Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 354 of 438
Found at i:110349167 original size:40 final size:40
Alignment explanation
Indices: 110349112--110349281 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
110349102 AACATTGGAA
110349112 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
110349152 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
110349192 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
110349231 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
110349272 CTATATCCGG
1 ATATATCCGG
110349282 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:110353963 original size:27 final size:28
Alignment explanation
Indices: 110353919--110353987 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
110353909 ATAGTGAGTC
110353919 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
110353945 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
110353973 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110353988 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.17
27 14 0.35
28 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:110365067 original size:46 final size:46
Alignment explanation
Indices: 110364916--110365131 Score: 172
Period size: 46 Copynumber: 4.6 Consensus size: 46
110364906 ATTTGTGTGT
* * * * * * **
110364916 GAGCTAGTGTAAGACATGTTTGGGACATGCCTCAGCCA-CAATATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACATCGAGACGA
* * *
110364962 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGA
* * *
110365010 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACG-A
*
110365057 -AGCCAGTGTAAGACATGTCTGGGACATGCATC-AGC-TACTG-GATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-C-GAGACGA
* *
110365102 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
110365132 GCATTAACTT
Statistics
Matches: 143, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
45 3 0.02
46 73 0.51
47 46 0.32
48 21 0.15
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGA
Found at i:110365162 original size:47 final size:48
Alignment explanation
Indices: 110364915--110365186 Score: 230
Period size: 47 Copynumber: 5.8 Consensus size: 48
110364905 CATTTGTGTG
* * ***
110364915 TGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCCTCAGCCACA-AT-A
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGATGA
* *
110364959 TAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 T--GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTGAGATGA
* * * *
110365010 -GAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGACCTCGAGACG-
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCTTGAGATGA
* *
110365055 TAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACTG-GATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCT--TGAGATGA
* *
110365102 T-AG-TCAGTGTAAGACCATGTCTGGGACATGGCATTAACTTGAGAT-A
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGATGA
* *
110365148 TGAGCTAGTATAAGACCATGTCTGGGACATGGTATCAGC
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
110365187 ACTTTACCCA
Statistics
Matches: 184, Mismatches: 26, Indels: 33
0.76 0.11 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 72 0.39
47 77 0.42
48 27 0.15
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGATGA
Found at i:110365177 original size:140 final size:140
Alignment explanation
Indices: 110364921--110365178 Score: 358
Period size: 140 Copynumber: 1.8 Consensus size: 140
110364911 TGTGTGAGCT
* * *
110364921 AGTGTAAGACATGTTTGGGACATGCCTCAGCCACAATATAAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
** *
110364986 GACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGAGACATGCATCGACCTCGA
66 GACATGGCATCAACATTGAGATGAGAGCTAGTATAAGACATGTCTGAGACATGCATCGACCTCGA
110365051 GACGTAAGCC
131 GACGTAAGCC
* ** * * *
110365061 AGTGTAAGACATGTCTGGGACATGCATCAGCTACTGGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
* *
110365126 GACATGGCATTAAC-TTGAGAT-ATGAGCTAGTATAAGACCATGTCTGGGACATG
66 GACATGGCATCAACATTGAGATGA-GAGCTAGTATAAGA-CATGTCTGAGACATG
110365179 GTATCAGCAC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 81 0.79
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATAAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAACATTGAGATGAGAGCTAGTATAAGACATGTCTGAGACATGCATCGACCTCGA
GACGTAAGCC
Found at i:110365343 original size:2 final size:2
Alignment explanation
Indices: 110365336--110365369 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110365326 ATGAGCTCAG
110365336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110365370 GGTGACTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110366197 original size:28 final size:28
Alignment explanation
Indices: 110366157--110366212 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
110366147 ACACGAGCTA
*
110366157 GGACACGGGCGTGTCGT-GGCCGTGTGAG
1 GGACACAGGCGTGT-GTAGGCCGTGTGAG
110366185 GGACACAGGCGTGTGTCAGGCCGTGTGA
1 GGACACAGGCGTGTGT-AGGCCGTGTGA
110366213 AAACCCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 2 0.08
28 13 0.52
29 10 0.40
ACGTcount: A:0.14, C:0.21, G:0.46, T:0.18
Consensus pattern (28 bp):
GGACACAGGCGTGTGTAGGCCGTGTGAG
Found at i:110375460 original size:47 final size:47
Alignment explanation
Indices: 110375261--110375482 Score: 199
Period size: 47 Copynumber: 4.7 Consensus size: 47
110375251 CACATTATAA
* *
110375261 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGA-
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-TCGAGATGAT
* * *
110375309 GAGCTAGTGTAAGACTAT-T-TGGGACAT-GCATCAGCCTCGAGACG-T
1 GAGCCAGTGTAAGAC-ATGTCTGGGACATGGCATC-GACTCGAGATGAT
* * *
110375354 AAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGGGATGAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGATGAT
