus size: 9
21729743 TTTATACAAA
*
21729753 TAATTCGAT
1 TAATTCGGT
21729762 TAATTCGGT
1 TAATTCGGT
21729771 TAATTCAGG-
1 TAATTC-GGT
*
21729780 TAATTCGGG
1 TAATTCGGT
21729789 TAATTCGGT
1 TAATTCGGT
*
21729798 TAATTCGAT
1 TAATTCGGT
21729807 TAATTCGGT
1 TAATTCGGT
21729816 TAATT
1 TAATT
21729821 TTATACTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
8 2 0.04
9 49 0.92
10 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:21730706 original size:14 final size:14
Alignment explanation
Indices: 21730687--21730716 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21730677 CTACATCGAG
21730687 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
21730701 ACCAATCCAATTCA
1 ACCAATCCAAATCA
21730715 AC
1 AC
21730717 ATATTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:21750409 original size:42 final size:43
Alignment explanation
Indices: 21750292--21750443 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
21750282 TAGGAATCCG
* ** * * *
21750292 ATATGTGATTTCGTGTAAGACCACATTTGGGAC-GTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGACATCA
* * *
21750335 AT-TTGAGATTTACGTGTACGACCATGTTTGGGACA-TCGACATC-
1 ATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGT-GACATCA
* *
21750378 ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCA
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCA
* *
21750421 ATATTTGATTACATGTAAGACCA
1 ATATTTGATTTCGTGTAAGACCA
21750444 CGTTTGAGAT
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 26 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCA
Found at i:21751765 original size:22 final size:22
Alignment explanation
Indices: 21751740--21751781 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21751730 TCTAAGTGTT
*
21751740 TGGAAATTTTTATTCGAGATTC
1 TGGAAATTTTTATACGAGATTC
21751762 TGGAAATTTTTATACGAGAT
1 TGGAAATTTTTATACGAGAT
21751782 CGGTTTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (22 bp):
TGGAAATTTTTATACGAGATTC
Found at i:21763914 original size:48 final size:47
Alignment explanation
Indices: 21763843--21763972 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 47
21763833 AGCTCCCGTA
* * * *
21763843 TAAGACCATATCTGGGATATGGCTTCGGCAGTGACAT-GTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCTTCGGCA-T-ACATAGTGATCCCACG
* * **
21763891 TAAGACCATGTTTGGGACATGGCTTTGTCATATTTAGTGATCCCACG
1 TAAGACCATGTTTGGGACATGGCTTCGGCATACATAGTGATCCCACG
*
21763938 TAAGACCATGTTCGGGACATGGCATT-GGCAT-CATA
1 TAAGACCATGTTTGGGACATGGC-TTCGGCATACATA
21763973 ATGGGACATC
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.06
47 37 0.54
48 27 0.40
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (47 bp):
TAAGACCATGTTTGGGACATGGCTTCGGCATACATAGTGATCCCACG
Found at i:21764086 original size:93 final size:93
Alignment explanation
Indices: 21763927--21764098 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
21763917 GTCATATTTA
* * *
21763927 GTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCATCATAATGGGACATCGTATAAGAC
1 GTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATGGGACATCATATAAGAC
21763992 CATAACTGGGCTATCGGCTTCGATATGT
66 CATAACTGGGCTATCGGCTTCGATATGT
* * * * * *
21764020 GTGATCCCATGTAAAACCGTGTTTGGGACATGACATTGGCATCATTATGTGGTC-TCATGTAAGA
1 GTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATG-GGACATCATATAAGA
**
21764084 CCATATTTGGGCTAT
65 CCATAACTGGGCTAT
21764099 GACATTGGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 64 0.96
94 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (93 bp):
GTGATCCCACGTAAAACCATGTTCGGGACATGACATTGGCATCATAATGGGACATCATATAAGAC
CATAACTGGGCTATCGGCTTCGATATGT
Found at i:21764093 original size:48 final size:48
Alignment explanation
Indices: 21763878--21764108 Score: 140
Period size: 48 Copynumber: 4.9 Consensus size: 48
21763868 CGGCAGTGAC
* * * *
21763878 ATGTGATCCCATGTAAGACCATGTTTGGGACATGGCTTTGTCAT-ATT
1 ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *
