Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 65 of 290
Found at i:21311432 original size:93 final size:91
Alignment explanation
Indices: 21311232--21311441 Score: 350
Period size: 93 Copynumber: 2.3 Consensus size: 91
21311222 TGGGCATTCG
* *
21311232 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCGTTGAGTTGAGTTTG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAGCGTTGAGTTGAGTCTG
*
21311297 AGTTCACTTATGGATGCGAACGTCCG
66 AGTTCACTTATGGATGCGAACGTCCC
21311323 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAGCTCGTTGAGTTGAGTC
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAG--CGTTGAGTTGAGTC
*
21311388 TGAGTTCACTTATGGATGGGAACG-CCC
64 TGAGTTCACTTATGGATGCGAACGTCCC
21311415 AAGCTCGTTGAGTTGAGTCCGAGTTCG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCG
21311442 CTTATGGGCA
Statistics
Matches: 112, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
91 48 0.43
92 4 0.04
93 60 0.54
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (91 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAGCGTTGAGTTGAGTCTG
AGTTCACTTATGGATGCGAACGTCCC
Found at i:21320404 original size:40 final size:40
Alignment explanation
Indices: 21320372--21320764 Score: 615
Period size: 40 Copynumber: 9.8 Consensus size: 40
21320362 CCAGCATGAT
* * * *
21320372 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
21320412 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21320452 TGCTCTTCGGAACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
21320492 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21320532 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACTAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
21320572 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21320612 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21320652 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21320692 TGCTCTTCGGGACTTAGTCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCCGGATACATCACTAGCACGAA
* *
21320733 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
21320765 CTCAATTCTC
Statistics
Matches: 324, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
40 284 0.88
41 40 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:21322092 original size:37 final size:37
Alignment explanation
Indices: 21322033--21322138 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
21322023 AGCTCAGACG
*
21322033 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
21322070 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * *
21322107 TAATCTCCACACGTAGTCATCGGGTCTCACCC
1 AAATCTCCACACATAGTCATCGGGTCTTACCC
21322139 AGAATATATT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 1 0.02
37 63 0.98
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:21322424 original size:47 final size:47
Alignment explanation
Indices: 21322354--21322492 Score: 188
Period size: 47 Copynumber: 3.0 Consensus size: 47
21322344 TTTCACATGA
* * **
21322354 CCATTCGGCTTTACCACATATATGCATGTTCATGTTCACCACATAGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATAGG
* * * * *
21322401 CCATTCGGCCTTATCACACATATGCATGCTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATAGG
*
21322448 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATA
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATA
21322493 AAATCCTAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATAGG
Found at i:21344204 original size:40 final size:40
Alignment explanation
Indices: 21344152--21344229 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
21344142 TTGCAATAGT
* *
21344152 TTAATCATATAAACCTAAAAACTATGCGAGATAATAGAAC
1 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAAC
21344192 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGA
1 TTAATCACATAAACCTAAAAACTATGCAAGATAATAGA
21344230 GCTAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.24
Consensus pattern (40 bp):
TTAATCACATAAACCTAAAAACTATGCAAGATAATAGAAC
Found at i:21346837 original size:40 final size:39
Alignment explanation
Indices: 21346753--21346937 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
21346743 TCGAATGATG
* * * *
21346753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
21346793 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21346833 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21346872 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
21346913 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
21346938 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21346889 original size:79 final size:81
Alignment explanation
Indices: 21346753--21346935 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
21346743 TCGAATGATG
* *
21346753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
21346817 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
21346832 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21346894 TTTGTGCGATTTACTATA
64 TTTGTGCGAGTTACTATA
* *
21346912 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21346936 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:21346959 original size:79 final size:79
Alignment explanation
Indices: 21346806--21346970 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
21346796 GGACTAAGAT
* **
21346806 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
21346871 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
21346885 CCGAAGGCATTTGTGCGATTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
21346948 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21346964 CCGAAGG
1 CCGAAGG
21346971 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21348490 original size:216 final size:216
Alignment explanation
Indices: 21348116--21348550 Score: 816
Period size: 216 Copynumber: 2.0 Consensus size: 216
21348106 AAAAAAATCT
* * *
21348116 GTAGATGGACATATGAGTCTAGTTTCAGGGAAAAATTATGAAACTGATTTTCGAGTTTTTGAACT
1 GTAGATGGACATATGAGTCTAGTTTCAGGAAAAAATTACGAAACTGATTTTCGAGTTTTGGAACT
21348181 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
66 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
* *
21348246 CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGGTCTTGGGCA
131 CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
21348311 CGGGGTGTTACAATTTTACTG
196 CGGGGTGTTACAATTTTACTG
21348332 GTAGATGGACATATGAGTCTAGTTTCAGGAAAAAATTACGAAACTGATTTTCGAGTTTTGGAACT
1 GTAGATGGACATATGAGTCTAGTTTCAGGAAAAAATTACGAAACTGATTTTCGAGTTTTGGAACT
21348397 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
66 CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
21348462 CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
131 CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
*
21348527 CGGGGTGTTACAATTTTATTG
196 CGGGGTGTTACAATTTTACTG
21348548 GTA
1 GTA
21348551 TCAGAGCTAC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 213 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (216 bp):
GTAGATGGACATATGAGTCTAGTTTCAGGAAAAAATTACGAAACTGATTTTCGAGTTTTGGAACT
CAAGATATGATTTTTAATGTGACAGTGACGCAGTTAGCCAACTGCCTGGAAATTTTTAAAATGAA
CTGTGCAAGTAAATGAATTAAGTCGGTCAGCACCTCGTGTTCGACTCCGGCAACGCTCTCGGGCA
CGGGGTGTTACAATTTTACTG
Found at i:21365839 original size:40 final size:39
Alignment explanation
Indices: 21365755--21365939 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
21365745 TCGAATGATG
* * * *
21365755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
21365795 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21365835 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21365874 TCCGGGTTAAGTCCCGAAGGCATTTGTTCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21365915 -CCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
21365940 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21365891 original size:79 final size:81
Alignment explanation
Indices: 21365755--21365937 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
21365745 TCGAATGATG
* *
21365755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
21365819 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
21365834 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21365896 TTTGTTCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
21365914 ACCGGGATATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21365938 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:21365961 original size:79 final size:79
Alignment explanation
Indices: 21365808--21365972 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
21365798 GGACTAAGAT
* * **
21365808 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGATAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
21365873 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
21365887 CCGAAGGCATTTGTTCGAGTTACT-ATAACCGGGATATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGATAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
21365950 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21365966 CCGAAGG
1 CCGAAGG
21365973 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGATAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21378036 original size:21 final size:22
Alignment explanation
Indices: 21378007--21378047 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21377997 TTATTAATAA
* *
21378007 TTAATACTT-ATTGAAATGTAG
1 TTAAAACTTAATTAAAATGTAG
21378028 TTAAAACTTAATTAAAATGT
1 TTAAAACTTAATTAAAATGT
21378048 TTATATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (22 bp):
TTAAAACTTAATTAAAATGTAG
Found at i:21393406 original size:50 final size:48
Alignment explanation
Indices: 21393331--21393473 Score: 196
Period size: 48 Copynumber: 2.9 Consensus size: 48
21393321 ATTGGGTAAG
* *
21393331 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATATCA
* * * *
21393381 GTGCCAATGCCGTGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
* *
21393429 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
21393474 AGTGACCCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 44 0.54
50 37 0.46
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
Found at i:21397081 original size:23 final size:23
Alignment explanation
Indices: 21397055--21397162 Score: 144
Period size: 23 Copynumber: 4.7 Consensus size: 23
21397045 CTCAACACAT
21397055 CTCGTAAGAGCTTACTGTTTTAG
1 CTCGTAAGAGCTTACTGTTTTAG
21397078 CTCGTAAGAGCTTACTGTTTTAG
1 CTCGTAAGAGCTTACTGTTTTAG
* *
21397101 CTCGTAAGAGCTTACTATTTCAG
1 CTCGTAAGAGCTTACTGTTTTAG
* * * *
21397124 CTTGTAAGAGTTTACCGATTTAG
1 CTCGTAAGAGCTTACTGTTTTAG
**
21397147 CTCAAAAGAGCTTACT
1 CTCGTAAGAGCTTACT
21397163 ATTCAGCTCA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (23 bp):
CTCGTAAGAGCTTACTGTTTTAG
Found at i:21397131 original size:46 final size:46
Alignment explanation
Indices: 21397055--21397188 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 46
21397045 CTCAACACAT
* * * *
21397055 CTCGTAAGAGCTTACTGTTTTAGCTCGTAAGAGCTTACTGTTTTAG
1 CTCGTAAGAGCTTACTATTTCAGCTCGTAAGAGCTTACCGATTTAG
* *
21397101 CTCGTAAGAGCTTACTATTTCAGCTTGTAAGAGTTTACCGATTTAG
1 CTCGTAAGAGCTTACTATTTCAGCTCGTAAGAGCTTACCGATTTAG
** *
21397147 CTCAAAAGAGCTTACTA-TTCAGCTC-AATAGAGCTTACC-ATTT
1 CTCGTAAGAGCTTACTATTTCAGCTCGTA-AGAGCTTACCGATTT
21397189 TCAGCTCAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 5 0.07
45 16 0.21
46 55 0.72
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (46 bp):
CTCGTAAGAGCTTACTATTTCAGCTCGTAAGAGCTTACCGATTTAG
Found at i:21397191 original size:69 final size:69
Alignment explanation
Indices: 21397058--21397194 Score: 161
Period size: 69 Copynumber: 2.0 Consensus size: 69
21397048 AACACATCTC
* * ** * * * *
21397058 GTAAGAGCTTACTGTTTTAGCTCGTAAGAGCTTACTGTTTTAGCTCGTAAGAGCTTACTATTTCA
1 GTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTGATTCAGCTCATAAGAGCTTACCATTTCA
21397123 GCTT
66 GCTT
*
21397127 GTAAGAGTTTACCGATTTAGCTCAAAAGAGCTTACT-ATTCAGCTCA-ATAGAGCTTACCATTTT
1 GTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTGATTCAGCTCATA-AGAGCTTACCA-TTT
21397190 CAGCT
64 CAGCT
21397195 CAATAGAGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.02
68 17 0.30
69 39 0.68
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (69 bp):
GTAAGAGCTTACCGATTTAGCTCAAAAGAGCTTACTGATTCAGCTCATAAGAGCTTACCATTTCA
GCTT
Found at i:21397195 original size:46 final size:46
Alignment explanation
Indices: 21397060--21397208 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 46
21397050 CACATCTCGT
* * ** ** **
21397060 AAGAGCTTACTGTTTTAGCTCGTAAGAGCTTACTGTTTTAGCTCGT
1 AAGAGCTTACTATTTCAGCTAATAAGAGCTTACCATTTTAGCTCAA
** *
21397106 AAGAGCTTACTATTTCAGCTTGTAAGAGTTTACCGA-TTTAGCTCAA
1 AAGAGCTTACTATTTCAGCTAATAAGAGCTTACC-ATTTTAGCTCAA
21397152 AAGAGCTTACTA-TTCAGCTCAAT-AGAGCTTACCATTTTCAGCTCAA
1 AAGAGCTTACTATTTCAGCT-AATAAGAGCTTACCATTTT-AGCTCAA
*
21397198 TAGAGCTTACT
1 AAGAGCTTACT
21397209 GTTTATCAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
44 1 0.01
45 19 0.22
46 67 0.77
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (46 bp):
AAGAGCTTACTATTTCAGCTAATAAGAGCTTACCATTTTAGCTCAA
Found at i:21397196 original size:24 final size:23
Alignment explanation
Indices: 21397145--21397221 Score: 93
Period size: 24 Copynumber: 3.3 Consensus size: 23
21397135 TTACCGATTT
* *
21397145 AGCTCAAAAGAGCTTA-CTATTC
1 AGCTCAATAGAGCTTACCTTTTC
21397167 AGCTCAATAGAGCTTACCATTTTC
1 AGCTCAATAGAGCTTACC-TTTTC
*
21397191 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTAC-CTTT-TC
21397216 AGCTCA
1 AGCTCA
21397222 GGAGGAGCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.31
23 1 0.02
24 24 0.50
25 8 0.17
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCTTTTC
Found at i:21409861 original size:36 final size:36
Alignment explanation
Indices: 21409805--21409884 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
21409795 TGGGTCACAT
*
21409805 GGCCGTGTTGCAGGTCGTGTGATAGCCTATGTCCCA
1 GGCCGTGTTGCAGGTCGTGTGACAGCCTATGTCCCA
* * *
21409841 GGCTGTGTTGCAGG-CTGTGTGACGGCCTGTGTCCCA
1 GGCCGTGTTGCAGGTC-GTGTGACAGCCTATGTCCCA
21409877 GGCCGTGT
1 GGCCGTGT
21409885 GTGCTCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.10, C:0.25, G:0.38, T:0.28
Consensus pattern (36 bp):
GGCCGTGTTGCAGGTCGTGTGACAGCCTATGTCCCA
Found at i:21423130 original size:19 final size:19
Alignment explanation
Indices: 21423100--21423159 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
21423090 GCCCCCTCCA
*
21423100 TTTCTCTTCTTTCTTTTCTT-
1 TTTCT-TTCTTTC-TCTCTTC
21423120 TTTCTTTCTTTCTCTCTTC
1 TTTCTTTCTTTCTCTCTTC
*
21423139 TTTCCTTCTTTC-CTCCTTC
1 TTTCTTTCTTTCTCT-CTTC
21423158 TT
1 TT
21423160 CCCCTTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 7 0.19
19 24 0.67
20 5 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTTCTTTCTCTCTTC
Found at i:21423139 original size:15 final size:15
Alignment explanation
Indices: 21423102--21423147 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21423092 CCCCTCCATT
21423102 TCTCTTCTTTCTTT-
1 TCTCTTCTTTCTTTC
*
21423116 TCTTTTTCTTTCTTTC
1 TC-TCTTCTTTCTTTC
*
21423132 TCTCTTCTTTCCTTC
1 TCTCTTCTTTCTTTC
21423147 T
1 T
21423148 TTCCTCCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTCTTCTTTCTTTC
Found at i:21426082 original size:12 final size:13
Alignment explanation
Indices: 21426055--21426087 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
21426045 TTTTGAGTCC
21426055 TTTTATTTTATTAT
1 TTTTA-TTTATTAT
21426069 TTTTATTT-TTAT
1 TTTTATTTATTAT
21426081 TTTTATT
1 TTTTATT
21426088 ACAATTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTATTTATTAT
Found at i:21426354 original size:13 final size:13
Alignment explanation
Indices: 21426336--21426364 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21426326 ATTTTGCTTC
21426336 TATTGCTATTATT
1 TATTGCTATTATT
21426349 TATTGCTATTATT
1 TATTGCTATTATT
21426362 TAT
1 TAT
21426365 CTTTGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (13 bp):
TATTGCTATTATT
Found at i:21438082 original size:28 final size:28
Alignment explanation
Indices: 21438041--21438117 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
21438031 CGTTGCATCT
* * *
21438041 TCAATGTCTTGCACACTAGGTGT-CATAC
1 TCAATATCTCGCACACTAAGT-TCCATAC
* *
21438069 TCAATATCTCGCACACCAAGTTCCATTC
1 TCAATATCTCGCACACTAAGTTCCATAC
*
21438097 TCAATATTTCGCACACTAAGT
1 TCAATATCTCGCACACTAAGT
21438118 GCCACACATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (28 bp):
TCAATATCTCGCACACTAAGTTCCATAC
Found at i:21443140 original size:47 final size:47
Alignment explanation
Indices: 21443077--21443519 Score: 595
Period size: 47 Copynumber: 9.3 Consensus size: 47
21443067 AAAGTGTTCT
* * * * *
21443077 CATTCATCACATTGGCCTTTCGGCCTTATCACACATACACA-TGTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCA
* * * * * *
21443124 TATTCATCACATTGGCCATTCGGCCTTATCTCATTTATGCA-TGTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCA
* *
21443171 CATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCA
21443220 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
21443267 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCA
21443316 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCA
21443365 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCA
* * *
21443414 CATTCATCACATTGGCCGTTCGGCCTTATCACATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
* *
21443461 CATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCA
*
21443508 CATCCATCACAT
1 CATTCATCACAT
21443520 AGAATCCTAA
Statistics
Matches: 368, Mismatches: 22, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 183 0.50
49 183 0.50
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
Found at i:21443239 original size:49 final size:49
Alignment explanation
Indices: 21443077--21443498 Score: 612
Period size: 49 Copynumber: 8.8 Consensus size: 49
21443067 AAAGTGTTCT
* * * * *
21443077 CATTCATCACATTGGCCTTTCGGCCTTATCAC--ACATACACA-TGTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCA
* * * * *
21443124 TATTCATCACATTGGCCATTCGGCCTTATCTCAT-T-TATGCA-TGTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCA
* *
21443171 CATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
21443220 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
21443267 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
21443316 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
21443365 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
* * *
21443414 CATTCATCACATTGGCCGTTCGGCCTTATCAC--ATATATACACTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
*
21443461 CATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATAT
21443499 GCATGTTCAC
Statistics
Matches: 348, Mismatches: 18, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
47 161 0.46
48 1 0.00
49 185 0.53
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (49 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
Found at i:21443267 original size:96 final size:96
Alignment explanation
Indices: 21443077--21443498 Score: 627
Period size: 96 Copynumber: 4.4 Consensus size: 96
21443067 AAAGTGTTCT
* * * * * * *
21443077 CATTCATCACATTGGCCTTTCGGCCTTATCAC--ACATACACA-TGTTCATATTCATCACATTGG
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCACATCGG
* * * *
21443139 CCATTCGGCCTTATCTCATTTATGCA-TGTTCA
65 CCATTAGGCCTTATCACATATATACACT-TTCA
* *
21443171 CATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
21443236 CATTAGGCCTTATCACATATATACACTTTCA
66 CATTAGGCCTTATCACATATATACACTTTCA
21443267 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