* * *
110375401 -AGTCAATGTAAGATCATGTCTGGGACATGGCATCGACTTGAGAT-AT
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGATGAT
** *
110375447 GAGCCAGCATAAGACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
110375483 GCACCTTACC
Statistics
Matches: 143, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
44 2 0.01
45 28 0.20
46 41 0.29
47 50 0.35
48 22 0.15
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGATGAT
Found at i:110378540 original size:38 final size:37
Alignment explanation
Indices: 110378497--110378574 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
110378487 GTTAGTTAAA
110378497 ACAAAACCTCTTTATTCTTAGGT-TAGATAATAAAAAAG
1 ACAAAACCTCTTTATTCTTA-GTCTAGATAAT-AAAAAG
110378535 ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
1 ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
110378572 ACA
1 ACA
110378575 GTCATTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
37 11 0.28
38 28 0.72
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (37 bp):
ACAAAACCTCTTTATTCTTAGTCTAGATAATAAAAAG
Found at i:110381494 original size:20 final size:21
Alignment explanation
Indices: 110381461--110381499 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
110381451 GACTAAACCG
*
110381461 ACAACTTAGGAAACTTTTGGA
1 ACAACTTAGAAAACTTTTGGA
110381482 ACAA-TTAGAAAACTTTTG
1 ACAACTTAGAAAACTTTTG
110381500 CAAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
ACAACTTAGAAAACTTTTGGA
Found at i:110388969 original size:397 final size:398
Alignment explanation
Indices: 110388235--110389432 Score: 2380
Period size: 398 Copynumber: 3.0 Consensus size: 398
110388225 GAACCCATTC
110388235 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
1 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
*
110388300 GACTCACACGGGCACAAGACATGCCCATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
66 GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
110388365 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
131 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
110388430 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
196 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
110388495 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
261 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
110388560 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
326 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
110388625 CCACCAAA
391 CCACCAAA
110388633 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
1 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
110388698 GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTG-CAAAAAGAGGTCCTACACTGAC
66 GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
110388762 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
131 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
110388827 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
196 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
110388892 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
261 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
110388957 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
326 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
110389022 CCACCAAA
391 CCACCAAA
110389030 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
1 ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
110389095 GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
66 GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
110389160 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
131 TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
110389225 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
196 ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
110389290 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
261 AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
110389355 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
326 ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
110389420 CCACCAAA
391 CCACCAAA
110389428 ACAAT
1 ACAAT
110389433 GCTCAAATAT
Statistics
Matches: 798, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
397 397 0.50
398 401 0.50
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (398 bp):
ACAATTTTTAGAACTTAATCAAAATTTTCAAAACTGAAAAAGTCACCCGCGTGACTAGGCCATGT
GACTCACACGGGCACAAGACATGCCTATGTGGTCCAACCGTGCCAAAAAGAGGTCCTACACTGAC
TTTTTAACACGGCCAACAGACACAGCCGTGTGCCATGACCGTGTAAAATTTAGCTAGCTACTGAC
ATTTTCACAGGGCCACAAGGCACGCCCGTGTTCCCTGGCCGTGTGGCACAATGCAGGCTTGGTTT
AAGCCAAATTGCCACCTCATATGGTTCCAATCGAACAAGCATTAATATGCAACAATTATACCAAC
ATTTACAACCAATTCCATGCTCAAATATGACCAAAACACATTAGAATATAACACATTACAAACAT
CCACCAAA
Found at i:110398171 original size:39 final size:39
Alignment explanation
Indices: 110398126--110398285 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
110398116 ATGCAAGATA
* *
110398126 CTGGAAATGTATCCAGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
110398165 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
110398204 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
110398243 CAGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
110398282 CTGG
1 CTGG
110398286 TAATATAATT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:110402888 original size:80 final size:80
Alignment explanation
Indices: 110402804--110402952 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
110402794 TATGGTAACC
* * * *
110402804 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
110402868 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
110402884 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
110402949 CCGG
