Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 70 of 153
Found at i:22335236 original size:20 final size:20
Alignment explanation
Indices: 22335208--22335245 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22335198 TATTTTCCAA
*
22335208 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
22335228 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
22335246 TCATTTTACG
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:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:22335250 original size:34 final size:35
Alignment explanation
Indices: 22335194--22335260 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
22335184 CAAACACCAG
* *
22335194 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
*
22335229 AAAACATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAA
22335261 TATTTTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
Found at i:22340305 original size:23 final size:23
Alignment explanation
Indices: 22340279--22340328 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
22340269 ACTTTTATCT
22340279 ATGTAAACCAACGAATATTTAAC
1 ATGTAAACCAACGAATATTTAAC
*** * *
22340302 ATGTGGTCCAATGAATATTTAAG
1 ATGTAAACCAACGAATATTTAAC
22340325 ATGT
1 ATGT
22340329 GATGCCATCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (23 bp):
ATGTAAACCAACGAATATTTAAC
Found at i:22340329 original size:23 final size:23
Alignment explanation
Indices: 22340286--22340329 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22340276 TCTATGTAAA
22340286 CCAACGAATATTTAACATGTGGT
1 CCAACGAATATTTAACATGTGGT
* *
22340309 CCAATGAATATTTAAGATGTG
1 CCAACGAATATTTAACATGTG
22340330 ATGCCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (23 bp):
CCAACGAATATTTAACATGTGGT
Found at i:22340824 original size:24 final size:24
Alignment explanation
Indices: 22340797--22340845 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
22340787 AATTTAATTG
*
22340797 ATTTTGATTTTTATA-ATTTTTAAT
1 ATTTTAATTTTT-TAGATTTTTAAT
22340821 ATTTTAATTTTTTAGATTTTTAAT
1 ATTTTAATTTTTTAGATTTTTAAT
22340845 A
1 A
22340846 AATTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAATTTTTTAGATTTTTAAT
Found at i:22340828 original size:34 final size:32
Alignment explanation
Indices: 22340782--22340852 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 32
22340772 AACAAAAACC
*
22340782 TTTTAAATTTAATTGATTTT-GATTTTT-ATAAT
1 TTTTAAATTTAATT--TTTTAGATTTTTAATAAA
22340814 TTTTAATATTTTAATTTTTTAGATTTTTAATAAA
1 TTTTAA-A-TTTAATTTTTTAGATTTTTAATAAA
22340848 TTTTA
1 TTTTA
22340853 GATAGTGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 10 0.29
33 8 0.24
34 16 0.47
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (32 bp):
TTTTAAATTTAATTTTTTAGATTTTTAATAAA
Found at i:22340843 original size:16 final size:16
Alignment explanation
Indices: 22340798--22340844 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
22340788 ATTTAATTGA
*
22340798 TTTT-GATTTTTATAAT
1 TTTTAGATTTTTA-ATT
22340814 TTTTA-ATATTTTAATT
1 TTTTAGAT-TTTTAATT
22340830 TTTTAGATTTTTAAT
1 TTTTAGATTTTTAAT
22340845 AAATTTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTTTAGATTTTTAATT
Found at i:22341039 original size:2 final size:2
Alignment explanation
Indices: 22341032--22341061 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22341022 GATGCGAAAC
22341032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22341062 GTTTCGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22350477 original size:21 final size:21
Alignment explanation
Indices: 22350451--22350501 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
22350441 CAACGGTGGA
22350451 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTGGATACTGTAGC
22350472 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTGGATACTGTAGC
*
22350493 AGTGAGATT
1 GGTGAGATT
22350502 AGAAACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.37, T:0.29
Consensus pattern (21 bp):
GGTGAGATTGGATACTGTAGC
Found at i:22354924 original size:152 final size:153
Alignment explanation
Indices: 22354627--22354908 Score: 494
Period size: 152 Copynumber: 1.8 Consensus size: 153
22354617 GAAGGATGGG
22354627 TTCTGATAGAAGCTTGAAGTCCACTCATTTTCTTATCAGTAGTGAAACATCAGTTTGCAAGTTAA
1 TTCTGATAGAAGCTTGAAGTCCACTCATTTTCTTATCAGTAGTGAAACATCAGTTTGCAAGTTAA
* * *
22354692 CTCTCAAGTAAAAACTTCGACACACAACCATGTTGTCTGAAAATCTCATCGTCTAAAAAGAAAAG
66 CTCTCAAGTAAAAACTTCAACACACAACCATGTTGGCTGAAAATCTCATCGTCTAAAAAGAAAAA
** *
22354757 CTCTGTGGCTAAAGGAGGATACT
131 CTCAATGACTAAAGGAGGATACT
22354780 TTCTGATAGAAGCTTGAAGTCCACTCATTTTCTTATCAGTAGTGAAACATCAG-TTGCAAGTTAA
1 TTCTGATAGAAGCTTGAAGTCCACTCATTTTCTTATCAGTAGTGAAACATCAGTTTGCAAGTTAA
*
22354844 CTCTCAAGTAAAAACTTCAACATACAACCATGTTGGCTGAAAATCTCATCGTCTAAAAAGAAAAA
66 CTCTCAAGTAAAAACTTCAACACACAACCATGTTGGCTGAAAATCTCATCGTCTAAAAAGAAAAA
22354909 ACCAAATACT
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
152 72 0.58
153 53 0.42
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (153 bp):
TTCTGATAGAAGCTTGAAGTCCACTCATTTTCTTATCAGTAGTGAAACATCAGTTTGCAAGTTAA
CTCTCAAGTAAAAACTTCAACACACAACCATGTTGGCTGAAAATCTCATCGTCTAAAAAGAAAAA
CTCAATGACTAAAGGAGGATACT
Found at i:22355447 original size:16 final size:17
Alignment explanation
Indices: 22355421--22355457 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
22355411 GTTTTTTCCG
22355421 GGAGAAGTGGGAAAGAA
1 GGAGAAGTGGGAAAGAA
*
22355438 GGAG-AGTGGGAAAGCA
1 GGAGAAGTGGGAAAGAA
22355454 GGAG
1 GGAG
22355458 TTGACAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.41, C:0.03, G:0.51, T:0.05
Consensus pattern (17 bp):
GGAGAAGTGGGAAAGAA
Found at i:22361443 original size:26 final size:25
Alignment explanation
Indices: 22361396--22361447 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
22361386 CAAACAGGAC
*
22361396 ATAAGAAATTAACATCAGAATATAAA
1 ATAAGAAATTAACATCAAAATA-AAA
* *
22361422 ATAAGAACTTAACATTAAAATAAAA
1 ATAAGAAATTAACATCAAAATAAAA
22361447 A
1 A
22361448 CAAAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (25 bp):
ATAAGAAATTAACATCAAAATAAAA
Found at i:22363816 original size:25 final size:25
Alignment explanation
Indices: 22363788--22363838 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
22363778 TGCAAAATCA
*
22363788 ACATCGAGTCTAGTGGAATTAAAGT
1 ACATCGAGTCGAGTGGAATTAAAGT
22363813 ACATCGAGTCGAGTGGAATTAAAGT
1 ACATCGAGTCGAGTGGAATTAAAGT
22363838 A
1 A
22363839 TCTCGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (25 bp):
ACATCGAGTCGAGTGGAATTAAAGT
Found at i:22364879 original size:16 final size:14
Alignment explanation
Indices: 22364847--22364876 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
22364837 TGTAAGATTT
22364847 ATTAAAAAAATATA
1 ATTAAAAAAATATA
22364861 ATTAGAAAAAATATA
1 ATTA-AAAAAATATA
22364876 A
1 A
22364877 ATTTACCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
ATTAAAAAAATATA
Found at i:22368541 original size:24 final size:26
Alignment explanation
Indices: 22368481--22368541 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
22368471 CAATACTCAA
* **
22368481 CTCGTATGACCTTACCGATTTTTTAG
1 CTCGTATGAGCTTACCGATTTTACAG
* *
22368507 CTCGGAGGAGCTTACC-A-TTTACAG
1 CTCGTATGAGCTTACCGATTTTACAG
22368531 CTCGTATGAGC
1 CTCGTATGAGC
22368542 ATACATGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 14 0.50
25 1 0.04
26 13 0.46
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (26 bp):
CTCGTATGAGCTTACCGATTTTACAG
Found at i:22388838 original size:3 final size:3
Alignment explanation
Indices: 22388830--22388861 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22388820 CTACTTCTTG
22388830 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22388862 ACTCTTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22397625 original size:3 final size:3
Alignment explanation
Indices: 22397619--22397659 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22397609 TAACATGTAA
22397619 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
22397660 ATTATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:22401050 original size:23 final size:23
Alignment explanation
Indices: 22401004--22401051 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22400994 TAGTACTTTT
* *
22401004 GTACTTATGTTATTAGAACTTTG
1 GTACTTATGTTACTAGAACATTG
* *
22401027 GTACTTCTGTTACTAGCACATTG
1 GTACTTATGTTACTAGAACATTG
22401050 GT
1 GT
22401052 GCTTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (23 bp):
GTACTTATGTTACTAGAACATTG
Found at i:22410835 original size:43 final size:43
Alignment explanation
Indices: 22410770--22410885 Score: 196
Period size: 43 Copynumber: 2.7 Consensus size: 43
22410760 TGTGATTTCG
* *
22410770 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATAACG
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
* *
22410813 TTTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGATAACC
1 TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
22410856 TGTAAGACCATGTCTGGAACATTGGCATCG
1 TGTAAGACCATGTCTGGAACATTGGCATCG
22410886 TATATGAGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACATTGGCATCGAAGTGAGATAACC
Found at i:22410944 original size:84 final size:85
Alignment explanation
Indices: 22410770--22410956 Score: 227
Period size: 84 Copynumber: 2.2 Consensus size: 85
22410760 TGTGATTTCG
* *
22410770 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATAACGTTTAAGACCATGTCTGGGACAT
1 TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGAT-ACGTATAAGACCATGTCTGGGACAG
* * *
22410835 TGGCATCGAAGTGAGATAACC
65 CGGCATCGAAATGAGATAACA
* * *
22410856 TGTAAGACCATGTCTGGAACATTGGCATCGTATA-TGAG-T-CGTATAAGACCCTGTCTGGGATA
1 TGTAAGACCATATCTGGAACATTGGCATCG-A-AGTGAGATACGTATAAGACCATGTCTGGGACA
* * *
22410918 GCGGCATCGAAATGTGTTGACA
64 GCGGCATCGAAATGAGATAACA
22410940 TGTAAGACCATATCTGG
1 TGTAAGACCATATCTGG
22410957 GATATGGCAT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
84 51 0.59
86 30 0.34
87 5 0.06
88 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (85 bp):
TGTAAGACCATATCTGGAACATTGGCATCGAAGTGAGATACGTATAAGACCATGTCTGGGACAGC
GGCATCGAAATGAGATAACA
Found at i:22415354 original size:41 final size:41
Alignment explanation
Indices: 22415304--22415582 Score: 348
Period size: 41 Copynumber: 6.8 Consensus size: 41
22415294 TTAATTTAAA
* *
22415304 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
22415346 CAGATCACCGACACTTAGCCTACTAGGCTTATAA-CCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * *
22415387 TAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
22415428 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
22415469 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATT
* * *
22415510 CAGATCATCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAGCCTGATT
** *
22415552 CAGGA-CACCGGCTTTTAGCCTGCTAGACTTA