21443332 CATTAGGCCTTATCACATATATATACACTTTCA
66 CATTAGGCCTTATCAC--ATATATACACTTTCA
*
21443365 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
* *
21443430 CGTTCGGCCTTATCACATATATACACTTTCA
66 CATTAGGCCTTATCACATATATACACTTTCA
*
21443461 CATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATAT
21443499 GCATGTTCAC
Statistics
Matches: 307, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
94 31 0.10
96 181 0.59
97 2 0.01
98 93 0.30
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTTATCACATATATACACTTTCA
Found at i:21447075 original size:40 final size:40
Alignment explanation
Indices: 21447043--21447350 Score: 438
Period size: 40 Copynumber: 7.7 Consensus size: 40
21447033 CCAGCATGAT
* * * *
21447043 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
21447083 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
21447123 TGCTCTTCGGAACTTAGTCCAGATACAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
21447163 TGCTCTTCGAGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
21447203 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21447243 TGCTCTTCAGGACTTAGCCCGGATACATGACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21447283 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21447323 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
21447351 GTCAAGACCT
Statistics
Matches: 238, Mismatches: 30, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
39 4 0.02
40 234 0.98
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:21447300 original size:23 final size:23
Alignment explanation
Indices: 21447274--21447340 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
21447264 GATACATGAC
21447274 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
21447297 TAGCCCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
21447314 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
21447337 TAGC
1 TAGC
21447341 CCGGATCATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:21458864 original size:19 final size:20
Alignment explanation
Indices: 21458832--21458876 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
21458822 TGATTCAAGG
21458832 GACAT-AAAACTCTTGACAT
1 GACATGAAAACTCTTGACAT
*
21458851 GACATGAAAA-TCTTGATAT
1 GACATGAAAACTCTTGACAT
*
21458870 GATATGA
1 GACATGA
21458877 TATGATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
GACATGAAAACTCTTGACAT
Found at i:21464191 original size:19 final size:19
Alignment explanation
Indices: 21464156--21464193 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21464146 TTGCAATTTA
*
21464156 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
21464175 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
21464194 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:21465403 original size:17 final size:19
Alignment explanation
Indices: 21465361--21465406 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
21465351 ATGAAATTTT
*
21465361 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
21465380 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
21465398 AA-TATTATT
1 AATTATTATT
21465407 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:21466184 original size:5 final size:5
Alignment explanation
Indices: 21466176--21466204 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21466166 TTTTTTTTTC
21466176 TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
21466205 CTTCATCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:21468211 original size:14 final size:14
Alignment explanation
Indices: 21468192--21468218 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21468182 TTAAATAGAC
21468192 TTAAACTTAATTTT
1 TTAAACTTAATTTT
21468206 TTAAACTTAATTT
1 TTAAACTTAATTT
21468219 GTTGTTCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAAACTTAATTTT
Found at i:21471845 original size:87 final size:87
Alignment explanation
Indices: 21471740--21471916 Score: 327
Period size: 87 Copynumber: 2.0 Consensus size: 87
21471730 AGTGAACCCC
* *
21471740 TTTGAGCCTAACAAGCCATTAATGGATTTACCCTCAATATTAACCCATAACCCATTATTGTTGAA
1 TTTGAGCCAAAAAAGCCATTAATGGATTTACCCTCAATATTAACCCATAACCCATTATTGTTGAA
21471805 ATCCCCTAATTTGACCCCTATT
66 ATCCCCTAATTTGACCCCTATT
21471827 TTTGAGCCAAAAAAGCCATTAATGGATTTACCCTCAATATTAACCCATAACCCATTATTGTTGAA
1 TTTGAGCCAAAAAAGCCATTAATGGATTTACCCTCAATATTAACCCATAACCCATTATTGTTGAA
*
21471892 ATCCCCTAATTTGATCCCTATT
66 ATCCCCTAATTTGACCCCTATT
21471914 TTT
1 TTT
21471917 CTCGAGATTT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (87 bp):
TTTGAGCCAAAAAAGCCATTAATGGATTTACCCTCAATATTAACCCATAACCCATTATTGTTGAA
ATCCCCTAATTTGACCCCTATT
Found at i:21476563 original size:46 final size:46
Alignment explanation
Indices: 21476420--21476590 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
21476410 TCATTTGTGT
* * * *
21476420 GCTAGTGTAAGACATATCTGGGACATGCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCTCGA-GATGAGA
* * * * * * *
21476466 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCAGCCTCGAGATGAGA
*
21476514 GCTAATGTAAGACATGTCTGGAACATGCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCTCGAGATG-AGA
21476560 GCTAGTGTAAGACATGTCTGGAACATGCATC
1 GCTAGTGTAAGACATGTCTGGAACATGCATC
21476591 GGCTACAAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 55 0.53
47 25 0.24
48 22 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCTCGAGATGAGA
Found at i:21476750 original size:31 final size:31
Alignment explanation
Indices: 21476712--21476772 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
21476702 CCAGTGTAAG
21476712 ACCATGTCTGGGACATGGCATCGGCATTATT
1 ACCATGTCTGGGACATGGCATCGGCATTATT
21476743 ACCATGTCTGGGACATGGCATCGGCATTAT
1 ACCATGTCTGGGACATGGCATCGGCATTAT
21476773 ACCTTGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (31 bp):
ACCATGTCTGGGACATGGCATCGGCATTATT
Found at i:21480093 original size:27 final size:27
Alignment explanation
Indices: 21480052--21480105 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21480042 TGTCATGTGA
* *
21480052 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
21480079 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
21480106 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:21480424 original size:49 final size:49
Alignment explanation
Indices: 21480352--21480533 Score: 265
Period size: 49 Copynumber: 3.7 Consensus size: 49
21480342 TCTATTGTGA
*
21480352 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* ** *
21480401 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TT
* * *
21480452 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
21480501 GGTCACATGTGTAGTACTAAGTGAAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
21480534 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 74 0.64
51 42 0.36
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:21480529 original size:100 final size:100
Alignment explanation
Indices: 21480354--21480546 Score: 350
Period size: 100 Copynumber: 1.9 Consensus size: 100
21480344 TATTGTGAGG
*
21480354 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
* *
21480419 AAGTGCAGGCTACTATGCATACCCGATAACTTTGA
66 AAGTGAAGGCTACTATGCATACCAGATAACTTTGA
21480454 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
*
21480519 AAGTGAAGGCTACTATGCGTACCAGATA
66 AAGTGAAGGCTACTATGCATACCAGATA
21480547 GCCTTGTCTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGCATACCAGATAACTTTGA
Found at i:21485963 original size:16 final size:15
Alignment explanation
Indices: 21485937--21485967 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
21485927 CGATAGGTCT
21485937 CCAAAAAGCTTCCAA
1 CCAAAAAGCTTCCAA
21485952 CCAAATAAGCTTCCAA
1 CCAAA-AAGCTTCCAA
21485968 TAATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.16
Consensus pattern (15 bp):
CCAAAAAGCTTCCAA
Found at i:21486286 original size:219 final size:219
Alignment explanation
Indices: 21485907--21486349 Score: 868
Period size: 219 Copynumber: 2.0 Consensus size: 219
21485897 AAAAACTACC
21485907 GAATTGATTGCTGGATAGTGCGATAGGTCTCCAAAAAGCTTCCAACCAAATAAGCTTCCAATAAT
1 GAATTGATTGCTGGATAGTGCGATAGGTCTCCAAAAAGCTTCCAACCAAATAAGCTTCCAATAAT
*
21485972 CTATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGTAAGCTCGTATAAACCAAAAC
66 CTATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGCAAGCTCGTATAAACCAAAAC
21486037 ATAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCT
131 ATAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCT
21486102 TTTTCTTACTCGTTGAACTATCTA
196 TTTTCTTACTCGTTGAACTATCTA
*
21486126 GAATTGATTGCTGGATAGTGCGATAGGTCTCCAATAAGCTTCCAACCAAATAAGCTTCCAATAAT
1 GAATTGATTGCTGGATAGTGCGATAGGTCTCCAAAAAGCTTCCAACCAAATAAGCTTCCAATAAT
21486191 CTATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGCAAGCTCGTATAAACCAAAAC
66 CTATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGCAAGCTCGTATAAACCAAAAC
21486256 ATAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCT
131 ATAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCT
21486321 TTTTCTTACTCGTTGAACTATCTA
196 TTTTCTTACTCGTTGAACTATCTA
21486345 GAATT
1 GAATT
21486350 ACTTCAAATA
Statistics
Matches: 222, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
219 222 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (219 bp):
GAATTGATTGCTGGATAGTGCGATAGGTCTCCAAAAAGCTTCCAACCAAATAAGCTTCCAATAAT
CTATAAAACATAAGAAAGAAACTACATAAGCAACGAATGCTTAGCAAGCTCGTATAAACCAAAAC
ATAACTTACCATTTCAATATTACAATACATAGAATAAATACAATTCAACACCAACGCCATAAGCT
TTTTCTTACTCGTTGAACTATCTA
Found at i:21490458 original size:18 final size:18
Alignment explanation
Indices: 21490437--21490473 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21490427 ATATCATCTT
*
21490437 TTTTTATGTTTTATTTAC
1 TTTTTATCTTTTATTTAC
*
21490455 TTTTTTTCTTTTATTTAC
1 TTTTTATCTTTTATTTAC
21490473 T
1 T