66 CCGG
110402953 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:110402894 original size:40 final size:38
Alignment explanation
Indices: 110402845--110402952 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
110402835 ATCACGATTT
*
110402845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
110402885 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
110402925 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
110402953 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:110410893 original size:40 final size:40
Alignment explanation
Indices: 110410848--110410976 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
110410838 CGGAATATAA
110410848 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
110410888 CCGGATAGAA-TACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
110410927 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
110410967 CCGGATATAA
1 CCGGATATAA
110410977 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.43
40 41 0.55
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:110410912 original size:39 final size:40
Alignment explanation
Indices: 110410864--110410973 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
110410854 ATAACCACGT
* *
110410864 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
110410903 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
110410943 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
110410974 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:110410991 original size:40 final size:39
Alignment explanation
Indices: 110410864--110411014 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 39
110410854 ATAACCACGT
* *
110410864 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAC-CA
* ** *
110410903 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATACCA
* *
110410943 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-TACCA
* *
110410983 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
110411015 CATTCAATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 30 0.33
40 61 0.66
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATACCA
Found at i:110424796 original size:31 final size:31
Alignment explanation
Indices: 110424755--110424818 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
110424745 CCTTTTCATA
*
110424755 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
110424786 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
110424817 TT
1 TT
110424819 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:110425064 original size:24 final size:24
Alignment explanation
Indices: 110425026--110425176 Score: 236
Period size: 23 Copynumber: 6.4 Consensus size: 24
110425016 CTAGAGGCCT
*
110425026 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
110425051 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
110425075 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
110425098 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
110425122 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
110425145 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
110425168 AGCCCTTTT
1 AGCCCTTTT
110425177 TCACTTCCTC
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 66 0.56
24 47 0.40
25 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:110425086 original size:47 final size:47
Alignment explanation
Indices: 110425033--110425175 Score: 243
Period size: 47 Copynumber: 3.1 Consensus size: 47
110425023 CCTAGCCTCT
* *
110425033 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
110425080 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
110425127 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
110425173 TTT
1 TTT
110425176 TTCACTTCCT
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 25 0.27
47 66 0.73
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:110425251 original size:20 final size:20
Alignment explanation
Indices: 110425226--110425292 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
110425216 TTATGAATAC
110425226 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
110425246 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
110425266 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
110425286 ACCATGT
1 ATCATGT
110425293 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:110425257 original size:11 final size:11
Alignment explanation
Indices: 110425226--110425281 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
110425216 TTATGAATAC
110425226 ATCATGTGCAT
1 ATCATGTGCAT
*
110425237 ATCA--TACAT
1 ATCATGTGCAT
110425246 ATCATGTGCAT
1 ATCATGTGCAT
*
110425257 ATCA--TACAT
1 ATCATGTGCAT
*
110425266 GTCATGTGCAT
1 ATCATGTGCAT
110425277 ATCAT
1 ATCAT
110425282 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:110432919 original size:31 final size:31
Alignment explanation
Indices: 110432878--110432941 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
110432868 CCTTTTCATA
*
110432878 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
110432909 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
110432940 TT
1 TT
110432942 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:110433209 original size:47 final size:47
Alignment explanation
Indices: 110433132--110433320 Score: 276
Period size: 47 Copynumber: 4.0 Consensus size: 47
110433122 TGCTTTATCA
* *
110433132 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTT
110433181 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
* * *
110433227 AATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
*
110433274 AATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
110433320 T
1 T
110433321 TCACTTCCTC