1 CA-GATCACCGGCACTTAGCCTGCTAGGCTTA
22415583 TAGTCCGAAA
Statistics
Matches: 208, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
40 1 0.00
41 169 0.81
42 36 0.17
43 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:22415446 original size:82 final size:82
Alignment explanation
Indices: 22415304--22415585 Score: 386
Period size: 82 Copynumber: 3.4 Consensus size: 82
22415294 TTAATTTAAA
* * * *
22415304 CAGATTCACCAGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTAC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGC
22415369 TAGGCTTATAACCTGATT
65 TAGGCTTATAACCTGATT
* *
22415387 TAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
*
22415452 AGGCTTATAGCCTGATT
66 AGGCTTATAACCTGATT
* * * *
22415469 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCATCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
* *
22415534 AGGTTTTAAAACCTGATT
66 AGG-CTTATAACCTGATT
** *
22415552 CAGGA-CACCGGCTTTTAGCCTGCTAGACTTATAG
1 CA-GATCACCGGCACTTAGCCTGCTAGGCTTATAG
22415586 TCCGAAATGT
Statistics
Matches: 177, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
82 134 0.76
83 41 0.23
84 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTTAGCCTGCT
AGGCTTATAACCTGATT
Found at i:22415613 original size:124 final size:122
Alignment explanation
Indices: 22415316--22415618 Score: 317
Period size: 123 Copynumber: 2.5 Consensus size: 122
22415306 GATTCACCAG
* * * * * * *
22415316 CACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTACTAGGCTTATAAC
1 CACTTAGCCTGCTAGACTTATAGCCTGAAT-AGATCACCGGCACTAAGCCTGCTAGGCTTATAAC
* * * *
22415381 CTGATTTAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGA
65 CTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAAAACCTGATTCAGATCACCGA
* * *
22415439 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAAC
1 CACTTAGCCTGCTAGACTTATAGCCTGAAT-AGATCACCGGCACTAAGCCTGCTAGGCTTATAAC
* * * *
22415504 CTGGTTCAGATCATCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATTCAGGA-CACCGG
65 CTGATTCAGATCACCGGCACTTAGCCTGCTAGG-CTTAAAACCTGATTCA-GATCACCGA
** *
22415563 CTTTTAGCCTGCTAGACTTATAGTCC-GAA-ATGTTCCACCGGCA-TCAAGCCTGCTAG
1 CACTTAGCCTGCTAGACTTATAG-CCTGAATA-GAT-CACCGGCACT-AAGCCTGCTAG
22415619 ACATAAAGTC
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
122 1 0.01
123 93 0.60
124 58 0.37
125 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (122 bp):
CACTTAGCCTGCTAGACTTATAGCCTGAATAGATCACCGGCACTAAGCCTGCTAGGCTTATAACC
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAAAACCTGATTCAGATCACCGA
Found at i:22416058 original size:78 final size:77
Alignment explanation
Indices: 22415903--22416112 Score: 214
Period size: 78 Copynumber: 2.8 Consensus size: 77
22415893 AACTTATAAC
* * **
22415903 ATACTATGTACAT-T-TA-ACATTCGAATCTTACATATACCTATATAATTTCATAC-CCCATTTC
1 ATAC-ATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTC
22415964 AATACAAAAACTT
65 AATACAAAAACTT
*
22415977 ATACATGTACATATATACACATTCGAATCTAACATATATACATATATAATTTTATACTTACATTT
1 ATACATGTACATATATACACATTCGAATCTAAC--ATATACATATATAATTTCATACTTACATTT
* **
22416042 GAA-ACAAGTACTT
64 CAATACAAAAACTT
* * * * ** * *
22416055 ATACTTGTATACACATACATTTTCGAATTTAACATATACATATATAGTTTCATACTTA
1 ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTA
22416113 TACTCAATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
73 8 0.07
74 5 0.04
75 2 0.02
76 37 0.33
78 54 0.48
79 7 0.06
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (77 bp):
ATACATGTACATATATACACATTCGAATCTAACATATACATATATAATTTCATACTTACATTTCA
ATACAAAAACTT
Found at i:22416419 original size:19 final size:21
Alignment explanation
Indices: 22416395--22416445 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
22416385 ATGTATATAC
*
22416395 ATATATATATCCGAATTTTAT
1 ATATATATATCCGAATCTTAT
22416416 ATATATAAATATCCGAA-CTT-T
1 ATATAT--ATATCCGAATCTTAT
22416437 ATATATATA
1 ATATATATA
22416446 AATATAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.11
21 13 0.48
22 2 0.07
23 9 0.33
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATATATATCCGAATCTTAT
Found at i:22416421 original size:23 final size:23
Alignment explanation
Indices: 22416390--22416450 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
22416380 TATTCATGTA
* * *
22416390 TATACATATATATATCCGAATTT
1 TATATATATAAATATCCGAACTT
22416413 TATATATATAAATATCCGAACTT
1 TATATATATAAATATCCGAACTT
22416436 TATATATATAAATAT
1 TATATATATAAATAT
22416451 AACATACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (23 bp):
TATATATATAAATATCCGAACTT
Found at i:22416448 original size:78 final size:74
Alignment explanation
Indices: 22416284--22416427 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 74
22416274 ACATTCAACA
*
22416284 TTAACTAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
1 TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT-
22416349 ACATACATACTT
65 AC--ACATACTT
* * * *
22416361 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATATCCGAATTTTATATATATAAAT
1 TTAAATAAATTCAA-AACTTATTCATGTATATAC--ACATATATCCGAACTTTATATATATAAAT
22416426 AT
63 AT
22416428 CCGAACTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 14 0.23
78 18 0.30
80 29 0.48
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.40
Consensus pattern (74 bp):
TTAAATAAATTCAAAACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATATA
CACATACTT
Found at i:22416502 original size:80 final size:78
Alignment explanation
Indices: 22416413--22416663 Score: 430
Period size: 78 Copynumber: 3.2 Consensus size: 78
22416403 ATCCGAATTT
* *
22416413 TATATATATAAATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
22416478 GAATTTATTCATG
66 GAATTTATTCATG
* *
22416491 TATATACATATATATCCGAATTTTATATATATAAATATAACATGCATACTTTTAACTAAATTCAA
1 TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
22416556 GAATTTATTCATG
66 GAATTTATTCATG
22416569 TATATACATATATATCCGAACTTTATATATATATATATATAACATACATACTTTTAACTAAATTC
1 TATATACATATATATCCGAACTTTATATATATA-A-ATATAACATACATACTTTTAACTAAATTC
* *
22416634 AAGAACTTATACATG
64 AAGAATTTATTCATG
22416649 TATATACATATATAT
1 TATATACATATATAT
22416664 AACATACATA
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
78 106 0.65
79 1 0.01
80 56 0.34
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (78 bp):
TATATACATATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAA
GAATTTATTCATG
Found at i:22416551 original size:103 final size:102
Alignment explanation
Indices: 22416321--22416528 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 102
22416311 ATATACACAT
22416321 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
22416386 TGTATATACATATATATATCCGAATTTTATATATATAA
66 TGTATATACA-ATATATATCCGAATTTTATATATATAA
22416424 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
1 ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
22416489 TGTATATAC-ATATATATCCGAATTTTATATATATAA
66 TGTATATACAATATATATCCGAATTTTATATATATAA
22416525 ATAT
1 ATAT
22416529 AACATGCATA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
101 31 0.30
103 74 0.70
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (102 bp):
ATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCA
TGTATATACAATATATATCCGAATTTTATATATATAA
Found at i:22416726 original size:63 final size:63
Alignment explanation
Indices: 22416592--22416845 Score: 435
Period size: 63 Copynumber: 4.1 Consensus size: 63
22416582 ATCCGAACTT
* *
22416592 TATATATATATATATATAACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATAC-
1 TATACATATATA-ACAT-ACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
22416656 -AT--ATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
22416716 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
1 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
*
22416779 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATGTACA
1 TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
22416842 TATA
1 TATA
22416846 TTATCCACTA
Statistics
Matches: 184, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
59 46 0.25
60 3 0.02
61 9 0.05
63 126 0.68
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.36
Consensus pattern (63 bp):
TATACATATATAACATACATACATACTTTTAACTAAATTCAAGAACTTATACATGTATATACA
Found at i:22419178 original size:3 final size:3
Alignment explanation
Indices: 22419170--22419320 Score: 107
Period size: 3 Copynumber: 49.7 Consensus size: 3
22419160 AAAAAGAGGA
22419170 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
22419218 AAT -AT AAAT GTAT GTAT ATTT AA- ACT -AT CAT -AT AAT AAT -AT GAT
1 AAT AAT -AAT -AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
22419262 AAGT AAC AAT AAT -AT AAGT AAC AAT AAT AAT AAT AGT AAT AAT AAAT
1 AA-T AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT
22419309 AAT AAAT AAT AA
1 AAT -AAT AAT AA
22419321 AAGATGATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
2 10 0.08
3 90 0.74
4 22 0.18
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22419311 original size:7 final size:7
Alignment explanation
Indices: 22419284--22419321 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
22419274 TATAAGTAAC
22419284 AATAAT-
1 AATAATA
22419290 AATAATA
1 AATAATA
22419297 GTAATAATA
1 --AATAATA
22419306 AATAATA
1 AATAATA
22419313 AATAATA
1 AATAATA
22419320 AA
1 AA
22419322 AGATGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
9 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:22419396 original size:29 final size:31
Alignment explanation
Indices: 22419358--22419421 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
22419348 GAAAATAATA
* *
22419358 AAAATGCT-AAATA-GGGGACTAAATCGAAGT
1 AAAATGCTAAAATACGGGG-CGAAATCGAAAT
22419388 AAAA-GCTAAAATACGGGGCGAAATCGAAAT
1 AAAATGCTAAAATACGGGGCGAAATCGAAAT
22419418 AAAA
1 AAAA
22419422 AAGGGACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.10
30 23 0.77
31 4 0.13
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.16
Consensus pattern (31 bp):
AAAATGCTAAAATACGGGGCGAAATCGAAAT
Found at i:22421051 original size:44 final size:43
Alignment explanation
Indices: 22420979--22421230 Score: 174
Period size: 44 Copynumber: 5.8 Consensus size: 43
22420969 ACCTGATACG
* * * *
22420979 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTATTTCA
* * * *
22421023 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTA-TTTCA
* * * * * *
22421067 ATCTGCTCCGCTGTAATCTTAGGGAGATAAGA-CCTGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
* * * *
22421108 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-TTTATTTCA
* * * * * *
22421152 ACCCGCTCCATTGTAATTTCAGGGAGATAGGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-TTAT-TTCA
22421196 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
22421231 AAAATTCTTC