21490474 AAATTACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTTTATTTAC
Found at i:21498149 original size:20 final size:20
Alignment explanation
Indices: 21498124--21498170 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21498114 ATTTTGATAT
21498124 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
21498144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
21498164 ACATGAT
1 ACATGAT
21498171 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:21498292 original size:25 final size:26
Alignment explanation
Indices: 21498220--21498317 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
21498210 GAGGAAGTAC
*
21498220 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21498246 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
**
21498273 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21498298 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21498318 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 33 0.49
26 10 0.15
27 25 0.37
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21506052 original size:6 final size:6
Alignment explanation
Indices: 21506032--21506117 Score: 129
Period size: 6 Copynumber: 14.5 Consensus size: 6
21506022 TTAAAATAAA
*
21506032 TTTTA- TTTCAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
21506079 TTTTAT TTCTAT TTTTAT TTCTAT TTTCAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
21506118 CCCTCATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
5 4 0.06
6 68 0.94
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:21508262 original size:6 final size:6
Alignment explanation
Indices: 21507255--21508260 Score: 1852
Period size: 6 Copynumber: 167.8 Consensus size: 6
21507245 GGATGGGGGT
* * * * * * * *
21507255 CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
* * *
21507303 CTGTAT C-GTAT CTGTAT CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507350 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507398 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507446 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507494 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507542 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507590 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507638 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507686 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507734 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507782 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507830 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507878 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507926 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21507974 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21508022 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21508070 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
21508118 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
*
21508166 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTATAC CTGTAC
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC
* * * * *
21508214 TTGTAC CTGTAC CTGTAC CTGTAC CTATAG CTGTAT CTGTAT CTGTA
1 CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTAC CTGTA
21508261 TCCGAATCTA
Statistics
Matches: 990, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
5 5 0.01
6 985 0.99
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (6 bp):
CTGTAC
Found at i:21512702 original size:15 final size:15
Alignment explanation
Indices: 21512679--21512713 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21512669 TTATGCATCA
21512679 TATTACTGTATCTGT
1 TATTACTGTATCTGT
*
21512694 TATTTCTGTATCTGT
1 TATTACTGTATCTGT
*
21512709 GATTA
1 TATTA
21512714 GGGGGTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:21512946 original size:6 final size:6
Alignment explanation
Indices: 21512926--21513141 Score: 236
Period size: 6 Copynumber: 36.0 Consensus size: 6
21512916 TCTGCATATT
** *
21512926 TGTATC TGTGCC TGTATC TGTATT TGTATC TGTATC TGTATC TGTATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* * * * * **
21512974 TGTATC TGTATC CGTATC CGTATC CGTATC CGTATC CGTATC CATATC
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* * * * *
21513022 CGTATC TGTAT- TCGTATC CGTATC CGTATC TATATC CGTATC TGTATC
1 TGTATC TGTATC T-GTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* * *
21513070 TGTATC TGTATC TATATC TGTATC TGTATC TGTATC TATATC TGTATT
1 TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC TGTATC
* *
21513118 TGTATC TATATC TGTAAC TGTATC
1 TGTATC TGTATC TGTATC TGTATC
21513142 CGTAAAGGAC
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
5 1 0.01
6 181 0.99
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TGTATC
Found at i:21515224 original size:10 final size:10
Alignment explanation
Indices: 21515205--21515246 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
21515195 TCCTCAATTC
21515205 ATCA-ACCAA
1 ATCATACCAA
21515214 ATCATACCAA
1 ATCATACCAA
*
21515224 ATCTAAACCAAA
1 ATC-ATACC-AA
21515236 ATCATACCAA
1 ATCATACCAA
21515246 A
1 A
21515247 GTATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 11 0.39
11 8 0.29
12 5 0.18
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:21517646 original size:31 final size:31
Alignment explanation
Indices: 21517570--21517646 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
21517560 TGCTCAAATG
* *
21517570 AATGCTCAATTAAGAACCAAACCTTTTCAAA
1 AATGCTCGATTAAGGACCAAACCTTTTCAAA
*
21517601 AATGCTCGATTAAGGACCAAACCTTTTCGAA
1 AATGCTCGATTAAGGACCAAACCTTTTCAAA
21517632 AATGCTCGATTAAGG
1 AATGCTCGATTAAGG
21517647 GCTTTTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (31 bp):
AATGCTCGATTAAGGACCAAACCTTTTCAAA
Found at i:21518632 original size:19 final size:18
Alignment explanation
Indices: 21518598--21518637 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
21518588 GCAAGGCATT
* *
21518598 AATAATAAATAGATAAATA
1 AATAATAAAAAAATAAA-A
21518617 AATAATAAAAAAATAAAA
1 AATAATAAAAAAATAAAA
21518635 AAT
1 AAT
21518638 CCATGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAATAAAAAAATAAAA
Found at i:21520521 original size:44 final size:44
Alignment explanation
Indices: 21520404--21520521 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
21520394 TGTTCCATTA
* * * * * *
21520404 CAACTTCAAGGAAATAAGATTTGTAGCTTAAATCTACTCCACTG
1 CAACTTCAGGGAGATAAAACTTGTAACTTCAATCTACTCCACTG
* * *
21520448 CAACTTCAGGGAGATAATATTTGTAACTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAAACTTGTAACTTCAATCTACTCCACTG
*
21520492 CAACTTTAGGGAGATAAAACTTGTAACTTC
1 CAACTTCAGGGAGATAAAACTTGTAACTTC
21520522 TAGTTTTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAAACTTGTAACTTCAATCTACTCCACTG
Found at i:21520592 original size:44 final size:44
Alignment explanation
Indices: 21520536--21520700 Score: 118
Period size: 44 Copynumber: 3.6 Consensus size: 44
21520526 TTTAATTTGT
* *
21520536 TCCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGC
* * ** *
21520580 TCCACTGCAACTT-TGGAGAGATAAGATTCGCCATGATAAATTCAATCT-A
1 TCCACTGCAACTTCAGG-GAAATAAGATT-----T-ATAGCTTCAATCTGC
* ** * *
21520629 ACCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGC
* **
21520673 TCCACTGCAACTTTAGTAAAATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
21520701 CGCCATGATG
Statistics
Matches: 89, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
43 12 0.13
44 44 0.49
49 21 0.24
50 12 0.13
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGC
Found at i:21520603 original size:139 final size:139
Alignment explanation
Indices: 21520335--21520592 Score: 367
Period size: 139 Copynumber: 1.9 Consensus size: 139
21520325 AGGTTTGTGG
* *
21520335 CTTCAATCTCCTCCACTGCTACTTTAGGGAGATAAGATTCACAACTTACAGCTTTAATCTGTTCC
1 CTTCAATCTCCTCCACTGCAACTTTAGGGAGATAAAATTCACAACTTACAGCTTTAATCTGTTCC
* *
21520400 ATTACAACTTCAAGGAAATAAGATTTGTAGCTTAAATCTACTCCACTGCAACTTCAGGGAGATAA
66 ACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTTCAGGGAGATAA
21520465 TATTTGTAA
131 TATTTGTAA
* ** * *
21520474 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAAACTT-GTAACTT-CTAGTTTTAATTTGTT
1 CTTCAATCTCCTCCACTGCAACTTTAGGGAGATAAAA-TTCACAACTTAC-AGCTTTAATCTGTT
* * * *
21520537 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATTTGCTCCACTGCAACTT
64 CCACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTT
21520593 TGGAGAGATA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 1 0.01
139 101 0.97
140 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (139 bp):
CTTCAATCTCCTCCACTGCAACTTTAGGGAGATAAAATTCACAACTTACAGCTTTAATCTGTTCC
ACTACAACTTCAAGGAAATAAGATTTATAGCTTAAATCTACTCCACTGCAACTTCAGGGAGATAA
TATTTGTAA
Found at i:21520663 original size:93 final size:93
Alignment explanation
Indices: 21520537--21520709 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
21520527 TTAATTTGTT
* *
21520537 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATTTGCTCCACTGCAACTTT-GGAGAGA
1 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTTAGGA-AAA
21520601 TAAGATTCGCCATGATAAATTCAATCTAA
65 TAAGATTCGCCATGATAAATTCAATCTAA
* ** * * *
21520630 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGTAAAAT
1 CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTTAGGAAAAT
21520695 AAGATTCGCCATGAT
66 AAGATTCGCCATGAT
21520710 GACTTTAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (93 bp):
CCACTACAACTTCAGGGAAATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTTAGGAAAAT
AAGATTCGCCATGATAAATTCAATCTAA
Found at i:21528102 original size:22 final size:23
Alignment explanation
Indices: 21528076--21528121 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21528066 CAACCAAACC