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
46 46 0.35
47 66 0.51
48 5 0.04
49 13 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:110433212 original size:23 final size:23
Alignment explanation
Indices: 110433154--110433319 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
110433144 CCTAGCCTCT
*
110433154 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
110433177 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
110433201 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
110433224 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
110433247 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
110433271 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
110433294 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
110433317 TTT
1 TTT
110433320 TTCACTTCCT
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 92 0.69
24 42 0.31
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:110433248 original size:70 final size:70
Alignment explanation
Indices: 110433154--110433321 Score: 309
Period size: 70 Copynumber: 2.4 Consensus size: 70
110433144 CCTAGCCTCT
*
110433154 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
110433219 AGCCC
66 AGCCC
* *
110433224 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
110433289 AGCCC
66 AGCCC
110433294 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
110433322 CACTTCCTCC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 93 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
AGCCC
Found at i:110433400 original size:41 final size:40
Alignment explanation
Indices: 110433355--110433437 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 40
110433345 CCCAACCCAA
*
110433355 TGCATTTATGAATACA-TCATGTGCATATCATACATATCATG
1 TGCA-TTAT-AATACAGTCATGTGCATATCATACATACCATG
*
110433396 TGCATTATCATACATGTCATGTGCATATCATACATACCATG
1 TGCATTATAATACA-GTCATGTGCATATCATACATACCATG
110433437 T
1 T
110433438 TTATCAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 5 0.13
40 4 0.11
41 29 0.76
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (40 bp):
TGCATTATAATACAGTCATGTGCATATCATACATACCATG
Found at i:110433406 original size:21 final size:20
Alignment explanation
Indices: 110433370--110433437 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
110433360 TTATGAATAC
110433370 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
110433390 ATCATGTGCATTATCATACAT
1 ATCATGTGCA-TATCATACAT
*
110433411 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
110433431 ACCATGT
1 ATCATGT
110433438 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 25 0.57
21 19 0.43
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:110433506 original size:25 final size:25
Alignment explanation
Indices: 110433474--110433521 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
110433464 ATACATAAAC
* * *
110433474 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
110433499 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
110433522 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:110436814 original size:49 final size:47
Alignment explanation
Indices: 110436709--110436976 Score: 226
Period size: 49 Copynumber: 5.6 Consensus size: 47
110436699 AGATGCTGAC
* * * * *
110436709 GCCATGTCCCAGACATGGTCTTACACTGGC-TAACACATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTCATATATCAAGGT-GAT
110436757 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCAAGG-TGAT
* * * * * *
110436806 GCCGTGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCAATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCAAGGT-GAT
* * * *
110436855 GCCATGTCCCAGACAGGTCTTACACTGAC-ACAGA-A-CAAGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGTGAT
* *
110436899 GCCATGTCCCAGACAGGGCTTACACT-AGCTCTCATCTATC--GGTGTCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CT-TCATATATCAAGGTG---AT
*
110436948 GCCATGTCCCAAACAGGTCTTACACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
110436977 ACACAACAAG
Statistics
Matches: 177, Mismatches: 29, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 4 0.02
46 6 0.03
47 16 0.09
48 18 0.10
49 102 0.58
50 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGTGAT
Found at i:110436950 original size:93 final size:93
Alignment explanation
Indices: 110436703--110437021 Score: 390
Period size: 93 Copynumber: 3.4 Consensus size: 93
110436693 GGGATAAGAT
* ** *
110436703 GCTGACGCCATGTCCCAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCGATGCCATGTCC
1 GCTGACGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTATCAATGTCGATGCCATGTCC
* *
110436766 CAGACAGGTCTTACACTGACTTTCATATATCAA
65 CAGACAGGTCTTACACTGAC--ACACA-A-CAA
* * * * *
110436799 GGCTGATGCCGTGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCC
1 -GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCAATGTCGATGCCATGTCC
*
110436864 CAGACAGGTCTTACACTGACACAGAACAA
65 CAGACAGGTCTTACACTGACACACAACAA
* ** *
110436893 GCTGACGCCATGTCCCAGACAGGGCTTACACTAGCTCTCATCTATCGGTGTCAATGCCATGTCCC
1 GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCAATGTCGATGCCATGTCCC
*
110436958 AAACAGGTCTTACACTGACACACAACAA
66 AGACAGGTCTTACACTGACACACAACAA
* * *
110436986 GCTGACGCCAGGACCCAGATAGGTCTTACACTAGCT
1 GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCT
110437022 TGTATATCTC
Statistics
Matches: 196, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
93 114 0.58
94 3 0.02
95 1 0.01
96 20 0.10
97 18 0.09
98 40 0.20
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (93 bp):
GCTGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCAATGTCGATGCCATGTCCC
AGACAGGTCTTACACTGACACACAACAA
Found at i:110437041 original size:93 final size:93