Statistics
Matches: 154, Mismatches: 42, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
40 1 0.01
41 27 0.18
42 3 0.02
43 8 0.05
44 113 0.73
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTATTTCA
Found at i:22421147 original size:129 final size:129
Alignment explanation
Indices: 22420914--22421227 Score: 493
Period size: 129 Copynumber: 2.4 Consensus size: 129
22420904 ACTGCTGCCT
* * * * * * * *
22420914 AGGGAGATAGAATTGCTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
*
22420979 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
* *
22421043 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGACCTGATACG
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
* * *
22421108 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAACCCGCTCCATTGTAATTTC
66 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
*
22421172 AGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
1 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
22421228 TCTAAAATTC
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 168 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (129 bp):
AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCTC
Found at i:22431289 original size:46 final size:45
Alignment explanation
Indices: 22431222--22431793 Score: 581
Period size: 46 Copynumber: 13.6 Consensus size: 45
22431212 TTTGAGTACT
* *
22431222 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
22431268 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
22431304 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
22431350 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
22431396 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
22431442 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
22431478 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
22431514 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
22431560 TCTGATCAAGTGAAAAAGTGATAA---GTA--TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
22431596 TCTAATCAAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
22431632 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
22431678 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
22431724 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
22431769 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
22431794 ATCATACGTA
Statistics
Matches: 464, Mismatches: 25, Indels: 77
0.82 0.04 0.14
Matches are distributed among these distances:
33 1 0.00
34 2 0.00
35 1 0.00
36 141 0.30
37 4 0.01
38 4 0.01
40 7 0.02
42 8 0.02
43 18 0.04
44 3 0.01
45 23 0.05
46 252 0.54
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:22431299 original size:36 final size:36
Alignment explanation
Indices: 22431258--22431658 Score: 298
Period size: 36 Copynumber: 10.0 Consensus size: 36
22431248 GGTAGCTTTA
22431258 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
22431294 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
* *
22431333 AGCTTTAACTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 -G------CTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
22431385 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
22431431 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
22431468 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
22431504 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
22431549 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
** * *
22431586 ATTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
22431622 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
22431658 G
1 G
22431659 TTAGCCTTAG
Statistics
Matches: 316, Mismatches: 20, Indels: 58
0.80 0.05 0.15
Matches are distributed among these distances:
36 160 0.51
37 3 0.01
39 2 0.01
40 5 0.02
42 2 0.01
45 3 0.01
46 135 0.43
47 1 0.00
49 1 0.00
52 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:22431359 original size:82 final size:81
Alignment explanation
Indices: 22431222--22431793 Score: 518
Period size: 82 Copynumber: 6.9 Consensus size: 81
22431212 TTTGAGTACT
* *
22431222 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
22431287 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* * * *
22431304 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
22431369 GATAAGTGGTAGCTTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
22431396 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
22431461 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * * *
22431478 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAATTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
22431534 ATAAGTGGTAGCTTTAGCTACACTTA
66 AT-A-----AG---T-GCTACACTTA
* *
22431560 TCTGATCAAGTGAAAAAGTGATAA---GTA--TTA--T--ACTTATCTAATCAAGTGAAAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
* *
22431616 ATAAGTGATATACTTA
66 ATAAGTGCTACACTTA
* *
22431632 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
22431697 GATAAGTGGTAGCCTTAGCTACACTTA
65 GAT-A-----AG---T-GCTACACTTA
* * *
22431724 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
22431787 ATAAGTG
66 ATAAGTG
22431794 ATCATACGTA
Statistics
Matches: 414, Mismatches: 31, Indels: 93
0.77 0.06 0.17
Matches are distributed among these distances:
72 60 0.14
73 3 0.01
75 2 0.00
76 4 0.01
78 5 0.01
79 1 0.00
80 2 0.00
81 3 0.01
82 173 0.42
83 6 0.01
84 1 0.00
85 2 0.00
86 2 0.00
88 5 0.01
89 8 0.02
90 2 0.00
91 23 0.06
92 112 0.27
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:22431594 original size:118 final size:118
Alignment explanation
Indices: 22431386--22431703 Score: 546
Period size: 118 Copynumber: 2.7 Consensus size: 118
22431376 GGTAGCTTTA
22431386 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
* *
22431451 GTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* *
22431504 GCTACACTTATCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
22431569 GTGAAAAAGTGATAAGTATTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
66 GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
* * * *
22431622 GATATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
*
22431687 GTGAGAAAGTGATAAGT
66 GTGAAAAAGTGATAAGT
22431704 GGTAGCCTTA
Statistics
Matches: 188, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 188 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTACTATACTTATCTAATCAAGTGAAAAAGTGATAAGT
Found at i:22432448 original size:76 final size:76
Alignment explanation
Indices: 22432313--22432470 Score: 271
Period size: 76 Copynumber: 2.1 Consensus size: 76
22432303 TTATAACTCG
* * *
22432313 GTTAAATACGTTTACAAGTGCATGTCTTTTGGTAATGTCTCGTACCCTATTCCTGTATTGAATAC
1 GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
22432378 GGGTAAGGGGT
66 GGGTAAGGGGT
* *
22432389 GTTACATATGTTTACAAGTGCATGTGTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
1 GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
22432454 GGGTAAGGGGT
66 GGGTAAGGGGT
22432465 GTTACA
1 GTTACA
22432471 CCAAATCTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (76 bp):
GTTACATACGTTTACAAGTGCATGTCTTTTGGTAATGCCTCGTACCCTATTCCAGTATTGAATAC
GGGTAAGGGGT
Found at i:22433582 original size:26 final size:26
Alignment explanation
Indices: 22433543--22433595 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
22433533 ACTCATACTT
22433543 CAAACTTAACAGATCAGCCTGAACCG
1 CAAACTTAACAGATCAGCCTGAACCG
*
22433569 CAAACTTAATAGATCAGCCTGAACCG
1 CAAACTTAACAGATCAGCCTGAACCG
22433595 C
1 C
22433596 TAGGGTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (26 bp):
CAAACTTAACAGATCAGCCTGAACCG
Found at i:22435538 original size:316 final size:316
Alignment explanation
Indices: 22434968--22436859 Score: 3624
Period size: 316 Copynumber: 6.0 Consensus size: 316
22434958 TTTGGGGAAG
22434968 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTTCTTTACATCAGGATGTACT
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCC-TTTTTCTTTACATCAGGATGTACT
*
22435033 AGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCGGGC
65 AGCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGC
*
22435098 AGCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAG
130 AGCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAG
22435163 CAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCC
195 CAGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCC
* *
22435228 ACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGGAACAACTGTAGGTAGGATGAAG
260 ACAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
22435285 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
*
22435350 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGCTGGATTCGGGCA
66 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
*
22435415 GCAACCCACTGCTCGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
131 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
22435480 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
196 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
* *
22435545 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGGAACAACTGTAGGTAGGATGAAG
261 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
22435601 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
22435666 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
66 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
22435731 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
131 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
*
22435796 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCCTCCA
196 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
22435861 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
261 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
*
22435917 ACCACTAGTCCGTAGATACCTTAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
*
22435982 GTACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
66 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
22436047 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
131 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
*
22436112 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCCTCCA
196 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
22436177 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
261 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
*
22436233 ACCACTAGTCCGTAGATACCTTAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
*
22436298 GTACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
66 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
22436363 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
131 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
*
22436428 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCGAAGCAAGGTCGTATACTCCTCCA