21528076 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21528098 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21528121 A
1 A
21528122 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21528127 original size:23 final size:23
Alignment explanation
Indices: 21528083--21528127 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21528073 ACCAATTCAA
*
21528083 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
21528106 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
21528128 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:21530466 original size:71 final size:71
Alignment explanation
Indices: 21530350--21530492 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 71
21530340 TCAATTTTTC
* *
21530350 TGCTGATTTCATACCCTTGCCGTCCAACCCAAATAACGTTTGGGTCAAATTTCCTTTTAAATCCT
1 TGCTGATTTCATACCCTTGCCGTCCAACCCAAATAAAGTTTGGGTCAAATTGCCTTTTAAATCCT
21530415 TTCTCA
66 TTCTCA
* * * *
21530421 TGCTGATTTCATGCCCTTGCCGTCC-AGCCATAATAAATTTTGGGTCTAATTGCCTTTTAAATCC
1 TGCTGATTTCATACCCTTGCCGTCCAACCCA-AATAAAGTTTGGGTCAAATTGCCTTTTAAATCC
21530485 TTTCTCA
65 TTTCTCA
21530492 T
1 T
21530493 TAGACTCTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 4 0.06
71 61 0.94
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (71 bp):
TGCTGATTTCATACCCTTGCCGTCCAACCCAAATAAAGTTTGGGTCAAATTGCCTTTTAAATCCT
TTCTCA
Found at i:21539130 original size:27 final size:27
Alignment explanation
Indices: 21539100--21539297 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
21539090 TACTGAAATG
** *
21539100 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
21539127 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
21539154 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * * *
21539181 TCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
21539208 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
21539235 CCCTCTATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
21539262 CCCTC-AGTTTAGAAAATTATCGTTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
21539289 CCCTCGATT
1 CCCTCGATT
21539298 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:21539197 original size:81 final size:81
Alignment explanation
Indices: 21539100--21539297 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
21539090 TACTGAAATG
* * * * *
21539100 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCTTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
*
21539165 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* * *
21539181 TCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCTATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
21539246 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * *
21539262 CCCTCAGTTTAGAAAATTATCGTTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
21539298 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:21539358 original size:53 final size:52
Alignment explanation
Indices: 21539296--21539449 Score: 134
Period size: 53 Copynumber: 2.9 Consensus size: 52
21539286 TTACCCTCGA
*
21539296 TTGTGAAATTACTGAAATACCCCTA-TAGGATAGAATTA-CAAAATACCCCTAGT
1 TTGTGAAATTAC-GAAATACCCCTAGTAGG-TA-AATTACCAAAATACCACTAGT
* * ** * *
21539349 TTGTAAAATTACCAACATACCCCTAGTTTGTAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACGAA-ATACCCCTAGTAGGTAAATTACCAAAATACCACTAGT
* **
21539402 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTA-CGAAATACCCCT-AGTAGGT-AAATTACCAAAATACC
21539450 CCTGATTTAC
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
52 11 0.13
53 53 0.63
54 20 0.24
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (52 bp):
TTGTGAAATTACGAAATACCCCTAGTAGGTAAATTACCAAAATACCACTAGT
Found at i:21539457 original size:27 final size:26
Alignment explanation
Indices: 21539296--21539466 Score: 139
Period size: 27 Copynumber: 6.4 Consensus size: 26
21539286 TTACCCTCGA
* **
21539296 TTGTGAAATTACTGAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
** *
21539322 AGGATAGAATTA-CAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTA-T
*
21539349 TTGTAAAATTACCAACATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTA-T
* * *
21539376 TTGT-AAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-AT
* * *
21539402 TTGTGAAATTACCGAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CTAT
21539429 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCT-AT
**
21539456 TTACAAAATTA
1 TTGTAAAATTA
21539467 TAGAAATACC
Statistics
Matches: 116, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
26 41 0.35
27 74 0.64
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTAT
Found at i:21539465 original size:54 final size:54
Alignment explanation
Indices: 21539329--21539478 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 54
21539319 TATAGGATAG
*
21539329 AATTA-CAAAATACCCCT-AGTTTGTAAAATTACC-AACATACCC-CTAGTTTGTA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACCGAA-ATACCCTCTAATTTGTA
* * * *
21539381 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCTAATTTGT-A
** **
21539435 AATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCT
21539479 TGACTTTCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
52 5 0.06
53 35 0.44
54 40 0.50
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCGAAATACCCTCTAATTTGTA
Found at i:21539473 original size:27 final size:27
Alignment explanation
Indices: 21539443--21539536 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 27
21539433 AAAATTACCA
*
21539443 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
21539470 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* * *
21539499 AAATACCATTGGTTTACAAAATTATTG
1 AAATACCCTTGATTTACAAAATTATAG
21539526 AAATACCCTTG
1 AAATACCCTTG
21539537 GTTTGTAGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 31 0.53
28 6 0.10
29 21 0.36
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:21540509 original size:25 final size:24
Alignment explanation
Indices: 21540467--21540536 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
21540457 AGGAAGTGCT
* *
21540467 AAAAGGGCTCTGCTCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
21540491 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
21540516 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
21540537 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:21540549 original size:24 final size:23
Alignment explanation
Indices: 21540467--21540563 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
21540457 AGGAAGTGCT
* * *
21540467 AAAAGGGCTCTGCTCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
21540491 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
21540516 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
21540540 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
21540564 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:21540749 original size:42 final size:42
Alignment explanation
Indices: 21540684--21540775 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
21540674 TAGTCTCCCC
* * *
21540684 AAATGGGCTTGCATATATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
21540726 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
21540768 AAATGGGC
1 AAATGGGC
21540776 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:21540834 original size:31 final size:31
Alignment explanation
Indices: 21540799--21540913 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
21540789 CGTTTACAGT
* *
21540799 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21540830 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21540861 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21540892 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21540914 TCAAGACTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21546053 original size:25 final size:26
Alignment explanation
Indices: 21546025--21546080 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
21546015 GTAATGAAAG
21546025 GAAAAGAAAAGAAAGAA-AAAA-AATA
1 GAAAAGAAAAG-AAGAACAAAACAATA
*
21546050 GAAAAGGAAAGAAGAACAAAACAATA
1 GAAAAGAAAAGAAGAACAAAACAATA
*
21546076 AAAAA
1 GAAAA
21546081 ATGTTAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 14 0.52
26 8 0.30
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (26 bp):
GAAAAGAAAAGAAGAACAAAACAATA
Found at i:21556998 original size:139 final size:139
Alignment explanation
Indices: 21556742--21557020 Score: 418
Period size: 139 Copynumber: 2.0 Consensus size: 139
21556732 GGAGAGCAAT
* * * * * * *
21556742 AGGCTATAAGTGGATTTTTAAGCTAAAACATAATGCTGATGGGACTATATTCAGATATAAAGCCA
1 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATACTCAGATACAAAGCCA
* * *
21556807 AACTGGTGGTCAAAGGGTATCTCCGATAAGCTGGTATTGATTTCCAGAAAACTTTTAGCCCTTTG
66 AACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGAAAACTGTTAGCCCTCTG
21556872 GTCAAACCA
131 GTCAAACCA
*
21556881 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATAGCT-AGATACAAGGCC
1 AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATA-CTCAGATACAAAGCC
*
21556945 AAACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCA-AGAAACTGTTAGTCCTC
65 AAACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGA-AAACTGTTAGCCCTC
21557009 TGGTCAAACCA
129 TGGTCAAACCA
21557020 A
1 A
21557021 CTACTATCTA
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
138 1 0.01
139 124 0.98
140 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (139 bp):
AGGCTAAAAGTGGATTTTTAAGCTAAAAAAGAATGATGATGGGAATATACTCAGATACAAAGCCA
AACTGGTGGTCAAAGGGTATCTCCAATAAGCTGGTATTGATTTCCAGAAAACTGTTAGCCCTCTG
GTCAAACCA
Found at i:21557453 original size:27 final size:28
Alignment explanation
Indices: 21557423--21557486 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
21557413 TTCACTTAAG
*
21557423 GACTTGG-TGAAGATACATTTTTTCCTA