Alignment explanation
Indices: 110436755--110437063 Score: 293
Period size: 93 Copynumber: 3.3 Consensus size: 93
110436745 ATCAAAGTCG
* * * * *
110436755 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGATGCC-GTGTCCCAAA
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-CAA-GCTGACGCCAG-GACCCAGA
* * * * ** * *
110436819 TAGGTCTTACACTGGCTCTCATCTATCAATGTCG
60 CAGGGCTTACACTAGCTCTCATATATCGGTGCCA
* * *
110436853 ATGCCATGTCCCAGACAGGTCTTACACTGACACAGAACAAGCTGACGCCATGTCCCAGACAGGGC
1 ATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACGCCAGGACCCAGACAGGGC
* *
110436918 TTACACTAGCTCTCATCTATCGGTGTCA
66 TTACACTAGCTCTCATATATCGGTGCCA
* * *
110436946 ATGCCATGTCCCAAACAGGTCTTACACTGACACACAACAAGCTGACGCCAGGACCCAGATAGGTC
1 ATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACGCCAGGACCCAGACAGGGC
* *
110437011 TTACACTAGCT-TGTATATCTCGAG-GCCA
66 TTACACTAGCTCT-CATATATCG-GTGCCA
* *
110437039 ATG-CATGTCCTAGACAAGTCTTACA
1 ATGCCATGTCCCAGACAGGTCTTACA
110437064 TTGGCTCTCA
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
92 20 0.11
93 125 0.68
94 4 0.02
95 1 0.01
96 3 0.02
98 31 0.17
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (93 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACGCCAGGACCCAGACAGGGC
TTACACTAGCTCTCATATATCGGTGCCA
Found at i:110444937 original size:27 final size:27
Alignment explanation
Indices: 110444857--110444939 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
110444847 AAATTTGTAC
* *
110444857 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAA-CTAATTATAT
*
110444885 AGCACTAAGTGTGCGAGCTAATTATAT
1 AGCACTAAGTGTGCGAACTAATTATAT
* *
110444912 AGCACTAAGTGTGCGAACTCACTATAT
1 AGCACTAAGTGTGCGAACTAATTATAT
110444939 A
1 A
110444940 CTTTTACATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 33 0.67
28 16 0.33
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAACTAATTATAT
Found at i:110452825 original size:27 final size:28
Alignment explanation
Indices: 110452768--110452837 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
110452758 AAATTTGTAC
**
110452768 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
110452796 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
110452823 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
110452838 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:110458535 original size:42 final size:42
Alignment explanation
Indices: 110458343--110458545 Score: 158
Period size: 42 Copynumber: 4.7 Consensus size: 42
110458333 AGATGCCAAT
* * * *
110458343 GCCATATCCTAGATATGGTCTTACATGGGATCACATATCGAT
1 GCCATATCCCAGATATGGTCTTACACGAGATCACATATCGAG
* * * ** *
110458385 GCCAATAGCCCAGTTATGATCTTACACGATG-TCTTATATCGAT
1 GCC-ATATCCCAGATATGGTCTTACACGA-GATCACATATCGAG
* * * * *
110458428 GCCAT-TGCCCAAACATGGTATTACACGAAATCACATATTGATG
1 GCCATAT-CCCAGATATGGTCTTACACGAGATCACATATCGA-G
* *
110458471 CCAATGCCATATCCCAGATATGGCCTTACATGAGATCACATATCGAG
1 -----GCCATATCCCAGATATGGTCTTACACGAGATCACATATCGAG
110458518 GCCATATCCCAGATATGGTCTTACACGA
1 GCCATATCCCAGATATGGTCTTACACGA
110458546 AACCACACAT
Statistics
Matches: 122, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
42 55 0.45
43 32 0.26
44 1 0.01
47 1 0.01
48 32 0.26
49 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAGATCACATATCGAG
Found at i:110463082 original size:22 final size:22
Alignment explanation
Indices: 110463054--110463099 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
110463044 TCCAAGACTT
110463054 ATGTTGTCCTTAATTCTTTCCC
1 ATGTTGTCCTTAATTCTTTCCC
110463076 ATGTTGTCCTTAATTCTTTCCC
1 ATGTTGTCCTTAATTCTTTCCC
110463098 AT
1 AT
110463100 ACTTTACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.09, T:0.50
Consensus pattern (22 bp):
ATGTTGTCCTTAATTCTTTCCC
Found at i:110466648 original size:14 final size:15
Alignment explanation
Indices: 110466629--110466658 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110466619 GTTTATTATA
110466629 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
110466643 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
110466658 T
1 T
110466659 CTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:110468682 original size:43 final size:43
Alignment explanation
Indices: 110468550--110468685 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
110468540 GGCTTTGAGC
*
110468550 CTAGCAGGCGTAATGCCGGTGAAATGATTTCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
* * * * * *** *
110468593 CTTGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCCGA-GC
1 CTAGCAGGC-GTAATGCCGGTGAAATGA-TATCGGACTTAAAGGT
*
110468634 CTAGCAGGCGTAATGCCGGTGAAATGATATCTGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
110468677 CTAGCAGGC
1 CTAGCAGGC
110468686 TTATTGCCAG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
40 3 0.04
41 15 0.22
42 22 0.33
43 24 0.36
44 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
Found at i:110473816 original size:40 final size:39
Alignment explanation
Indices: 110473689--110473818 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
110473679 ATGCTGGAAA
* *
110473689 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
110473729 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
110473769 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
110473809 TTATATCCGG
1 TTATATCCGG
110473819 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:110481879 original size:40 final size:39
Alignment explanation
Indices: 110481752--110481881 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
110481742 ATGCTGGAAA
* *
110481752 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
110481792 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