196 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
22436493 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
261 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
*
22436549 ACCACTAGTCCGTAGATACCTTAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
1 ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
22436614 G-ACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
66 GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
22436678 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
131 GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
22436743 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
196 AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
22436808 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
261 CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGAT
22436860 TCCAAAATTG
Statistics
Matches: 1567, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
315 244 0.16
316 1283 0.82
317 40 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (316 bp):
ACCACTAGTCCGTAGATACCTAAAGCGAAGACATCGACCCTTTTTCTTTACATCAGGATGTACTA
GCACCAAATCTCGCAAGCTTTTCCAAGGAACGCATTTACTGTCGCCTTTCTGTTGGATTCGGGCA
GCAACCCACTGCTTGCTCATCCCAGTGATGTTCATTAATTTCTTTAACAACGGAGGGGCACCAGC
AGCTCTAGAATAAGCCTTGTCAACTTGAGTCTTTGGGCACCAAAGCAAGGTCGTATACTCCTCCA
CAGTAGGCGTCAAGTCCACTTTTCCAAAAAGTGAAACAACTGTAGGTAGGATGAAA
Found at i:22438345 original size:11 final size:11
Alignment explanation
Indices: 22438329--22438370 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22438319 GCAAAATACG
*
22438329 TATAAATATTA
1 TATAAAAATTA
*
22438340 TATAAAAAATA
1 TATAAAAATTA
22438351 TA-AAAAATATA
1 TATAAAAAT-TA
22438362 TATAAAAAT
1 TATAAAAAT
22438371 GTACATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 15 0.58
12 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TATAAAAATTA
Found at i:22438421 original size:37 final size:37
Alignment explanation
Indices: 22438380--22438453 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
22438370 TGTACATGTG
* *
22438380 AGATATAAAA-AAAGCAATATAAGATAAATATATATAT
1 AGATATAAAAGAAA-CAATATAAAATAAATATAAATAT
* *
22438417 AGATATAAAAGAAACTATATAAAATATATATAAATAT
1 AGATATAAAAGAAACAATATAAAATAAATATAAATAT
22438454 GTATACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 29 0.91
38 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (37 bp):
AGATATAAAAGAAACAATATAAAATAAATATAAATAT
Found at i:22438600 original size:3 final size:3
Alignment explanation
Indices: 22438592--22438663 Score: 58
Period size: 3 Copynumber: 23.3 Consensus size: 3
22438582 AAACTATCAT
* * *
22438592 ATA ATA AT- ATG ATA AGTA ACA ATA AT- ATA AGTA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
*
22438637 ATA GTA ATA ATAA ATA ATAA ATA ATA A
1 ATA ATA ATA AT-A ATA AT-A ATA ATA A
22438664 AAGATGATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.07
3 40 0.71
4 12 0.21
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:22438642 original size:18 final size:18
Alignment explanation
Indices: 22438592--22438656 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 18
22438582 AAACTATCAT
22438592 ATAATAATATGATAAGTAACA
1 ATAATAATA--AT-AGTAACA
22438613 ATAAT-AT-A-AGTAACA
1 ATAATAATAATAGTAACA
*
22438628 ATAATAATAATAGTAATA
1 ATAATAATAATAGTAACA
22438646 ATAAATAATAA
1 AT-AATAATAA
22438657 ATAATAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 12 0.31
16 2 0.05
17 2 0.05
18 8 0.21
19 8 0.21
20 2 0.05
21 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
ATAATAATAATAGTAACA
Found at i:22438654 original size:7 final size:7
Alignment explanation
Indices: 22438627--22438664 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
22438617 TATAAGTAAC
22438627 AATAAT-
1 AATAATA
22438633 AATAATA
1 AATAATA
22438640 GTAATAATA
1 --AATAATA
22438649 AATAATA
1 AATAATA
22438656 AATAATA
1 AATAATA
22438663 AA
1 AA
22438665 AGATGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
9 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:22445957 original size:38 final size:38
Alignment explanation
Indices: 22445906--22445980 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
22445896 GATAACTCCA
* *
22445906 CAATCCCATATTTTCCTTCTAAAGTCACTCCAACACTT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
*
22445944 CAATCCCATATTTTCCTCCTAAAATCACTCTAACACT
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACT
22445981 CCCCCACCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.35, G:0.01, T:0.33
Consensus pattern (38 bp):
CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTT
Found at i:22447573 original size:19 final size:20
Alignment explanation
Indices: 22447549--22447589 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
22447539 ATCAAGAAAA
22447549 TTATATAACATT-AAAAATT
1 TTATATAACATTCAAAAATT
* *
22447568 TTATATAATATTCTAAAATT
1 TTATATAACATTCAAAAATT
22447588 TT
1 TT
22447590 CAATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATATAACATTCAAAAATT
Found at i:22447602 original size:22 final size:20
Alignment explanation
Indices: 22447549--22447602 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
22447539 ATCAAGAAAA
* *
22447549 TTATATAACATT-AAAAATT
1 TTATATAAAATTCTAAAATT
*
22447568 TTATATAATATTCTAAAATT
1 TTATATAAAATTCTAAAATT
22447588 TTCAATATAAAATTC
1 TT--ATATAAAATTC
22447603 CATAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 8 0.28
22 10 0.34
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATATAAAATTCTAAAATT
Found at i:22452069 original size:17 final size:18
Alignment explanation
Indices: 22452047--22452080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22452037 TTTATATTAT
*
22452047 TTTTAT-TTTTTTTTAAA
1 TTTTATATTATTTTTAAA
22452064 TTTTATATTATTTTTAA
1 TTTTATATTATTTTTAA
22452081 TTAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATATTATTTTTAAA
Found at i:22455555 original size:120 final size:120
Alignment explanation
Indices: 22455417--22455841 Score: 706
Period size: 120 Copynumber: 3.5 Consensus size: 120
22455407 ATATATTTTN
*
22455417 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
1 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATT
* *
22455482 ATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAA
66 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA
*
22455537 TACTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATT
1 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATT
*
22455602 ATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA
66 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA
*
22455657 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
1 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATT
* * * * * *
22455722 ATATTTTATAGTATCATATATTATTATTTTAGTAAATTCAGATAAAAATATTGAT
66 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA
* * *
22455777 TATTGAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATG-TTAAAT
22455842 ATGATTAAAT
Statistics
Matches: 286, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
120 281 0.98
121 5 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATT
ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAA
Found at i:22455568 original size:56 final size:55
Alignment explanation
Indices: 22455508--22455819 Score: 186
Period size: 56 Copynumber: 5.3 Consensus size: 55
22455498 TATATTATGA
*
22455508 TTTTATTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * * * *
22455564 TTTTATTAAATTATATTTAATAATAATT-ATGTTAAATTATATTTTA-TAGTATTATATAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATT-AA-GA-ATTTTATTA-AATTATATAT
22455623 TATGATT-TTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
1 T-T--TTATT---AAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * *
22455684 TTTTATTAAATTATATTTAATAATAATT-ATGTTAA-AATATATT-TTATAGTATCATATATTAT
1 TTTTATTAAATTATA--TAAGAATATTTAATATTAAGAAT-T-TTATTA-A--AT--TATA-TA-
22455746 T
55 T
* * * * * *
22455747 ATTTTAGTAAATTCAGATAAAAATATTGATTATTGAGAATTTTATTAAATTATATAT
1 -TTTTATTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
22455804 TTTAATTAAAATATAT
1 TTTTATTAAATTATAT
22455820 TTAATAATAA
Statistics
Matches: 198, Mismatches: 26, Indels: 65
0.69 0.09 0.22
Matches are distributed among these distances:
55 12 0.06
56 39 0.20
57 24 0.12
58 7 0.04
59 24 0.12
60 2 0.01
61 24 0.12
62 7 0.04
63 23 0.12
64 28 0.14
65 8 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (55 bp):
TTTTATTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:22455813 original size:18 final size:17
Alignment explanation
Indices: 22455785--22455819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22455775 ATTATTGAGA
*
22455785 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22455802 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22455820 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22456074 original size:16 final size:16
Alignment explanation
Indices: 22456055--22456106 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
22456045 GATTTGTTAT
* *
22456055 TACACTTCTATTCCAT
1 TACACTTCTAATCCAA
22456071 TACA-TCTCTAATCCAA
1 TACACT-TCTAATCCAA
*
22456087 TACACCTCTAATCCAA
1 TACACTTCTAATCCAA
22456103 TACA
1 TACA
22456107 GCAAACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACTTCTAATCCAA
Found at i:22466430 original size:34 final size:35
Alignment explanation
Indices: 22466365--22466430 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
22466355 GGCCTCACGA
** * *
22466365 TACATCAATATTCAGTTACGAAATACCTCATCATT
1 TACATCAATATTCAGCCACAAAATACATCATCATT
*
22466400 TACA-CAATATTCAGCCACAAAATTCATCATC
1 TACATCAATATTCAGCCACAAAATACATCATC
22466431 TTAGGACAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 22 0.85
35 4 0.15
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (35 bp):
TACATCAATATTCAGCCACAAAATACATCATCATT
Found at i:22474868 original size:30 final size:30
Alignment explanation
Indices: 22474828--22474897 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
22474818 TTAAATTAGT
22474828 AAAA-ATAAAATTAT-ATTTTAATCTCCTAA
1 AAAATATAAAATTATGA-TTTAATCTCCTAA
* **
22474857 AAAATATAAAATTTTGATTTAATCTTTTAA
1 AAAATATAAAATTATGATTTAATCTCCTAA
*
22474887 AAATTATAAAA
1 AAAATATAAAA
22474898 ATCTAAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.11
30 30 0.86
31 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAATATAAAATTATGATTTAATCTCCTAA
Found at i:22475829 original size:33 final size:33
Alignment explanation
Indices: 22475756--22475835 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
22475746 CATCTCCCAC
* * * *
22475756 GTCCACAACTCGCCATCCCCATATTCGCTTGAT
1 GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
* *
22475789 GTCCACAGCTTGCCATCCCCCTGTCCGCCTGAT