1 GACTTGGAGGAAGATACATTTTTTCCTA
*
21557450 GACTTGGAGGTAGATACATTTTTTCCTA
1 GACTTGGAGGAAGATACATTTTTTCCTA
*
21557478 GACATGGAG
1 GACTTGGAG
21557487 ATGTCTTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (28 bp):
GACTTGGAGGAAGATACATTTTTTCCTA
Found at i:21557467 original size:28 final size:28
Alignment explanation
Indices: 21557433--21557486 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
21557423 GACTTGGTGA
*
21557433 AGATACATTTTTTCCTAGACTTGGAGGT
1 AGATACATTTTTTCCTAGACATGGAGGT
21557461 AGATACATTTTTTCCTAGACATGGAG
1 AGATACATTTTTTCCTAGACATGGAG
21557487 ATGTCTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (28 bp):
AGATACATTTTTTCCTAGACATGGAGGT
Found at i:21561091 original size:15 final size:15
Alignment explanation
Indices: 21561068--21561177 Score: 75
Period size: 15 Copynumber: 7.4 Consensus size: 15
21561058 TTTGTTGAAT
*
21561068 TTAATATATATTATA
1 TTAAAATATATTATA
* *
21561083 TTAAAATATCTTTTA
1 TTAAAATATATTATA
*
21561098 CTTAACATATA--AGTA
1 -TTAAAATATATTA-TA
21561113 -TAAATATATATTATA
1 TTAAA-ATATATTATA
* *
21561128 TTATATTATATTATA
1 TTAAAATATATTATA
* *
21561143 TTATATTATATTATA
1 TTAAAATATATTATA
* *
21561158 TTATATTATATTATA
1 TTAAAATATATTATA
21561173 -TAAAA
1 TTAAAA
21561178 CAAATAATGA
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.04
14 8 0.10
15 55 0.71
16 12 0.15
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (15 bp):
TTAAAATATATTATA
Found at i:21561129 original size:5 final size:5
Alignment explanation
Indices: 21561119--21561173 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
21561109 AGTATAAATA
21561119 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
21561169 TATAT
1 TATAT
21561174 AAAACAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:21563570 original size:12 final size:12
Alignment explanation
Indices: 21563555--21563583 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21563545 AATATTTATA
21563555 TTTTAAAAATAT
1 TTTTAAAAATAT
21563567 TTTTAAAAATAT
1 TTTTAAAAATAT
21563579 TTTTA
1 TTTTA
21563584 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:21581225 original size:25 final size:25
Alignment explanation
Indices: 21581191--21581240 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21581181 GGTTACTTGC
* *
21581191 CCATGCCTGACGGCTTGCTCGAAAT
1 CCATGCCTGACGGCTCGCCCGAAAT
* *
21581216 CCATGTCTGATGGCTCGCCCGAAAT
1 CCATGCCTGACGGCTCGCCCGAAAT
21581241 TTTGAGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (25 bp):
CCATGCCTGACGGCTCGCCCGAAAT
Found at i:21586528 original size:29 final size:29
Alignment explanation
Indices: 21586472--21586534 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
21586462 ACTATGTGAA
21586472 ACACACAGCCGTGTCGCAGATCGTGTGGG
1 ACACACAGCCGTGTCGCAGATCGTGTGGG
*
21586501 ACACACGGCCGTGTCGCAG-TCCGTGTGGG
1 ACACACAGCCGTGTCGCAGAT-CGTGTGGG
21586530 ACACA
1 ACACA
21586535 TGGCTATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (29 bp):
ACACACAGCCGTGTCGCAGATCGTGTGGG
Found at i:21589289 original size:47 final size:47
Alignment explanation
Indices: 21589223--21590168 Score: 1793
Period size: 47 Copynumber: 20.1 Consensus size: 47
21589213 GAAATGATAG
21589223 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589270 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589317 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589364 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589411 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589458 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589505 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589552 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589599 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589646 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589693 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589740 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589787 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589834 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589881 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589928 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21589975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21590022 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21590069 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
21590118 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21590165 TAAG
1 TAAG
21590169 TCCCGAAGGG
Statistics
Matches: 885, Mismatches: 12, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
47 846 0.96
49 39 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:21590343 original size:37 final size:37
Alignment explanation
Indices: 21590287--21590365 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21590277 CCGAGCTCTA
* * *
21590287 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21590324 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21590361 AAGAC
1 AAGAC
21590366 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21592920 original size:15 final size:15
Alignment explanation
Indices: 21592900--21592929 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21592890 TGTTTATGAG
21592900 TAGCAATTCCCTACA
1 TAGCAATTCCCTACA
21592915 TAGCAATTCCCTACA
1 TAGCAATTCCCTACA
21592930 CTCACCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
TAGCAATTCCCTACA
Found at i:21593838 original size:35 final size:35
Alignment explanation
Indices: 21593792--21593861 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
21593782 TTTGACAGTG
*
21593792 AAGATGCCATAGATGAAAACACTATCGAGTACCAA
1 AAGATGCCATAGACGAAAACACTATCGAGTACCAA
21593827 AAGATGCCATAGACGAAAACACTATCGAGTACCAA
1 AAGATGCCATAGACGAAAACACTATCGAGTACCAA
21593862 CCTTACGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (35 bp):
AAGATGCCATAGACGAAAACACTATCGAGTACCAA
Found at i:21600888 original size:72 final size:72
Alignment explanation
Indices: 21600771--21600920 Score: 291
Period size: 72 Copynumber: 2.1 Consensus size: 72
21600761 TTTACGTATT
21600771 TGAATCAATTTACTAATGTGATTTTGTACCTAAGACGAAATAAAATGACAAGGCGTAATATCTAG
1 TGAATCAATTTACTAATGTGATTTTGTACCTAAGACGAAATAAAATGACAAGGCGTAATATCTAG
21600836 CTTAAGA
66 CTTAAGA
21600843 TGAATCAATTTACTAATGTGATTTTGTACCTAAGACGAAATAAAATGACAAGGCGTAATATCTAG
1 TGAATCAATTTACTAATGTGATTTTGTACCTAAGACGAAATAAAATGACAAGGCGTAATATCTAG
21600908 CTTAAGA
66 CTTAAGA
21600915 TCGAAT
1 T-GAAT
21600921 GGCCAATGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 73 0.95
73 4 0.05
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (72 bp):
TGAATCAATTTACTAATGTGATTTTGTACCTAAGACGAAATAAAATGACAAGGCGTAATATCTAG
CTTAAGA
Found at i:21600987 original size:47 final size:47
Alignment explanation
Indices: 21600916--21601071 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 47
21600906 AGCTTAAGAT
21600916 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
21600963 CAAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
21601010 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
21601055 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
21601072 AAAGTGTGCA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 22 0.24
46 6 0.07
47 64 0.70
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:21601226 original size:40 final size:39
Alignment explanation
Indices: 21601142--21601226 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
21601132 AAATGAATTG
* * * *
21601142 TGCTGAGATTGTATCCGAGTTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGAGTTAAAGACCCGCAGGCTTAA
* * *
21601181 CGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGAG-TTAAAGACCCGCAGGCTTAA
21601221 TGCTGG
1 TGCTGG
21601227 TGAATTAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
39 16 0.43
40 21 0.57
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (39 bp):
TGCTGGGATTGTATCCGAGTTAAAGACCCGCAGGCTTAA
Found at i:21616484 original size:25 final size:25
Alignment explanation
Indices: 21616450--21616500 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
21616440 TAGATGTCAC
21616450 CTCTAAAATCATGACTTATTCTCTG
1 CTCTAAAATCATGACTTATTCTCTG
*
21616475 CTCTAAAATCATGGCTTATTCTCTG
1 CTCTAAAATCATGACTTATTCTCTG
21616500 C
1 C
21616501 ATCTTAGATA
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:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (25 bp):
CTCTAAAATCATGACTTATTCTCTG
Found at i:21625684 original size:17 final size:17
Alignment explanation
Indices: 21625662--21625694 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21625652 TTATTTTATT
21625662 TAATTA-ATTTTACTAAA
1 TAATTATATTTT-CTAAA
21625679 TAATTATATTTTCTAA
1 TAATTATATTTTCTAA
21625695 TGTTGCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATATTTTCTAAA
Found at i:21626868 original size:30 final size:28
Alignment explanation
Indices: 21626819--21626880 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
21626809 AAAATATTAA
* *
21626819 TTTTTACTTTTCTTTGTTTAATTTTTGTATT
1 TTTTTACCTTTCTTAGTTT-A-TTTT-TATT
21626850 TTTTTACCTTT-TTAGTTTATTTTTATT
1 TTTTTACCTTTCTTAGTTTATTTTTATT
21626877 TTTT
1 TTTT
21626881 CCCCAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 4 0.14
29 1 0.03
30 6 0.21
31 10 0.34
ACGTcount: A:0.13, C:0.06, G:0.05, T:0.76
Consensus pattern (28 bp):
TTTTTACCTTTCTTAGTTTATTTTTATT
Found at i:21631421 original size:2 final size:2
Alignment explanation
Indices: 21631414--21631442 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21631404 AGCAGAAAGC
21631414 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
21631443 ACAGTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:21633814 original size:50 final size:48
Alignment explanation
Indices: 21633707--21633884 Score: 159