110481832 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
110481872 TTATATCCGG
1 TTATATCCGG
110481882 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:110495074 original size:40 final size:40
Alignment explanation
Indices: 110495017--110495180 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
110495007 TGAATGATAC
* * * *
110495017 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
110495057 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
110495097 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
110495137 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
110495177 CCGG
1 CCGG
110495181 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:110503189 original size:39 final size:39
Alignment explanation
Indices: 110503101--110503261 Score: 166
Period size: 39 Copynumber: 4.1 Consensus size: 39
110503091 TGAATGATAC
* * * *
110503101 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
* *
110503141 CCGGGCTAAGACCCGAAGGC-ATTCTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGTTATAT
* * *
110503180 CCGGGCTAAGA-CCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
110503219 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
110503258 CCGG
1 CCGG
110503262 TTGAATCCGA
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 9 0.09
39 52 0.51
40 38 0.38
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:110505024 original size:40 final size:40
Alignment explanation
Indices: 110504964--110505125 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
110504954 TGAATGATAC
* * *
110504964 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
110505003 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
110505043 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTA-CAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
110505082 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
110505122 CCGG
1 CCGG
110505126 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
39 45 0.44
40 52 0.51
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:110505095 original size:39 final size:40
Alignment explanation
Indices: 110505001--110505109 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
110504991 TAGTGATTAT
* ** *
110505001 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGACAA
110505041 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTT-ACAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGACAA
*
110505080 ATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
110505110 TTGTGGTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 30 0.48
40 30 0.48
41 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGACAA
Found at i:110507924 original size:46 final size:44
Alignment explanation
Indices: 110507839--110507958 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 44
110507829 TCACATATCA
* *
110507839 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGT--GCC
* *
110507885 AGTGTAAGACATGTCTGGGACATGCATCAG-CTATAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAGATGTGCC
*
110507929 AGCGTAAGACCATG-CTTGGGACATGGCATC
1 AGTGTAAGA-CATGTC-TGGGACAT-GCATC
110507959 GGCACAGATA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 11 0.17
45 14 0.22
46 40 0.62
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTGCC
Found at i:110510142 original size:43 final size:43
Alignment explanation
Indices: 110510036--110510145 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
110510026 GATTTGAGAT
* * ** *
110510036 TTACGTGTAAGACCATGTCTGGGATATCAGCATCGTATTTGAA
1 TTACATGTAAGACCATGTCTGGGACAGAAGCATCGTATCTGAA
*
110510079 TT-CATGTAAGACCCTGTCTGGGACAGAAGCATCG-ATACTGAA
1 TTACATGTAAGACCATGTCTGGGACAGAAGCATCGTAT-CTGAA
*
110510121 TTACATGTAAGACCAAGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
110510146 GTCGGCATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 33 0.58
43 22 0.39
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGAAGCATCGTATCTGAA
Found at i:110526856 original size:17 final size:17
Alignment explanation
Indices: 110526834--110526872 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
110526824 TTGATGATTT
110526834 TTGTACTTTTAGAACCC
1 TTGTACTTTTAGAACCC
110526851 TTGTACTTTTAGAACCC
1 TTGTACTTTTAGAACCC
110526868 TTGTA
1 TTGTA
110526873 GCATGAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (17 bp):
TTGTACTTTTAGAACCC
Found at i:110527609 original size:28 final size:28
Alignment explanation
Indices: 110527569--110527625 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
110527559 GCATCGGCCA
110527569 CATTATAAGAGCCAGTGTAAGACTATGT
1 CATTATAAGAGCCAGTGTAAGACTATGT
110527597 CATTATAAGAGCCAGTGTAAGACTATGT
1 CATTATAAGAGCCAGTGTAAGACTATGT
110527625 C
1 C
110527626 TAGGACATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (28 bp):
CATTATAAGAGCCAGTGTAAGACTATGT
Found at i:110527711 original size:46 final size:45
Alignment explanation
Indices: 110527606--110527830 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 45
110527596 TCATTATAAG
* *
110527606 AGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAGACG-A
1 AGCCAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGC-TAGAGATGTA
* * * *
110527653 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGGCTCGAGATGTA
1 -AGCCAGTGTAAGACATGTCTAGGACATGCATC-GGCTAGAGATGTA
*
110527700 AGCCAGTGTAAGACATGTCTAGGATATGCATCGGCTAAGAGATGT-
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCT-AGAGATGTA
* * * *
110527745 A-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGA
1 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TAGAGATGT-A
* *
110527793 GAGCTAGTGTAAGACCATGTC-ATGGACACGGCATCGGC
1 -AGCCAGTGTAAGA-CATGTCTA-GGACA-TGCATCGGC
110527831 CTCGATTTCA
Statistics