21763925 -TAGTGATCCCACGTAAGACCATGTTCGGGACATGGCATTGGCATCATA
1 AT-GTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* * * * *** * *
21763973 ATG-GGACATCGTATAAGACCATAACTGGG-C-T---ATCGGCTTCGA-T
1 ATGTGGTC-CCATGTAAGACCATGTTTGGGACATGACATTGGCATC-ATT
* *
21764016 ATGTGTGATCCCATGTAAAACCGTGTTTGGGACATGACATTGGCATCATT
1 ATGTG-G-TCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
* *
21764066 ATGTGGTCTCATGTAAGACCATATTTGGG-CTATGACATTGGCA
1 ATGTGGTCCCATGTAAGACCATGTTTGGGAC-ATGACATTGGCA
21764109 CTCTACCTTG
Statistics
Matches: 136, Mismatches: 33, Indels: 29
0.69 0.17 0.15
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 14 0.10
46 4 0.03
47 43 0.32
48 47 0.35
49 3 0.02
50 13 0.10
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
ATGTGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATT
Found at i:21770409 original size:20 final size:20
Alignment explanation
Indices: 21770372--21770411 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21770362 CAAAAAATCC
*
21770372 TTGCTGTAATCTGTTATTGT
1 TTGCTGTAATCTGCTATTGT
* *
21770392 TTGCTGTCATTTGCTATTGT
1 TTGCTGTAATCTGCTATTGT
21770412 GGTTTTCGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.55
Consensus pattern (20 bp):
TTGCTGTAATCTGCTATTGT
Found at i:21771074 original size:7 final size:7
Alignment explanation
Indices: 21771062--21771087 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21771052 TATTTGCGTC
21771062 CTTCAAT
1 CTTCAAT
21771069 CTTCAAT
1 CTTCAAT
21771076 CTTCAAT
1 CTTCAAT
21771083 CTTCA
1 CTTCA
21771088 GTCTGCTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
CTTCAAT
Found at i:21771749 original size:263 final size:263
Alignment explanation
Indices: 21771245--21771912 Score: 831
Period size: 263 Copynumber: 2.5 Consensus size: 263
21771235 TCTCAGGGAG
* *
21771245 ATAAAATCTTCAA-TTCTCAGTATGTTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAAC
1 ATAAAATCTTCAACTT-T-AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAAC
* * * * *
21771309 CTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTAAACTCTGCCCCATTACCGATACATG
64 CTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGG-TAAAATCTGCTCCATTGCCGATACATG
* * * * *
21771374 GAGATAAAATTCACCATCTGCAATTTGTTCTGCTGCAACTTCAGGAAAATAAATCTTGGGGCTTA
128 GAGATAAGATTCACCATCTGCAATCTGCTCCGCTACAACTTCAGGAAAATAAATCTTGGGGCTTA
* * * * * *
21771439 AATCTATTCCATTACCGATACATGAAGATAAGATTCGCCTTTTTCGATCTACTCTACTTCTGTTG
193 AACCTACTCCATTACCGATACATGAAGATAAGATTCGCCTCTTTCGATCTACCCCACTTCTGTTC
21771504 AGAGAA
258 AGAGAA
* *
21771510 ATAAGATCTTTC-ACATTTAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAAC
1 ATAAAATC-TTCAAC-TTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAAC
* *
21771574 CTGCCCTCTTGCTACCTCAGAGAGATAA-GTTGGTGGTAAAATCTGTTCCATTGCCGATACATGG
64 CTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGTAAAATCTGCTCCATTGCCGATACATGG
*** ** * *
21771638 AGATAAGATTCACCATCTTTGATCTGCTCCGCTACTGCTT-AGGGAGATAAGATCTTGGGGCTTA
129 AGATAAGATTCACCATCTGCAATCTGCTCCGCTACAACTTCAGGAAAATAA-ATCTTGGGGCTTA
* * * * *
21771702 AACCTGCTCCATTACCGATATATGGATATAAGATTTGCCTCTTTCGATCTACCCCACTTCTGTTC
193 AACCTACTCCATTACCGATACATGAAGATAAGATTCGCCTCTTTCGATCTACCCCACTTCTGTTC
*
21771767 AGGGAA
258 AGAGAA
* * **
21771773 ATAAAATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAGGAAGACAAGACTACAATCGCCAAC
1 ATAAAATCTTCAA-CTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTCTTCAAC
*** * *
21771838 CTGCTCTCTTGCTACCTCAGAGAGATAAGGTCAATAGTTAAAATCTACTCCATTGCCGATACATG
64 CTGCTCTCTTGCTACCTCAGAGAGATAAGGTTGGT-GGTAAAATCTGCTCCATTGCCGATACATG
21771903 GAGATAAGAT
128 GAGATAAGAT
21771913 CTGTAAATTC
Statistics
Matches: 346, Mismatches: 48, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
262 11 0.03
263 170 0.49
264 43 0.12
265 80 0.23
266 40 0.12
267 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (263 bp):
ATAAAATCTTCAACTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCT
GCTCTCTTGCTACCTCAGAGAGATAAGGTTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAG
ATAAGATTCACCATCTGCAATCTGCTCCGCTACAACTTCAGGAAAATAAATCTTGGGGCTTAAAC
CTACTCCATTACCGATACATGAAGATAAGATTCGCCTCTTTCGATCTACCCCACTTCTGTTCAGA
GAA
Found at i:21771771 original size:89 final size:89
Alignment explanation
Indices: 21771620--21771782 Score: 195
Period size: 89 Copynumber: 1.8 Consensus size: 89
21771610 TAAAATCTGT
* * * * *
21771620 TCCATTGCCGATACATGGAGATAAGATTCACCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGA
1 TCCATTACCGATACATGGAGATAAGATTCACCATCTTTGATCTACCCCACTACTGCTTAGGGAAA
*
21771685 TAAGATCTTGGGGCTTAAACCTGC
66 TAAAATCTTGGGGCTTAAACCTGC
* * ** *
21771709 TCCATTACCGATATATGGATATAAGATTTGCC-TCTTTCGATCTACCCCACTTCTG-TTCAGGGA
1 TCCATTACCGATACATGGAGATAAGATTCACCATCTTT-GATCTACCCCACTACTGCTT-AGGGA
21771772 AATAAAATCTT
64 AATAAAATCTT
21771783 CAATCTTTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
88 7 0.11
89 54 0.89
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TCCATTACCGATACATGGAGATAAGATTCACCATCTTTGATCTACCCCACTACTGCTTAGGGAAA
TAAAATCTTGGGGCTTAAACCTGC
Found at i:21772199 original size:44 final size:44
Alignment explanation
Indices: 21772135--21772233 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 44
21772125 GCCGATACAT
* **
21772135 GGAGATAAGATTCACCATCTTT-GATCTGCTCCGCTACTGC-TTAG
1 GGAGATAAGATTCA-CATCTTTAG-TCTGCTCCACTACAACTTTAG
*
21772179 GGAGATAAGATCTTCA-ATCTTTAGTCTGCTCCACTGCAACTTTAG
1 GGAGATAAGA--TTCACATCTTTAGTCTGCTCCACTACAACTTTAG
21772224 GGAGATAAGA
1 GGAGATAAGA
21772234 CTTGTATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 28 0.60
45 15 0.32
46 4 0.09
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
GGAGATAAGATTCACATCTTTAGTCTGCTCCACTACAACTTTAG
Found at i:21772610 original size:64 final size:64
Alignment explanation
Indices: 21772420--21772610 Score: 301
Period size: 64 Copynumber: 3.0 Consensus size: 64
21772410 TGTATCATGT
* * * *
21772420 TTATGCCAAATAATTAGGATGTTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATAC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* *
21772484 TTATGTCAACTAATTAGAATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* * *
21772548 TTATGTCAAATAATTAGGATGCTATGATTAAAATGAATCAAATGCACCTAATTAGATGTGATG
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATG
21772611 AATGATATAT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
Found at i:21772655 original size:15 final size:16
Alignment explanation
Indices: 21772637--21772667 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21772627 AAAAAATGAA
21772637 AATGATCTTTT-TTTT
1 AATGATCTTTTCTTTT
21772652 AATGATCTTTTCTTTT
1 AATGATCTTTTCTTTT
21772668 TTCTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (16 bp):
AATGATCTTTTCTTTT
Found at i:21773762 original size:18 final size:19
Alignment explanation
Indices: 21773733--21773778 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
21773723 TTTGATTGAT
21773733 TCTTTCTTTCTTTTT-TTTGA
1 TCTTT-TTTCTTTTTATTT-A
21773753 T-TTTTTTCTTTTTATTTA
1 TCTTTTTTCTTTTTATTTA
21773771 TCTTTTTT
1 TCTTTTTT
21773779 ATTCTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 11 0.46
19 12 0.50
20 1 0.04
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
TCTTTTTTCTTTTTATTTA
Found at i:21774456 original size:1 final size:1
Alignment explanation
Indices: 21774446--21774511 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
21774436 ATTAGCAACC
* * * * * * * * *
21774446 TTTTTCTTTTTCTTTTTTGTTATTTTTTTTTGTTTTTGTTTTTATTTTTTTTTTGTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21774511 T
1 T
21774512 GGAATTTGAT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:21774456 original size:6 final size:6
Alignment explanation
Indices: 21774446--21774512 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
21774436 ATTAGCAACC
* * * *
21774446 TTTTTC TTTTTC TTTTTTG TTATTTT TTTTTG TTTTTG TTTTTA TTTTT-