Period size: 50 Copynumber: 3.7 Consensus size: 48
21633697 TCATTTGTGC
* * *
21633707 GCTAATGTAAGA-CATGTCTGGGACATG-CACCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAGATTATGAGA
* * * *
21633753 GCCATTGTAAGACCATGTCTAGGACATGACATCGGCACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-CAGAT-TATGAGA
* * * * *
21633803 GCTAGTGTAAGACCATATCCT-GGACAT-AGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGT-CTGGGACATGA-CATCGGCC-AGATTATGAGA
21633852 G-TCAGTGTAAGACCATGTCTGGGACATGACATC
1 GCT-AGTGTAAGACCATGTCTGGGACATGACATC
21633885 AGCATTATAC
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
46 10 0.09
47 14 0.13
48 9 0.08
49 35 0.33
50 37 0.35
51 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCAGATTATGAGA
Found at i:21641095 original size:28 final size:28
Alignment explanation
Indices: 21641063--21641132 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
21641053 AATGAGATTG
21641063 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
21641091 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
21641119 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21641133 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:21653159 original size:27 final size:27
Alignment explanation
Indices: 21653129--21653306 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21653119 ATATTGAGTC
* * * *
21653129 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21653156 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21653183 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21653211 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21653238 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21653265 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21653292 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21653307 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21653268 original size:82 final size:81
Alignment explanation
Indices: 21653150--21653305 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21653140 TGCTATATAA
* *
21653150 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21653215 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21653232 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21653296 CACTTAGTGC
65 CACTTAGTGC
21653306 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21663412 original size:40 final size:40
Alignment explanation
Indices: 21663327--21663582 Score: 331
Period size: 40 Copynumber: 6.5 Consensus size: 40
21663317 AAGCCAAGTA
* * *
21663327 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
21663365 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21663405 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21663445 CCTTCGGGACTTAGCCCGGATGTAATAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
21663485 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21663525 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21663565 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
21663583 ATTATCATCC
Statistics
Matches: 195, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 167 0.86
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21665900 original size:27 final size:27
Alignment explanation
Indices: 21665870--21666047 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
21665860 ATATCGAGCC
* * *
21665870 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21665897 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21665924 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21665952 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21665979 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
21666006 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21666033 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
21666048 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21665983 original size:82 final size:81
Alignment explanation
Indices: 21665891--21666046 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21665881 TGCTATAAAA
*
21665891 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
21665955 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
21665973 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
*
21666038 CCTTAGTGC
66 ACTTAGTGC
21666047 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21692289 original size:39 final size:40
Alignment explanation
Indices: 21692191--21692338 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
21692181 TATTCGGATG
** *
21692191 ATAACCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
**
21692231 ATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
* *
21692271 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
*
21692310 ATAACCGGGCTGAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
21692339 AGCTAGTGGC
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 36 0.37
40 62 0.63
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
Found at i:21692360 original size:79 final size:79
Alignment explanation
Indices: 21692194--21692361 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
21692184 TCGGATGATA
** * * **
21692194 ACCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATGTCCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTT
* * *
21692259 GTGCGAGTTATTAT
66 GAGCGAGTGACTAT
* *
21692273 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTGAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTT
* *
21692338 GAGCTAGTGGCTAT
66 GAGCGAGTGACTAT
21692352 ATCC-GGCTAA
1 A-CCGGGCTAA
21692362 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
79 73 0.97
80 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GAGCGAGTGACTAT
Found at i:21696368 original size:50 final size:50
Alignment explanation
Indices: 21696198--21696390 Score: 275
Period size: 50 Copynumber: 3.9 Consensus size: 50
21696188 TTGATGCATA
* *
21696198 AGATATGTATATGTGGTAAAGACAAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCAAATGGCTAATGTG-AA-ATATATATATG
* *
21696250 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATATG
*
21696298 AGATATGCATATGTGGTAAAGCCAAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCAAATGGCT-AATGTGAAATATATATATG
* *
21696348 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATAT
21696391 GTAGGCGATG
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
47 1 0.01
48 41 0.32
49 3 0.02
50 47 0.37
51 1 0.01
52 34 0.27
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATATG
Found at i:21696376 original size:98 final size:100
Alignment explanation
Indices: 21696198--21696393 Score: 326
Period size: 98 Copynumber: 2.0 Consensus size: 100
21696188 TTGATGCATA
*
21696198 AGATATGTATATGTGGTAAAGACAAATGGCTAATGCGAAATATATATATATGAGATATGTATATG
1 AGATATGCATATGTGGTAAAGACAAATGGCTAATGCGAAATATATATATATGAGATATGTATATG
21696263 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
66 TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
21696298 AGATATGCATATGTGGTAAAGCCAAATGG-TCAATGTG-AA-ATATATATATGAGATATGTATAT
1 AGATATGCATATGTGGTAAAGACAAATGGCT-AATGCGAAATATATATATATGAGATATGTATAT
*
21696360 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
65 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
21696394 GGCGATGTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
98 56 0.62
99 3 0.03
100 32 0.35
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (100 bp):
AGATATGCATATGTGGTAAAGACAAATGGCTAATGCGAAATATATATATATGAGATATGTATATG
TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:21696409 original size:50 final size:49
Alignment explanation
Indices: 21696201--21696393 Score: 230
Period size: 48 Copynumber: 3.9 Consensus size: 49
21696191 ATGCATAAGA
* * * * *
21696201 TATGTATATGTGGTAAAGACAAATGGCTAATGCGAAATATATATATATGAG
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT-GA-GAG
21696252 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-
1 -TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAG
* * *
21696301 TATGCATATGTGGTAAAGCCAAATGG-TCAATGTGAAATATATAT-ATGAG
1 TATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGA-GAG
*
21696350 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 -TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
21696394 GGCGATGTGT
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.02
48 41 0.33
50 39 0.31
51 2 0.02
52 40 0.32
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (49 bp):
TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAG
Found at i:21696590 original size:37 final size:37
Alignment explanation
Indices: 21696540--21696647 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
21696530 GGAAATATAT
21696540 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21696577 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
21696614 TCCAGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
21696648 TCATCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:21698684 original size:13 final size:13
Alignment explanation
Indices: 21698649--21698685 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21698639 ATATTGTATA
21698649 ATTTTCTCTTTAG
1 ATTTTCTCTTTAG
**
21698662 ATTTAGTCTTTAG
1 ATTTTCTCTTTAG
21698675 ATTTTCTCTTT
1 ATTTTCTCTTT
21698686 TCTTAGGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTTCTCTTTAG
Found at i:21699870 original size:121 final size:121
Alignment explanation
Indices: 21699656--21699898 Score: 486
Period size: 121 Copynumber: 2.0 Consensus size: 121
21699646 TATTTTGAAA
21699656 AATGGGTTAAAATTAGGAGCACCACAGGGTAAATATACCAAAGTTTATGTAACACCCCGTACCCG
1 AATGGGTTAAAATTAGGAGCACCACAGGGTAAATATACCAAAGTTTATGTAACACCCCGTACCCG
21699721 ATACCATCGCCGGAGTCGAACACGAGGTGTTAACAGACTTAATTCATTACTTAAAC
66 ATACCATCGCCGGAGTCGAACACGAGGTGTTAACAGACTTAATTCATTACTTAAAC