Matches: 146, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 60 0.41
47 16 0.11
48 13 0.09
49 1 0.01
50 29 0.20
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTAGAGATGTA
Found at i:110527802 original size:94 final size:93
Alignment explanation
Indices: 110527604--110527830 Score: 243
Period size: 94 Copynumber: 2.4 Consensus size: 93
110527594 TGTCATTATA
*
110527604 AGAGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACA
1 AGAGCCAGTGTAAGAC-ATGTCTAGGACATGGCATCGGCA-TAAGACGAGAGCTAGTGTAAGACA
* *
110527669 TGTCTGGGACATGTATCGGGCTCGAGATGT
64 TGTCTGGGACATGCATCGGGCACGAGATGT
* *
110527699 A-AGCCAGTGTAAGACATGTCTAGGATAT-GCATCGGC-TAAGA-GATGTATC-AGTGTAAGACC
1 AGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCATAAGACGA-G-AGCTAGTGTAAGA-C
*
110527759 ATGTCTGGGACATGGCATC-GGCACAGATATGT
63 ATGTCTGGGACAT-GCATCGGGCAC-GAGATGT
* *
110527791 GAGAGCTAGTGTAAGACCATGTC-ATGGACACGGCATCGGC
1 -AGAGCCAGTGTAAGA-CATGTCTA-GGACATGGCATCGGC
110527831 CTCGATTTCA
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
89 2 0.02
90 14 0.12
91 20 0.18
92 18 0.16
93 13 0.12
94 27 0.24
95 11 0.10
96 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (93 bp):
AGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCATAAGACGAGAGCTAGTGTAAGACATG
TCTGGGACATGCATCGGGCACGAGATGT
Found at i:110530876 original size:42 final size:42
Alignment explanation
Indices: 110530829--110531033 Score: 203
Period size: 42 Copynumber: 4.7 Consensus size: 42
110530819 TAAGATGTCA
* *
110530829 ATGCCATATCCCAGATAAGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCG
* * * * *
110530871 ATGCCAATAACCCAGCTATGGTCTTACACGATATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAGATCACATATCG
* * * * *
110530914 ATGTCATATCCCAGACATGGTCTTACACGAAATCACATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCG
* *
110530956 ATGCCAATGTCATATCCCAGATATGGTCTTACATGGGATCACATATCA
1 ATG-C-----CATATCCCAGATATGGTCTTACATGAGATCACATATCG
* *
110531004 ATTCCATATCCCAGATATGTTCTTACATGA
1 ATGCCATATCCCAGATATGGTCTTACATGA
110531034 AACCACACAT
Statistics
Matches: 132, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
42 63 0.48
43 34 0.26
47 1 0.01
48 34 0.26
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCG
Found at i:110531013 original size:90 final size:85
Alignment explanation
Indices: 110530826--110531040 Score: 234
Period size: 90 Copynumber: 2.5 Consensus size: 85
110530816 TGGTAAGATG
* * ** *
110530826 TCAATGCCATATCCCAGATAAGGTCTTACATGGGATCACATATCGATGCCAATAACCCAGCTATG
1 TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAACCCAGATATG
* *
110530891 GTCTTACACGATATCTCATA
66 GTCTTACACGAGATCACATA
* * * *
110530911 TCGATGT-CATATCCCAGACATGGTCTTACACGAAATCACATATTGATGCCAATGTCATATCCCA
1 TCAAT-TCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAA--T-A-A-CCCA
* *
110530975 GATATGGTCTTACATGGGATCACATA
60 GATATGGTCTTACACGAGATCACATA
* *
110531001 TCAATTCCATATCCCAGATATGTTCTTACATGAAACCACA
1 TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACA
110531041 CATAACCCTA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
85 43 0.41
87 1 0.01
88 1 0.01
89 2 0.02
90 58 0.55
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (85 bp):
TCAATTCCATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCAATAACCCAGATATG
GTCTTACACGAGATCACATA
Found at i:110534128 original size:31 final size:31
Alignment explanation
Indices: 110534083--110534155 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
110534073 AAAAAAAATC
*
110534083 ATTTTTATACTTTTTA-AATAATT-TTTTACA
1 ATTTTTATAATTTTTACAAT-ATTCTTTTACA
* *
110534113 ATTTGTTATAATTTTTACAATTTTCTTTTCCA
1 ATTT-TTATAATTTTTACAATATTCTTTTACA
110534145 ATTTTTATAAT
1 ATTTTTATAAT
110534156 AATATTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 4 0.11
31 20 0.54
32 13 0.35
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTATAATTTTTACAATATTCTTTTACA
Found at i:110534732 original size:11 final size:11
Alignment explanation
Indices: 110534726--110534751 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
110534716 TGAAATTTTC
110534726 TCAAAATTCTA
1 TCAAAATTCTA
110534737 TCAAAATTCTA
1 TCAAAATTCTA
110534748 TCAA
1 TCAA
110534752 TTTTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:110534956 original size:48 final size:46
Alignment explanation
Indices: 110534890--110535024 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 46
110534880 AGTGATGATT
* *
110534890 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAA
110534938 TTAAATTTGCAATACTATTTGATATTTTTTTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAA
*
110534986 TTAAAATTTCAATACTACTTGATTTTTTTTTCATTTATG
1 TT-AAATTTCAATACTA-TTGATATTTTTTTCATTTATG
110535025 ATGTTTGCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 7 0.09
48 64 0.81
49 8 0.10
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (46 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAA
Found at i:110536640 original size:18 final size:18
Alignment explanation
Indices: 110536617--110536660 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
110536607 AAGCGAGGTG
*
110536617 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
110536635 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
110536653 TGTTTCCT
1 TGTATCCT
110536661 TTTTCTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:110536926 original size:21 final size:21
Alignment explanation
Indices: 110536902--110536941 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
110536892 CAACACCCAC
*
110536902 AACCA-AATCCCCTGCCGGAGG
1 AACCACAA-CCCCCGCCGGAGG
110536923 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
110536942 AGCTGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.45, G:0.20, T:0.05