1 GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
22475822 GTCCACAGCTTGCC
1 GTCCACAGCTTGCC
22475836 TTCTCTTGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.16, C:0.42, G:0.16, T:0.25
Consensus pattern (33 bp):
GTCCACAGCTTGCCATCCCCATATCCGCCTGAT
Found at i:22485965 original size:21 final size:21
Alignment explanation
Indices: 22485907--22485965 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
22485897 GCTTCAGTTT
* *
22485907 AACCCCTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCATTC
* ** * *
22485928 AGCTTTTATGAGCTTCCATTC
1 AACCCTTATGGGTTTCCATTC
22485949 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
22485966 GTTTAGCACT
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:22485965 original size:42 final size:42
Alignment explanation
Indices: 22485883--22485968 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
22485873 TAGGTTTCAA
*
22485883 TTCAGCTCTTTTGAGCTTCAGTTTAACCCCTATGGGTTTCCG
1 TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
*
22485925 TTCAGCT-TTTATGAGCTTCCA-TTCAACCCTTATGGGTTTCCG
1 TTCAGCTCTTT-TGAGCTT-CAGTTCAACCCCTATGGGTTTCCG
22485967 TT
1 TT
22485969 TAGCACTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 3 0.08
42 35 0.88
43 2 0.05
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (42 bp):
TTCAGCTCTTTTGAGCTTCAGTTCAACCCCTATGGGTTTCCG
Found at i:22488128 original size:36 final size:36
Alignment explanation
Indices: 22488088--22488177 Score: 153
Period size: 36 Copynumber: 2.5 Consensus size: 36
22488078 ATAGGTATTT
* *
22488088 AAAACGGCGTCGTTTTGGGCATGCCTCTCAGGCACC
1 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
22488124 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
1 AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
*
22488160 AAAATGACGCCGTTTTGG
1 AAAACGACGCCGTTTTGG
22488178 CTTTAAACCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (36 bp):
AAAACGACGCCGTTTTGGGCATGCCTCTCAGGCACC
Found at i:22488517 original size:15 final size:15
Alignment explanation
Indices: 22488509--22488554 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
22488499 ATTATTTTGT
22488509 TCATTATTATTATTA
1 TCATTATTATTATTA
22488524 TCATTATTATTATTA
1 TCATTATTATTATTA
* * *
22488539 TTATTTTTATTTTTA
1 TCATTATTATTATTA
22488554 T
1 T
22488555 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TCATTATTATTATTA
Found at i:22488522 original size:6 final size:6
Alignment explanation
Indices: 22488497--22488575 Score: 79
Period size: 6 Copynumber: 13.2 Consensus size: 6
22488487 TGTAGCATTT
* * *
22488497 TTATTA TT-TTG TTCATTA TTATTA TTATCA TTATTA TTATTA TTATTT
1 TTATTA TTATTA TT-ATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
22488545 TTATTT TTATTT TTATTT TTATTT TTATTA T
1 TTATTA TTATTA TTATTA TTATTA TTATTA T
22488576 CATCGTATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 4 0.06
6 57 0.88
7 4 0.06
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (6 bp):
TTATTA
Found at i:22488549 original size:12 final size:12
Alignment explanation
Indices: 22488493--22488575 Score: 96
Period size: 12 Copynumber: 6.9 Consensus size: 12
22488483 CCTTTGTAGC
22488493 ATTTTTATTATT
1 ATTTTTATTATT
*
22488505 -TTGTTCATTATT
1 ATT-TTTATTATT
* *
22488517 ATTATTATCATT
1 ATTTTTATTATT
*
22488529 ATTATTATTATT
1 ATTTTTATTATT
*
22488541 ATTTTTATTTTT
1 ATTTTTATTATT
*
22488553 ATTTTTATTTTT
1 ATTTTTATTATT
22488565 ATTTTTATTAT
1 ATTTTTATTAT
22488576 CATCGTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
11 2 0.03
12 57 0.93
13 2 0.03
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:22489511 original size:109 final size:110
Alignment explanation
Indices: 22489305--22489604 Score: 523
Period size: 110 Copynumber: 2.7 Consensus size: 110
22489295 TCAAAAAAGG
22489305 AAAATATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAA-GTGCT
1 AAAAT-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
22489369 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTT-
65 GGGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
22489414 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
22489479 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTA
66 GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
*** * *
22489524 AAAAAAATCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGTCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
22489589 GGTGTCGATTTTTCTC
66 GGTGTCGATTTTTCTC
22489605 ATTTAAACAA
Statistics
Matches: 183, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
108 53 0.29
109 54 0.30
110 76 0.42
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTA
Found at i:22490966 original size:61 final size:61
Alignment explanation
Indices: 22490842--22491114 Score: 271
Period size: 61 Copynumber: 4.5 Consensus size: 61
22490832 TTGTCATAAG
* * * * * *
22490842 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGC-ATCCCTTACATCCAGTACTCGCCACAGA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * *
22490902 GGCTTTCCTGTCTAGAG-TAGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
1 GGCTTTCCTGTCTAGAGATA-TGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * *
22490963 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * * * * * *
22491024 GGCTATCCTATCTCGAGTTATGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
1 GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
* * * * *
22491085 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGATATGCCACAAAG
22491115 ACGTCCTTTA
Statistics
Matches: 175, Mismatches: 35, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
59 1 0.01
60 26 0.15
61 146 0.83
62 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (61 bp):
GGCTTTCCTGTCTAGAGATATGCCACAAAGGCTATCCTTTACATCCAGTACTCGCCACAAA
Found at i:22490990 original size:29 final size:30
Alignment explanation
Indices: 22490889--22490993 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 30
22490879 TTACATCCAG
*
22490889 TACTCGCCACAGAGGCTTTCCTGTCTAGAG-
1 TACT-GCCACAAAGGCTTTCCTGTCTAGAGA
* * * * **
22490919 TAGTGCCACAATGGCTGTCCTTTACATCCA-A
1 TACTGCCACAAAGGCTTTCCTGT-C-TAGAGA
*
22490950 TACTCGTCACAAAGGCTTTCCTGTCTAGAGA
1 TACT-GCCACAAAGGCTTTCCTGTCTAGAGA
22490981 TA-TGCCACAAAGG
1 TACTGCCACAAAGG
22490994 TTATCCTTTA
Statistics
Matches: 55, Mismatches: 15, Indels: 11
0.68 0.19 0.14
Matches are distributed among these distances:
29 24 0.44
30 7 0.13
31 9 0.16
32 15 0.27
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (30 bp):
TACTGCCACAAAGGCTTTCCTGTCTAGAGA
Found at i:22491065 original size:122 final size:121
Alignment explanation
Indices: 22490842--22491114 Score: 314
Period size: 122 Copynumber: 2.2 Consensus size: 121
22490832 TTGTCATAAG
* * * * * *
22490842 GGCTTACCTTTCTAGAGTTTTGCCACAAAGGCATCCCTTACATCCAGTACTCGCCACAGAGGCTT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCCAGTACTCACCACAAAGGCTA
* * * *
22490907 TCCTGTCTAGAGTAGTGCCACAATGGCTGTCCTTTACATCCAATACTCGTCACAAA
66 TCCTATCTAGAGTAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * * *
22490963 GGCTTTCCTGTCTAGAGATATGCCACAAAGGTTATCCTTTACATCTAGTACTCACCTCAAAGGCT
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAGG-CATCCCTTACATCCAGTACTCACCACAAAGGCT
* * * *
22491028 ATCCTATCTCGAGTTA-TGCCACAAAGGTTGTCATTTACATCCACTGCTCGCCACAAA
65 ATCCTATCTAGAG-TAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
* * * *
22491085 GGCTTTCTTGTCCAAAGTTATGTCACAAAG
1 GGCTTTCCTGTCTAGAGTTATGCCACAAAG
22491115 ACGTCCTTTA
Statistics
Matches: 126, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
121 27 0.21
122 97 0.77
123 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (121 bp):
GGCTTTCCTGTCTAGAGTTATGCCACAAAGGCATCCCTTACATCCAGTACTCACCACAAAGGCTA
TCCTATCTAGAGTAGTGCCACAAAGGCTGTCATTTACATCCAATACTCGCCACAAA
Found at i:22491388 original size:53 final size:53
Alignment explanation
Indices: 22491239--22491391 Score: 225
Period size: 53 Copynumber: 2.9 Consensus size: 53
22491229 TTGTTATTTT
*
22491239 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATAGTCTTATTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* * * * *
22491292 CCACATGATGCCATAACCCACCAGTTACGATCTTACACTATATGGTCTTCTTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
* * *
22491345 CCATATGAAGTCATGACCCACCAGTTACGGTCTTACACGATATGGTC
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTC
22491392 ATTTAATGCC
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (53 bp):
CCATATGATGTCATAACCCACCAGTTACGGTCTTACACAATATGGTCTTATTC
Found at i:22496979 original size:8 final size:9
Alignment explanation
Indices: 22496966--22497081 Score: 67
Period size: 10 Copynumber: 12.1 Consensus size: 9
22496956 AAATATTTTT
22496966 ATTTTTTAA
1 ATTTTTTAA
22496975 ATTTTTTAA
1 ATTTTTTAA
*
22496984 ATTTTTTTTA
1 A-TTTTTTAA
*
22496994 A-TTTTAAA
1 ATTTTTTAA
*
22497002 ATACTTTTAAAA
1 AT--TTTT-TAA
22497014 TACTTTTTTTAA
1 -A--TTTTTTAA
22497026 A-TTTTTAA
1 ATTTTTTAA
22497034 ATTTTTTAAA
1 ATTTTTT-AA
*
22497044 ATACTTTTAA
1 AT-TTTTTAA
*
22497054 ATTTTTTTA
1 ATTTTTTAA
*
22497063 A-TTTTAAA
1 ATTTTTTAA
22497071 ATATTTTTAA
1 AT-TTTTTAA
22497081 A
1 A
22497082 ATATTTTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
8 20 0.24
9 21 0.25
10 23 0.27
11 9 0.11
12 5 0.06
13 5 0.06
15 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:22497070 original size:69 final size:66
Alignment explanation
Indices: 22496966--22497098 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 66
22496956 AAATATTTTT
*
22496966 ATTTTTTAAATTTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAATTTT
1 ATTTTTTAAATCTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATA-TTTTTTT-AATTTT
22497031 TAA
64 TAA
*
22497034 ATTTTTTAAAATACTTTTAAA-TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAATTTT
1 ATTTTTT-AAAT-CTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTAATTTT
22497098 T
64 T
22497099 GTTTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
67 7 0.11
68 14 0.23
69 33 0.54
70 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (66 bp):
ATTTTTTAAATCTTTTAAATTTTTTTTAATTTTAAAATACTTTTAAAATATTTTTTTAATTTTTA
A
Found at i:22497093 original size:13 final size:11
Alignment explanation
Indices: 22496995--22497089 Score: 73
Period size: 11 Copynumber: 9.4 Consensus size: 11
22496985 TTTTTTTTAA
*
22496995 TTTTAAAATAC
1 TTTTAAAATAT
22497006 TTTTAAAATACT
1 TTTTAAAATA-T
**
22497018 TTTTTTAA-AT
1 TTTTAAAATAT
22497028 TTTT-AAAT-T
1 TTTTAAAATAT
*
22497037 TTTTAAAATAC
1 TTTTAAAATAT
22497048 TTTT-AAAT-T
1 TTTTAAAATAT
*
22497057 TTTT----TAA
1 TTTTAAAATAT
22497064 TTTTAAAATAT
1 TTTTAAAATAT
22497075 TTTTAAAATAT
1 TTTTAAAATAT
22497086 TTTT
1 TTTT
22497090 TTAATTTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
9 11 0.16
10 13 0.19