21699777 AATGGGTTAAAATTAGGAGCACCACAGGGTAAATATACCAAAGTTTATGTAACACCCCGTACCCG
1 AATGGGTTAAAATTAGGAGCACCACAGGGTAAATATACCAAAGTTTATGTAACACCCCGTACCCG
21699842 ATACCATCGCCGGAGTCGAACACGAGGTGTTAACAGACTTAATTCATTACTTAAAC
66 ATACCATCGCCGGAGTCGAACACGAGGTGTTAACAGACTTAATTCATTACTTAAAC
21699898 A
1 A
21699899 GCTCAAACAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (121 bp):
AATGGGTTAAAATTAGGAGCACCACAGGGTAAATATACCAAAGTTTATGTAACACCCCGTACCCG
ATACCATCGCCGGAGTCGAACACGAGGTGTTAACAGACTTAATTCATTACTTAAAC
Found at i:21706840 original size:59 final size:59
Alignment explanation
Indices: 21706748--21706865 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
21706738 GCCGAATTGA
*
21706748 ACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGATGACTGCTACTAAGATCTCTTC
1 ACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTAAGATCTCTTC
*
21706807 ACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTC
1 ACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTAAGATCTCTTC
21706866 CGATGTCCTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (59 bp):
ACTAAGAAAGGGTGTTCGGTACACACCTGATTCGCGACGACTGCTACTAAGATCTCTTC
Found at i:21720409 original size:53 final size:53
Alignment explanation
Indices: 21720228--21720435 Score: 150
Period size: 55 Copynumber: 3.8 Consensus size: 53
21720218 ATTAGGGTTT
* * * *
21720228 AAAGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACA-AAGGC
1 AAAGATACCACGTAAGACCATGCCAAGACATGGCAATGCTAAG--TT-CATAAGGC
* * * ** * * * * *
21720283 -AAGAAAATCATGTAAGAATATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAAG-ATACCACGTAAGACCATGCCAAGACATGGCAATGCT-AAGTTC-ATAAGGC
* * * * *
21720338 AAAGATCCCATGTAAGACCTTGCCAAGGCATGGCAATGCTAAGTTCATAATGC
1 AAAGATACCACGTAAGACCATGCCAAGACATGGCAATGCTAAGTTCATAAGGC
* * *
21720391 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAAGATACCACGTAAGACCATGCCAAGACATGGCAATGCTAAGTT
21720436 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
53 45 0.38
54 9 0.08
55 59 0.50
56 5 0.04
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (53 bp):
AAAGATACCACGTAAGACCATGCCAAGACATGGCAATGCTAAGTTCATAAGGC
Found at i:21721954 original size:26 final size:26
Alignment explanation
Indices: 21721910--21722006 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
21721900 CCTCTTTAAT
*
21721910 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
21721935 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
21721961 AACTGGGGCATAA-CCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
21721986 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21722007 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
25 32 0.49
26 33 0.51
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:21721991 original size:51 final size:51
Alignment explanation
Indices: 21721910--21722006 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
21721900 CCTCTTTAAT
21721910 AACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
21721961 AACTGGGGCATAA-CCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
21722007 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 42 0.95
52 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:21722081 original size:20 final size:20
Alignment explanation
Indices: 21722056--21722122 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
21722046 TTATGAATTC
*
21722056 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
21722076 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
*
21722096 ATCATGTGCACATCATATCA-
1 ATCATGTGCATATCATA-CAT
21722116 ATCATGT
1 ATCATGT
21722123 ATCAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21727821 original size:20 final size:20
Alignment explanation
Indices: 21727796--21727836 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21727786 ACCACCTAAT
*
21727796 TTTCATTTTATGTGATTAAG
1 TTTCATTTTATGCGATTAAG
21727816 TTTCATTTTATGCGATTAAG
1 TTTCATTTTATGCGATTAAG
21727836 T
1 T
21727837 CCTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTCATTTTATGCGATTAAG
Found at i:21737776 original size:14 final size:14
Alignment explanation
Indices: 21737757--21737801 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
21737747 ATGCCATGAA
21737757 GTGAGATTATGTAT
1 GTGAGATTATGTAT
21737771 GTGAGATTATGTAT
1 GTGAGATTATGTAT
21737785 GTGAGTGATTATGTAT
1 GTGA--GATTATGTAT
21737801 G
1 G
21737802 CCGTGTGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 18 0.62
16 11 0.38
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (14 bp):
GTGAGATTATGTAT
Found at i:21740184 original size:29 final size:30
Alignment explanation
Indices: 21740138--21740195 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
21740128 CCTAGTAGCC
* *
21740138 CACATTTTTCAACTTTTCACACATTAAATCA
1 CACATTTTTCAACATTTCACA-AATAAATCA
21740169 CACA-TTTTC-ACATTTCACAAATAAATC
1 CACATTTTTCAACATTTCACAAATAAATC
21740196 CCTATTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 9 0.36
30 5 0.20
31 4 0.16
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (30 bp):
CACATTTTTCAACATTTCACAAATAAATCA
Found at i:21753702 original size:43 final size:43
Alignment explanation
Indices: 21753581--21753737 Score: 196
Period size: 43 Copynumber: 3.7 Consensus size: 43
21753571 TGTGTTATCG
* * *
21753581 TGTAAGACCACATCTGGGACGTTGGCATCGACT-TATGATTTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTT-CA
* *
21753625 TGTAAGACCACGTCTGGGATGTTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTCA
*
21753667 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTTCA
21753710 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
21753738 TGTACAAGCT
Statistics
Matches: 99, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 42 0.42
44 29 0.29
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTCA
Found at i:21755918 original size:40 final size:40
Alignment explanation
Indices: 21755820--21756122 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
21755810 TCCTCGTTCA
* * * ** *
21755820 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
21755859 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21755899 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21755939 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21755979 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
21756019 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
21756059 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
21756099 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21756123 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:21792204 original size:39 final size:39
Alignment explanation
Indices: 21792150--21792263 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
21792140 ATTTGATGTG
21792150 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
21792189 TATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
21792228 TATCTGGACTTAGGGTCCGGAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
21792264 ATATGTCTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:21792291 original size:39 final size:39
Alignment explanation
Indices: 21792150--21792300 Score: 124
Period size: 39 Copynumber: 3.9 Consensus size: 39
21792140 ATTTGATGTG
* ** * *
21792150 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
* * ** * *
21792189 TATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
** *
21792228 TATCTGGACTTAGGGTCCGGAGGCTACGTGCTGGAAATA
1 TATCTGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
* * * *
21792267 TGTCTGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATCTGGACTTAAAGT-CCGCAGGCTACGTGCTGG
21792301 TATTATACCA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 4 0.04
39 94 0.96
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (39 bp):
TATCTGGACTTAAAGTCCGCAGGCTACGTGCTGGAAATA
Found at i:21792300 original size:78 final size:78
Alignment explanation
Indices: 21792150--21792307 Score: 176
Period size: 78 Copynumber: 2.0 Consensus size: 78
21792140 ATTTGATGTG
* * **
21792150 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGAACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTTAAAGTCCGCAGGCTA
*
21792215 TGTGCTGGAATTA
66 TGAGCTGGAATTA
* * * * **
21792228 TATCTGGACTTAGGGTCCGGAGGCTACGTGCTGGAAATATGTCTGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTTAAAGT-CCGCAGGCT
*
21792292 -TCGAGCTGGTATTA
65 AT-GAGCTGGAATTA
21792306 TA
1 TA
21792308 CCAGGTTTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 5 0.08
78 61 0.92
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTTAAAGTCCGCAGGCTA
TGAGCTGGAATTA
Found at i:21798235 original size:29 final size:28
Alignment explanation
Indices: 21798194--21798248 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
21798184 CCGAACTATT
21798194 GATATCATGGCCCAAAGCAAAATTAGCC
1 GATATCATGGCCCAAAGCAAAATTAGCC
* *
21798222 GATATTCATGGCCCGAAGCCAAATTAG
1 GATA-TCATGGCCCAAAGCAAAATTAG
21798249 TATAACTCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (28 bp):
GATATCATGGCCCAAAGCAAAATTAGCC
Found at i:21800911 original size:77 final size:77
Alignment explanation
Indices: 21800784--21800937 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
21800774 ATATCATACT
*
21800784 TGTGACAATTGTTTGATAATATGTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGA
1 TGTGACAATTGTTTGATAATATGTCAAATTATGTGATATACTTGGAAAATGTGAAACACTACCGA
21800849 GTATCGGTATCG
66 GTATCGGTATCG
* *
21800861 TGTGATAATTGTTTGTTAATATGTCAAATTATGTGATATACTTGGAAAATGTGAAACACTACCGA
1 TGTGACAATTGTTTGATAATATGTCAAATTATGTGATATACTTGGAAAATGTGAAACACTACCGA
21800926 GTATCGGTATCG
66 GTATCGGTATCG
21800938 GCATTCCATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (77 bp):
TGTGACAATTGTTTGATAATATGTCAAATTATGTGATATACTTGGAAAATGTGAAACACTACCGA
GTATCGGTATCG
Done.