1 TTTTTG TTTTTG T-TTTTG TT-TTTG TTTTTG TTTTTG TTTTTG TTTTTG
21774495 TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG
21774513 GAATTTGATG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
5 5 0.09
6 39 0.72
7 10 0.19
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:21774488 original size:17 final size:17
Alignment explanation
Indices: 21774453--21774511 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 17
21774443 ACCTTTTTCT
*
21774453 TTTTCTTTTTTGTTATTTT
1 TTTT-TTTTTTGTT-TTTA
21774472 TTTTTGTTTTTGTTTTTA
1 TTTTT-TTTTTGTTTTTA
*
21774490 TTTTTTTTTTGTTTTTG
1 TTTTTTTTTTGTTTTTA
21774507 TTTTT
1 TTTTT
21774512 GGAATTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.43
18 9 0.24
19 12 0.32
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTA
Found at i:21774494 original size:23 final size:23
Alignment explanation
Indices: 21774468--21774511 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
21774458 TTTTTTGTTA
21774468 TTTTTTTTTGTTTTTGTTTTTAT
1 TTTTTTTTTGTTTTTGTTTTTAT
21774491 TTTTTTTTTGTTTTTGTTTTT
1 TTTTTTTTTGTTTTTGTTTTT
21774512 GGAATTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTGTTTTTGTTTTTAT
Found at i:21774510 original size:22 final size:21
Alignment explanation
Indices: 21774458--21774505 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 21
21774448 TTTCTTTTTC
21774458 TTTTTTGTTATTTTTTTTTGTT
1 TTTTTTGTT-TTTTTTTTTGTT
*
21774480 TTTGTTTTTATTTTTTTTTTGTT
1 TTT-TTTGT-TTTTTTTTTTGTT
21774503 TTT
1 TTT
21774506 GTTTTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (21 bp):
TTTTTTGTTTTTTTTTTTGTT
Found at i:21777167 original size:33 final size:33
Alignment explanation
Indices: 21777125--21777191 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
21777115 AATCTTCAAG
21777125 TAAAAACTTGTTTTTCTCCACGAACTGGCAGCA
1 TAAAAACTTGTTTTTCTCCACGAACTGGCAGCA
21777158 TAAAAACTTGTTTTTCTCCACGAACTGGCAGCA
1 TAAAAACTTGTTTTTCTCCACGAACTGGCAGCA
21777191 T
1 T
21777192 TCTTCCGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (33 bp):
TAAAAACTTGTTTTTCTCCACGAACTGGCAGCA
Found at i:21779111 original size:2 final size:2
Alignment explanation
Indices: 21779104--21779142 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
21779094 AATTATACAA
*
21779104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21779143 AGACTATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21780508 original size:20 final size:20
Alignment explanation
Indices: 21780471--21780510 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21780461 CAAAAAATCC
*
21780471 TTGCTGTAATCTGTTATTGT
1 TTGCTGTAATCTGCTATTGT
* *
21780491 TTGCTGTCATTTGCTATTGT
1 TTGCTGTAATCTGCTATTGT
21780511 GGTTTTCGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.55
Consensus pattern (20 bp):
TTGCTGTAATCTGCTATTGT
Found at i:21780838 original size:3 final size:3
Alignment explanation
Indices: 21780826--21780961 Score: 125
Period size: 3 Copynumber: 44.0 Consensus size: 3
21780816 TTACATATTG
* * * * *
21780826 ATA ATAA ATA ATA ATA GTA A-A AGGA ATA GTA ATA ATA AGA ATA TTA
1 ATA AT-A ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
*
21780872 ATA ATA GTA ATA AT- ATAA ATA AT- ATAA ATA ATA ATA TATA TATAA
1 ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA -ATA -AT-A
*
21780917 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21780962 TAGCAAAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.05
3 87 0.78
4 17 0.15
5 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21782072 original size:14 final size:14
Alignment explanation
Indices: 21782048--21782086 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
21782038 TAATTGGGTT
21782048 GTTTAGTTGGGCTTG
1 GTTT-GTTGGGCTTG
*
21782063 GTTTGTTGGGTTTG
1 GTTTGTTGGGCTTG
21782077 GTTTGTTGGG
1 GTTTGTTGGG
21782087 GTAGTGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.03, C:0.03, G:0.44, T:0.51
Consensus pattern (14 bp):
GTTTGTTGGGCTTG
Done.