11 32 0.48
12 6 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22497550 original size:24 final size:24
Alignment explanation
Indices: 22497504--22497559 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
22497494 CCAAATTTAA
*
22497504 ATTAAAA-TTTTAAAAATATATTT
1 ATTAAAATTTTTAAAAATAAATTT
* **
22497527 TTTAAAATTTTTAATTATAAATTT
1 ATTAAAATTTTTAAAAATAAATTT
*
22497551 ATGAAAATT
1 ATTAAAATT
22497560 AATATAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAAAATTTTTAAAAATAAATTT
Found at i:22497653 original size:25 final size:25
Alignment explanation
Indices: 22497606--22497652 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
22497596 AAATATATAA
*
22497606 ATATTTTTATTATTTTAATAAAATT
1 ATATATTTATTATTTTAATAAAATT
22497631 ATATATTTATTATTTT-ATAAAA
1 ATATATTTATTATTTTAATAAAA
22497653 AATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATATTTATTATTTTAATAAAATT
Found at i:22500339 original size:9 final size:9
Alignment explanation
Indices: 22500321--22500357 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22500311 TATAGTTTGA
22500321 TATTCGAAT
1 TATTCGAAT
*
22500330 TATTCAAAT
1 TATTCGAAT
*
22500339 TATTCGAGT
1 TATTCGAAT
22500348 TATTCGAAT
1 TATTCGAAT
22500357 T
1 T
22500358 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22505040 original size:13 final size:13
Alignment explanation
Indices: 22505022--22505069 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
22505012 TTTTTATTGT
22505022 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
*
22505035 TTTTGAAAAGTGC
1 TTTTGAGAAGTGC
*
22505048 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
22505061 TTTTGAGAA
1 TTTTGAGAA
22505070 ATTTGTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:22505709 original size:15 final size:15
Alignment explanation
Indices: 22505689--22505736 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
22505679 TGATTCAGTG
22505689 TCATCATCACCG---
1 TCATCATCACCGTCA
22505701 TCATCATCACCGTCA
1 TCATCATCACCGTCA
**
22505716 TCATCATCGTCGTCA
1 TCATCATCACCGTCA
22505731 TCATCA
1 TCATCA
22505737 CTTTCTCGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 12 0.39
15 19 0.61
ACGTcount: A:0.25, C:0.38, G:0.08, T:0.29
Consensus pattern (15 bp):
TCATCATCACCGTCA
Found at i:22505735 original size:12 final size:12
Alignment explanation
Indices: 22505688--22505733 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
22505678 TTGATTCAGT
22505688 GTCATCATCACC
1 GTCATCATCACC
22505700 GTCATCATCACC
1 GTCATCATCACC
*
22505712 GTCATCATCATC
1 GTCATCATCACC
*
22505724 GTCGTCATCA
1 GTCATCATCA
22505734 TCACTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.24, C:0.37, G:0.11, T:0.28
Consensus pattern (12 bp):
GTCATCATCACC
Found at i:22507225 original size:72 final size:72
Alignment explanation
Indices: 22507099--22507408 Score: 489
Period size: 72 Copynumber: 4.3 Consensus size: 72
22507089 AAATCATATT
* ** * *
22507099 TAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAAATCAATATCCAAAG
1 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAG
22507162 ACCAAACA
65 ACCAAACA
*
22507170 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAATATAAATTCAATATCCAAAGA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
22507235 CCAAACA
66 CCAAACA
*
22507242 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAATATAAATTCAATATCCAAAGA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
22507307 CCAAACA
66 CCAAACA
* *
22507314 TAAACAACTATTAATAAAACTAGATTACACTTAAATAAATAGAACATAAATTCAATATCCAAAAA
1 TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
22507379 CCAAACA
66 CCAAACA
* * *
22507386 TAAATAAATATTGATAAAACTAG
1 TAAACAACTATTAATAAAACTAG
22507409 TTTAACGTTG
Statistics
Matches: 225, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
71 24 0.11
72 201 0.89
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
TAAACAACTATTAATAAAACTAGATTACACATAAATAAATAGAACATAAATTCAATATCCAAAGA
CCAAACA
Found at i:22508600 original size:20 final size:20
Alignment explanation
Indices: 22508575--22508618 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
22508565 GTTTACATGT
22508575 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
22508595 ATATGAAAATACATATTCTA
1 ATATGAAAATACATATTCTA
22508615 ATAT
1 ATAT
22508619 TAATTTTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATGAAAATACATATTCTA
Found at i:22510050 original size:19 final size:19
Alignment explanation
Indices: 22510004--22510052 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
22509994 AACAGCTTCA
*
22510004 AAATATTAAACAGAAGAAG
1 AAATATAAAACAGAAGAAG
* *
22510023 AACTAATAAAACAGAAGAAT
1 AAAT-ATAAAACAGAAGAAG
22510043 AAATATAAAA
1 AAATATAAAA
22510053 GAAACTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:22515005 original size:56 final size:56
Alignment explanation
Indices: 22514939--22515063 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 56
22514929 TATGTAAAAC
* * ** * *
22514939 TATGTAAAATTATTAAGCCCGATAACTTTTGTTAATGGTTAGTAA-ATTTTTCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
22514995 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
22515051 TAGGTAAAATTAT
1 TATGTAAAATTAT
22515064 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:22515083 original size:23 final size:23
Alignment explanation
Indices: 22515057--22515118 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
22515047 AAATTAGGTA
* *
22515057 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
22515080 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
22515103 AAATTAGGGTAGGGTT
1 AAATTAGGTTAGGGTT
22515119 AAGGTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:22515145 original size:23 final size:23
Alignment explanation
Indices: 22515057--22515341 Score: 111
Period size: 28 Copynumber: 10.7 Consensus size: 23
22515047 AAATTAGGTA
* * *
22515057 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAATT
*
22515080 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTTTTAATT
22515103 AAATTAGGGTAGGGTTAAGGTTTTTAATT
1 AAA-T----TA-GGTTAAGGTTTTTAATT
22515132 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTT-A----A-GGTTTTTAATT
*
22515161 AAATTAGGTTAGGGTTAGAGTTTTTAAATA
1 AAATTAGGTTA-----AG-GTTTTT-AATT
22515191 AATTAGGTTAAGGTTAAGGTTTTTAATT
1 AA--A--TT-AGGTTAAGGTTTTTAATT
22515219 AAATTAGGTTAAGGTTAGGGTTTCAATT
1 AAATTAGGTTAAGGTT----TTT-AATT
* *
22515247 AAATTAGGTTAGGGTTAGGGTTAAATT
1 AAATTAGGTTAAGGTT----TTTAATT
** *
22515274 AGGTTAAGGTTAGGGTTTTTAATT
1 AAATT-AGGTTAAGGTTTTTAATT
*
22515298 AAATTAGGGTAAGGTTAGGGTTTTAATT
1 AAATTAGGTTAAGG-T----TTTTAATT
*
22515326 AAATTAGGTTAGGGTT
1 AAATTAGGTTAAGGTT
22515342 AGGGTTAGGG
Statistics
Matches: 214, Mismatches: 17, Indels: 62
0.73 0.06 0.21
Matches are distributed among these distances:
23 46 0.21
24 16 0.07
26 1 0.00
27 11 0.05
28 67 0.31
29 57 0.27
30 7 0.03
32 1 0.00
34 2 0.01
35 6 0.03
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (23 bp):
AAATTAGGTTAAGGTTTTTAATT
Found at i:22515255 original size:28 final size:28
Alignment explanation
Indices: 22515085--22516788 Score: 876
Period size: 29 Copynumber: 62.4 Consensus size: 28
22515075 TAAATAAATT
*
22515085 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22515114 GGGTTAAGGTTTTTAATTAAATTAGGTTA
1 AGGTT-AGGGTTTTAATTAAATTAGGTTA
22515143 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* * *
22515172 GGGTTAGAGTTTTTAAATAAATTAGGTTA
1 AGGTTAG-GGTTTTAATTAAATTAGGTTA
*
22515201 AGGTTAAGGTTTTTAATTAAATTAGGTTA
1 AGGTT-AGGGTTTTAATTAAATTAGGTTA
*
22515230 AGGTTAGGGTTTCAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515258 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515280 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
22515309 AGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* **** *
22515337 GGGTTAGGGTTAGGGTTAAATTAGGCTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515365 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22515394 AGGTTAGGGTTTTTAATTAAATTAGGATA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22515423 GGGTTAGGGCTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
22515452 AGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515480 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
22515502 GGGTTAGGGTTTTTAAATAAATT--TTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
** *** * * * * *
22515529 CCAAATCTAACATTAT-GTAAAACTATG-TA
1 --AGGT-TAGGGTTTTAATTAAATTAGGTTA
** ** **** * **
22515558 AAATTATTAAG-CCCGA-TAACTTTTGTTA
1 AGGTTA--GGGTTTTAATTAAATTAGGTTA
** * *
22515586 ATGGTTAGTAAATTTT--TCAAATTATG-TA
1 A-GGTTAG--GGTTTTAATTAAATTAGGTTA
** ** *** * *
22515614 AAATTATTAAG-CCCAA-AAAAGT-GTGTTA
1 AGGTTA--GGGTTTTAATTAAATTAG-GTTA
* * * *
22515642 ATGGTTAGTAAG-ATT-ATCAAATTAGGTAAAATT
1 A-GGTTAG--GGTTTTAATTAAATTAGGT----TA
* * *
22515675 ATGTTATGGTTTTTAAATAAATTAGGTT-
1 AGGTTA-GGGTTTTAATTAAATTAGGTTA
*
22515703 A-G---GGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
22515727 AGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515755 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
22515777 GGGTTAGAGTTTTTAATTAAATTAGGGTA
1 AGGTTAG-GGTTTTAATTAAATTAGGTTA
22515806 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
22515835 AGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22515863 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22515885 AGGTTAGGGTTTTAATTAAATTAAGTAA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
** ** * * *
22515913 ATTTTTCA-AATTAT-GTAAAATTA--TTA
1 A-GGTT-AGGGTTTTAATTAAATTAGGTTA
*** * * **
22515939 AGCCCAAAAAAGTGTGTTAA-T-GGTTA-G-TA
1 AG-----GTTAGGGTTTTAATTAAATTAGGTTA
* ***** * * *
22515968 AGATTATCAAATTAGGTAAAATTATGTTA
1 AGGTTAGGGTTTTA-ATTAAATTAGGTTA
* *
22515997 TGGTT----T-TTAAATAAATTAGGTT-
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22516019 A-G---GGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22516043 GGGTTAGGGTTTTTAAATAAATTAGGTT-
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22516071 A-G---GGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22516095 GGGTTAGGGTTTTTAAATAAATTAGGTT-
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22516123 A-G---GGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22516147 GGGTTAGGGTTTTTAATTAAATTAGGTT-
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22516175 A-G---GGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22516199 AGATTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516228 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516257 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
22516279 GGGTTAGAGTTTTTAAATAAATTAGGTTA
1 AGGTTAG-GGTTTTAATTAAATTAGGTTA
*
22516308 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* * *
22516337 GGGTTAGGGTTTTTAAATAAGTTAGGGTTA
1 AGGTTAGGG-TTTTAATTAAATTA-GGTTA
22516367 AGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* *
22516389 GGGTTAGGGTTTTTAAATAAA-TAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516417 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
22516439 GGGTTAGAGTTTTTAAATAAATTAGGTTA
1 AGGTTAG-GGTTTTAATTAAATTAGGTTA
*
22516468 AGGTTAAGGTTTTTAATTAAATTAGGTTA
1 AGGTT-AGGGTTTTAATTAAATTAGGTTA
*
22516497 AGGTTAGGGTTTCAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22516525 GGGTTAGGG------TTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22516547 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22516576 GGGTTAGGGTTTTTAAATAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516605 AGGTTAGGGTTTTAATTAAATTAAGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
22516633 GGGTTAAGGTTTTAAATAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTA
*
22516661 GGGTTAGGGTTTTTAATTAAATTAGAG-TA
1 AGGTTAGGG-TTTTAATTAAATTAG-GTTA
* *
22516690 GGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
* *
22516719 GGGTTAGGGTTTTTAAATAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516748 AGGTTAGGGTTTTTAAATAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTA
*
22516777 GGGTTAGGGTTT
1 AGGTTAGGGTTT
22516789 GGGTTTGAAA
Statistics
Matches: 1313, Mismatches: 214, Indels: 297
0.72 0.12 0.16
Matches are distributed among these distances:
21 5 0.00
22 153 0.12
23 101 0.08
24 16 0.01
25 4 0.00
26 5 0.00
27 28 0.02
28 307 0.23
29 648 0.49
30 27 0.02
32 6 0.00
33 13 0.01
ACGTcount: A:0.32, C:0.01, G:0.25, T:0.41
Consensus pattern (28 bp):
AGGTTAGGGTTTTAATTAAATTAGGTTA
Found at i:22515270 original size:22 final size:22
Alignment explanation
Indices: 22515217--22515290 Score: 85
Period size: 22 Copynumber: 3.1 Consensus size: 22
22515207 AGGTTTTTAA
22515217 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
*
22515239 TTTCAATTAAATTAGGTTAGGGTTAGGG
1 ------TTAAATTAGGTTAAGGTTAGGG
22515267 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
22515289 TT
1 TT
22515291 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
22 23 0.52
28 21 0.48
ACGTcount: A:0.30, C:0.01, G:0.30, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAAGGTTAGGG
Found at i:22515507 original size:22 final size:22
Alignment explanation
Indices: 22515467--22515512 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
22515457 AGGGTTTTAA
22515467 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
22515489 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
22515511 TT
1 TT
22515513 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:22515641 original size:56 final size:56
Alignment explanation
Indices: 22515552--22515676 Score: 171
Period size: 56 Copynumber: 2.2 Consensus size: 56
22515542 TATGTAAAAC
* * ** * *
22515552 TATGTAAAATTATTAAGCCCGATAACTTTTGTTAATGGTTAGTAA-ATTTTTCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
22515608 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
22515664 TAGGTAAAATTAT
1 TATGTAAAATTAT
22515677 GTTATGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:22515696 original size:23 final size:23
Alignment explanation
Indices: 22515670--22515731 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
22515660 AAATTAGGTA
* *
22515670 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAAGGTTTTTAAAT
* *
22515693 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAAGGTTTTTAAAT
22515716 AAATTAGGTTAAGGTT
1 AAATTAGGTTAAGGTT
22515732 AGGGTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (23 bp):
AAATTAGGTTAAGGTTTTTAAAT
Found at i:22516057 original size:52 final size:52
Alignment explanation
Indices: 22515993--22516781 Score: 724
Period size: 52 Copynumber: 14.6 Consensus size: 52
22515983 GTAAAATTAT
*
22515993 GTTATGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
22516045 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
22516097 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
* *
22516149 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAAG
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
* * *
22516201 ATTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAAATAAA-T----TA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
** * * * *
22516259 GTTAGGG---TTAAATTAGGTTAGGGTTAGAGTTTTTAAATAAATTAGGTTAAG
1 GTTAGGGTTTTTAAA-TAAATTA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
* * * *
22516310 GTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAATAAGTTAGGGTTAAG
1 GTTAGGGTTTTTAAATAAA-T----TA-GGTTAGGGTTTTTAATTAAATTAGGG-TAGG
** * *
22516369 GTTAGGG---TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAA-TAGGTTAGG
1 GTTAGGGTTTTTAAA-TAAATTA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
** * * * *
22516419 GTTAGGG---TTAAATTAGGTTAGGGTTAGAGTTTTTAAATAAATTAGGTTAAG
1 GTTAGGGTTTTTAAA-TAAATTA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
* * * *
22516470 GTTAAGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTCAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTT----TTT-AATTAAATTAGGGTAGG
**
22516527 GTTAGGG---TTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGGTTTTTAAA-TAAATT-AGGTTAGGGTTTTTAATTAAATTAGGGTAGG
* * *
22516578 GTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAAGTTAGG
1 GTTAGGGTTTTTAAATAAATTAGGTT-A-G---GGTTTTTAATTAAATTAGGGTAGG
* *
22516635 GTTAAGG-TTTTAAATAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGAGTAGG
1 GTTAGGGTTTTTAAAT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
* * * *
22516692 GTTAGGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAG
1 GTTAGGGTTTTTAAATAAA-T----TA-GGTTAGGGTTTTTAATTAAATTAGGGTAGG
22516750 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTT
1 GTTAGGGTTTTTAAATAAATTAGGTTAGGGTT
22516782 AGGGTTTGGG
Statistics
Matches: 631, Mismatches: 59, Indels: 94
0.80 0.08 0.12
Matches are distributed among these distances:
50 43 0.07
51 78 0.12
52 219 0.35
53 15 0.02
54 20 0.03
55 10 0.02
56 28 0.04
57 83 0.13
58 114 0.18
59 12 0.02
60 1 0.00
61 4 0.01
62 4 0.01
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.41
Consensus pattern (52 bp):
GTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGG
Found at i:22516197 original size:18 final size:21
Alignment explanation
Indices: 22516149--22516191 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
22516139 TTAGGGTAGG
22516149 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
22516171 GGTTAGGGTTTTTAATTAAAT
1 -GTTAGGGTTTTTAATTAAAT
22516192 TAGGGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:22516272 original size:22 final size:22
Alignment explanation
Indices: 22516244--22516285 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
22516234 GGGTTTTTAA
22516244 TTAAATTAGGTTAGGGTTAGGG
1 TTAAATTAGGTTAGGGTTAGGG
22516266 TTAAATTAGGTTAGGGTTAG
1 TTAAATTAGGTTAGGGTTAG
22516286 AGTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (22 bp):
TTAAATTAGGTTAGGGTTAGGG
Found at i:22516393 original size:22 final size:22
Alignment explanation
Indices: 22516362--22516445 Score: 105
Period size: 22 Copynumber: 3.5 Consensus size: 22
22516352 AATAAGTTAG
*
22516362 GGTTAAGGTTAGGGTTAAATTA
1 GGTTAGGGTTAGGGTTAAATTA
22516384 GGTTAGGGTTAGGGTTTTTAAATAAATA
1 GGTTAGGGTTAGGG---TTAAAT---TA
22516412 GGTTAGGGTTAGGGTTAAATTA
1 GGTTAGGGTTAGGGTTAAATTA
22516434 GGTTAGGGTTAG
1 GGTTAGGGTTAG
22516446 AGTTTTTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
22 27 0.49
25 12 0.22
28 16 0.29
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (22 bp):
GGTTAGGGTTAGGGTTAAATTA
Found at i:22516537 original size:22 final size:22
Alignment explanation
Indices: 22516484--22516557 Score: 85
Period size: 22 Copynumber: 3.1 Consensus size: 22
22516474 AGGTTTTTAA
22516484 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
*
22516506 TTTCAATTAAATTAGGTTAGGGTTAGGG
1 ------TTAAATTAGGTTAAGGTTAGGG
22516534 TTAAATTAGGTTAAGGTTAGGG
1 TTAAATTAGGTTAAGGTTAGGG
22516556 TT
1 TT
22516558 TTTAATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
22 23 0.52
28 21 0.48
ACGTcount: A:0.30, C:0.01, G:0.30, T:0.39
Consensus pattern (22 bp):
TTAAATTAGGTTAAGGTTAGGG
Found at i:22519145 original size:59 final size:59
Alignment explanation
Indices: 22519072--22519190 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
22519062 GCTCCACCGA
*
22519072 TATGTGATTCCTATCAAGACGAATCAATGTTCCAGCCATTGATGAAAATATAAAAAAAT
1 TATGTGATTCCTATCAAGACGAATCAATGATCCAGCCATTGATGAAAATATAAAAAAAT
* * *
22519131 TATGTGATTGCTATCAAGACGAATCAATGATCCGGCCATTGATGAATATATAAAAAAAT
1 TATGTGATTCCTATCAAGACGAATCAATGATCCAGCCATTGATGAAAATATAAAAAAAT
22519190 T
1 T
22519191 TAAAATTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (59 bp):
TATGTGATTCCTATCAAGACGAATCAATGATCCAGCCATTGATGAAAATATAAAAAAAT
Found at i:22519215 original size:31 final size:30
Alignment explanation
Indices: 22519178--22519240 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
22519168 ATTGATGAAT
22519178 ATATAAAAAAA-TTTAAAATTATTTTTAAAAA
1 ATATAAAAAAATTTTAAAATTA--TTTAAAAA
*
22519209 ATATAAAAAAATTTTGAAATTATTTAAAAA
1 ATATAAAAAAATTTTAAAATTATTTAAAAA
22519239 AT
1 AT
22519241 GAAATTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.33
31 11 0.37
32 9 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
ATATAAAAAAATTTTAAAATTATTTAAAAA
Found at i:22519222 original size:21 final size:21
Alignment explanation
Indices: 22519183--22519223 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22519173 TGAATATATA
* **
22519183 AAAAAATTTAAAATTATTTTT
1 AAAAAATATAAAAAAATTTTT
22519204 AAAAAATATAAAAAAATTTT
1 AAAAAATATAAAAAAATTTT
22519224 GAAATTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAATATAAAAAAATTTTT
Found at i:22519299 original size:22 final size:21
Alignment explanation
Indices: 22519274--22519324 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
22519264 TAATATGGAT
*
22519274 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
22519296 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
22519318 TTGAGAG
1 TTGAGAG
22519325 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:22519340 original size:52 final size:51
Alignment explanation
Indices: 22519277--22519374 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
22519267 TATGGATTTG
* *
22519277 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGA-TTTGGAAGGAAATTGAGAGTTTA
*
22519329 AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAAGGAAATTGAGA
22519375 TAAGATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 17 0.40
52 26 0.60
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.30
Consensus pattern (51 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTGGAAGGAAATTGAGAGTTTA
Found at i:22519359 original size:22 final size:21
Alignment explanation
Indices: 22519329--22519374 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
22519319 TGAGAGTTTA
22519329 AGAGAATTTTGGAAGGAAATTG
1 AGAGAA-TTTGGAAGGAAATTG
* *
22519351 AGAGGATTTGGAATGAAATTG
1 AGAGAATTTGGAAGGAAATTG
22519372 AGA
1 AGA
22519375 TAAGATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (21 bp):
AGAGAATTTGGAAGGAAATTG
Found at i:22521496 original size:13 final size:14
Alignment explanation
Indices: 22521478--22521534 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 14
22521468 TATGCATAAG
22521478 TTATAAA-TTTAAT
1 TTATAAATTTTAAT
22521491 TTATAAATTTTAATTT
1 TTATAAATTTTAA--T
**
22521507 TTATACTTTTTAAAT
1 TTATAAATTTT-AAT
22521522 TTA-AAATTTTAAT
1 TTATAAATTTTAAT
22521535 CTCGAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 10 0.28
14 10 0.28
15 4 0.11
16 10 0.28
17 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAAATTTTAAT
Found at i:22521647 original size:17 final size:16
Alignment explanation
Indices: 22521608--22521654 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
22521598 TAATTTGGTC
22521608 CATTTTTTTAA-TTTA
1 CATTTTTTTAATTTTA
22521623 -ATTATTTTTAATTCTTA
1 CATT-TTTTTAATT-TTA
*
22521640 CATTTTTTGAATTTT
1 CATTTTTTTAATTTT
22521655 GAAGTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 7 0.26
16 3 0.11
17 11 0.41
18 3 0.11
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (16 bp):
CATTTTTTTAATTTTA
Found at i:22527610 original size:3 final size:3
Alignment explanation
Indices: 22527602--22527644 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
22527592 ACGCACACAA
22527602 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22527645 CGAATGAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22541863 original size:22 final size:20
Alignment explanation
Indices: 22541837--22541880 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22541827 ATTTTTAAAA
*
22541837 TTTTAAAAATTCAAAAAATTAT
1 TTTTAAAAA-T-AAAAAATCAT
*
22541859 TTTTACAAATAAAAAATCAT
1 TTTTAAAAATAAAAAATCAT
22541879 TT
1 TT
22541881 CAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAAATAAAAAATCAT
Found at i:22542055 original size:17 final size:18
Alignment explanation
Indices: 22542028--22542061 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22542018 ATACAAATTC
22542028 AAAAATATAAATAAAAAG
1 AAAAATATAAATAAAAAG
22542046 AAAAAT-TAAATAAAAA
1 AAAAATATAAATAAAAA
22542062 ACTAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATATAAATAAAAAG
Found at i:22542368 original size:67 final size:67
Alignment explanation
Indices: 22542260--22542394 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
22542250 TTTTAGAATA
22542260 TAACTTACAAATTTTACTATATTATGATTTTATCATATTATTATCTAAAATTTTAAAATTAAATA
1 TAACTTACAAATTTTACTATATTATGATTTTATCATATTATTATCTAAAATTTTAAAATTAAATA
22542325 AT
66 AT
*
22542327 TAACTTACAAATTTTACTATATTATGATTTTATCATATTATTATTTAAAATTTTAAAATTAAATA
1 TAACTTACAAATTTTACTATATTATGATTTTATCATATTATTATCTAAAATTTTAAAATTAAATA
22542392 AT
66 AT
22542394 T
1 T
22542395 GAATAATAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (67 bp):
TAACTTACAAATTTTACTATATTATGATTTTATCATATTATTATCTAAAATTTTAAAATTAAATA
AT
Found at i:22547465 original size:19 final size:20
Alignment explanation
Indices: 22547437--22547482 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
22547427 TGAATACCCG
22547437 TTAAAATA-TTTTTCACCTA
1 TTAAAATATTTTTTCACCTA
*
22547456 TTAAATTATTTTTTTCACCTA
1 TTAAAATA-TTTTTTCACCTA
22547477 TTAAAA
1 TTAAAA
22547483 CAATTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATATTTTTTCACCTA
Found at i:22547488 original size:22 final size:21
Alignment explanation
Indices: 22547445--22547488 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22547435 CGTTAAAATA
**
22547445 TTTTTCACCTATTAAATTATT
1 TTTTTCACCTATTAAACAATT
22547466 TTTTTCACCTATTAAAACAATT
1 TTTTTCACCTATT-AAACAATT
22547488 T
1 T
22547489 CAACTTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTTCACCTATTAAACAATT
Found at i:22553420 original size:42 final size:42
Alignment explanation
Indices: 22553347--22553476 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 42
22553337 GCCCGAAGAC
* * *
22553347 TAAA-AGAAGCACATAAGTA-CTAAACAAAAACCCGTAAGGGT
1 TAAACAGAAGCACATAAG-AGCTGAACGAAAACCCATAAGGGT
* * *
22553388 TGAACAGAAGCACATAAGAGCTGAACGGAAACCCATAGGGGT
1 TAAACAGAAGCACATAAGAGCTGAACGAAAACCCATAAGGGT
* * *
22553430 TAAACAAAAGCTCA-AAGGAGCTGAACGAAAACCCATTAGGGT
1 TAAACAGAAGCACATAA-GAGCTGAACGAAAACCCATAAGGGT
22553472 TAAAC
1 TAAAC
22553477 GGAAACTCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
41 6 0.08
42 68 0.92
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (42 bp):
TAAACAGAAGCACATAAGAGCTGAACGAAAACCCATAAGGGT
Found at i:22553494 original size:21 final size:21
Alignment explanation
Indices: 22553470--22553523 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
22553460 ACCCATTAGG
22553470 GTTAAACGGAAACTCAT-ATGA
1 GTTAAACGGAAACTCATGA-GA
* * *
22553491 GTTAAACAGAAGCTCGTGAGA
1 GTTAAACGGAAACTCATGAGA
*
22553512 GCTAAACGGAAA
1 GTTAAACGGAAA
22553524 GTAAACACAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (21 bp):
GTTAAACGGAAACTCATGAGA
Found at i:22555954 original size:25 final size:25
Alignment explanation
Indices: 22555926--22556002 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
22555916 TGCTCATACA
*
22555926 AGCTATGAATCGATATGCTCTCACG
1 AGCTATGAATCGATAAGCTCTCACG
* *
22555951 AGCTGTGAATCGGTAAGCTCAT-ACG
1 AGCTATGAATCGATAAGCTC-TCACG
22555976 AGCTGA-GAATC-AGTAAGCTCTCACG
1 AGCT-ATGAATCGA-TAAGCTCTCACG
22556001 AG
1 AG
22556003 TTGCAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.02
25 41 0.95
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTATGAATCGATAAGCTCTCACG
Found at i:22555996 original size:50 final size:51
Alignment explanation
Indices: 22555917--22556030 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 51
22555907 ATACATGTAT
* * ** *
22555917 GCTCATACAAGCT-ATGAATCGATATGCTCTCACGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
*
22555967 GCTCATACGAGCTGA-GAATC-AGTAAGCTCTCACGAGTTGCAAATCAGTAA
1 GCTCATACGAGCTGATGAATCGA-TAAGCTCTCACGAGCTGCAAATCAGTAA
*
22556017 GATCATACGAGCTG
1 GCTCATACGAGCTG
22556031 TAGTGTGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 53 0.96
51 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCAGTAA
Found at i:22556011 original size:25 final size:24
Alignment explanation
Indices: 22555942--22556030 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 24
22555932 GAATCGATAT
* *
22555942 GCTCTCACGAGCTGTGAATCGGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
22555967 GCTCAT-ACGAGCTGAGAATCAGTAA
1 GCTC-TCACGAGCTGA-AATCAGTAA
*
22555992 GCTCTCACGAGTTGCAAATCAGTAA
1 GCTCTCACGAGCTG-AAATCAGTAA
*
22556017 GATCAT-ACGAGCTG
1 GCTC-TCACGAGCTG
22556031 TAGTGTGTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
24 1 0.02
25 50 0.93
26 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCTCACGAGCTGAAATCAGTAA
Found at i:22559120 original size:81 final size:81
Alignment explanation
Indices: 22559025--22559347 Score: 610
Period size: 81 Copynumber: 4.0 Consensus size: 81
22559015 AGGTTAGATC
**
22559025 TTAGTGTGATAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
1 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
22559090 TATGCTTTAATGGATA
66 TATGCTTTAATGGATA
22559106 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
1 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
22559171 TATGCTTTAATGGATA
66 TATGCTTTAATGGATA
22559187 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
1 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
22559252 TATGCTTTAATGGATA
66 TATGCTTTAATGGATA
*
22559268 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCA
1 TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
*
22559333 TATGCTTCAATGGAT
66 TATGCTTTAATGGAT
22559348 CTTCATGAAT
Statistics
Matches: 238, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 238 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (81 bp):
TTAGTGTGGCAGCTTTCTTTCTTCCTTATTGTTAAAGATTTTGTAAACAAGGATGAACAAACTCT
TATGCTTTAATGGATA
Found at i:22572124 original size:21 final size:20
Alignment explanation
Indices: 22572094--22572132 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22572084 TAAAACTTGT
22572094 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
22572114 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
22572133 CTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:22579696 original size:21 final size:20
Alignment explanation
Indices: 22579658--22579696 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22579648 CAAAACTTGT
*
22579658 ATAACTATCATCATACATTC
1 ATAACTATCATCAAACATTC
*
22579678 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
22579697 CAAAAGACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:22594991 original size:12 final size:12
Alignment explanation
Indices: 22594974--22595014 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
22594964 TGATGAGGAG
*
22594974 GAAGAGGAAGAT
1 GAAGAGGATGAT
*
22594986 GAAGAGGATGAG
1 GAAGAGGATGAT
*
22594998 GATGAGGATGAT
1 GAAGAGGATGAT
22595010 GAAGA
1 GAAGA
22595015 TGATCCTGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (12 bp):
GAAGAGGATGAT
Found at i:22594992 original size:18 final size:18
Alignment explanation
Indices: 22594965--22594999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22594955 AGAATCGGAT
*
22594965 GATGAGGAGGAAGAGGAA
1 GATGAAGAGGAAGAGGAA
*
22594983 GATGAAGAGGATGAGGA
1 GATGAAGAGGAAGAGGA
22595000 TGAGGATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.49, T:0.09
Consensus pattern (18 bp):
GATGAAGAGGAAGAGGAA
Found at i:22595376 original size:24 final size:24
Alignment explanation
Indices: 22595348--22595413 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
22595338 AAGATGGGGT
22595348 AGAGGATGATGATGATGAGGAGGA
1 AGAGGATGATGATGATGAGGAGGA
* * *
22595372 GGAGGATGAGGATGAAGAGGAGGA
1 AGAGGATGATGATGATGAGGAGGA
*
22595396 AGAGG-TAGATAATGATGA
1 AGAGGAT-GATGATGATGA
22595414 AGGTGATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.15
Consensus pattern (24 bp):
AGAGGATGATGATGATGAGGAGGA
Found at i:22595385 original size:21 final size:21
Alignment explanation
Indices: 22595349--22595395 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22595339 AGATGGGGTA
* * *
22595349 GAGGATGATGATGATGAGGAG
1 GAGGAGGATGAGGATGAAGAG
22595370 GAGGAGGATGAGGATGAAGAG
1 GAGGAGGATGAGGATGAAGAG
22595391 GAGGA
1 GAGGA
22595396 AGAGGTAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.51, T:0.13
Consensus pattern (21 bp):
GAGGAGGATGAGGATGAAGAG
Done.