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGG
Found at i:110540800 original size:126 final size:126
Alignment explanation
Indices: 110540352--110540803 Score: 642
Period size: 126 Copynumber: 3.6 Consensus size: 126
110540342 ACGCGAGACC
* *
110540352 TTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAACGTTTTCGACAATATTTGTTCAGAAA
1 TTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
*
110540417 CGTCGACTCAGGCTCATTTTT-TGCGAACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCT
66 CGTCTACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCT
* * *
110540477 TTTTTCAGAACTTTAGCTGATAGTGCATCCTGCTTGAAGTGTTTTCGACACTATTTGTTCAGAAA
1 TTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
* * * *
110540542 CGT-TGACTCAGGCTCATGTTTCTGCGAACTGCTATAGCAAAAGAGCGTCCACGTGGAAGCT
66 CGTCT-ACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCT
* *
110540603 TTTTTCAGAACTTTTGCTGACAGTGCATCCTACTTGAAGCGTTTTCGACACTATATGTTCAGAAA
1 TTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
* ** * * * *
110540668 CATCTACTCAGATTTATTTTTCTACGAACTACTGTAGCAAAAAAAGCGTCCATGTGGGAG-T
66 CGTCTACTCAGGCTCATTTTTCTGCGAACTACTGTAGC-AAAAGAGCGTCCATGTGGAAGCT
* * *
110540729 TTTTTCCAGAAATTTT-CTGACACTGCATCCTGCATGAAGCGTTTTCGACACTATTTGTTCAGAA
1 TTTTT-CAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAA
*
110540793 ATGTCTACTCA
65 ACGTCTACTCA
110540804 AAATTATTCT
Statistics
Matches: 289, Mismatches: 33, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
125 78 0.27
126 183 0.63
127 28 0.10
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
TTTTTCAGAACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAA
CGTCTACTCAGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCT
Found at i:110541507 original size:24 final size:24
Alignment explanation
Indices: 110541480--110541538 Score: 86
Period size: 22 Copynumber: 2.5 Consensus size: 24
110541470 TTATAAACCC
110541480 TAAAAACCCTAAAACCCTAAAATA
1 TAAAAACCCTAAAACCCTAAAATA
*
110541504 TAAAAACCCT--AACCCTAAATTA
1 TAAAAACCCTAAAACCCTAAAATA
110541526 TAAAAAACCCTAA
1 T-AAAAACCCTAA
110541539 CCTTAAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 12 0.39
23 9 0.29
24 10 0.32
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (24 bp):
TAAAAACCCTAAAACCCTAAAATA
Found at i:110541535 original size:23 final size:22
Alignment explanation
Indices: 110541480--110541546 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 22
110541470 TTATAAACCC
110541480 TAAAAACCCTAAAACCCTAAAATA
1 TAAAAACCCT--AACCCTAAAATA
*
110541504 TAAAAACCCTAACCCTAAATTA
1 TAAAAACCCTAACCCTAAAATA
*
110541526 TAAAAAACCCTAACCTTAAAA
1 T-AAAAACCCTAACCCTAAAA
110541547 ACCCTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.31
23 17 0.44
24 10 0.26
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAAAACCCTAACCCTAAAATA
Found at i:110545777 original size:15 final size:16
Alignment explanation
Indices: 110545757--110545794 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
110545747 CCTAAGTAAT
110545757 TATTATTTA-T-ATAG
1 TATTATTTATTCATAG
110545771 ATATTATTTATTCATAG
1 -TATTATTTATTCATAG
110545788 TATTATT
1 TATTATT
110545795 GCAATTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (16 bp):
TATTATTTATTCATAG
Found at i:110546121 original size:93 final size:93
Alignment explanation
Indices: 110546012--110546198 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
110546002 CAATTTAATC
*
110546012 TTTACTAAAATTTCTTCTTGCTTTTTTTTCAATGTCAAAATTTGACTTTACTATCATTATTCAAT
1 TTTACTAAAATTTCTTCATGCTTTTTTTTCAATGTCAAAATTTGACTTTACTATCATTATTCAAT
110546077 TTATAGACTCTTGCTTTTTGGGAAATTT
66 TTATAGACTCTTGCTTTTTGGGAAATTT
*
110546105 TTTAGTAAAATTTCTTCATGCTTTTTTTTCAATGTCAAAATTTGACTTTACTATCATTATTCAAT
1 TTTACTAAAATTTCTTCATGCTTTTTTTTCAATGTCAAAATTTGACTTTACTATCATTATTCAAT
110546170 TTATAGACTCTTGCTTTTTGGGAAATTT
66 TTATAGACTCTTGCTTTTTGGGAAATTT
110546198 T
1 T
110546199 GTTATTTTTC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.51
Consensus pattern (93 bp):
TTTACTAAAATTTCTTCATGCTTTTTTTTCAATGTCAAAATTTGACTTTACTATCATTATTCAAT
TTATAGACTCTTGCTTTTTGGGAAATTT
Found at i:110547520 original size:33 final size:33
Alignment explanation
Indices: 110547478--110547545 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
110547468 CCCTTTATCT
110547478 CCAAACAAAAAATCATC-AAAAAAAGTCCCTAAA
1 CCAAACAAAAAATCATCTAAAAAAA-TCCCTAAA
110547511 CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
1 CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
110547544 CC
1 CC
110547546 TAAATAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.59, C:0.26, G:0.01, T:0.13
Consensus pattern (33 bp):
CCAAACAAAAAATCATCTAAAAAAATCCCTAAA
Found at i:110555204 original size:40 final size:40
Alignment explanation
Indices: 110555159--110555325 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
110555149 CGGAATATAA
110555159 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
110555199 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
110555239 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
110555279 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
110555318 CCGGATAT
1 CCGGATAT
110555326 TATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:110555309 original size:80 final size:79
Alignment explanation
Indices: 110555159--110555325 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 79
110555149 CGGAATATAA
*
110555159 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
110555224 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * * *
110555239 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA
*
110555301 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
110555318 CCGGATAT
1 CCGGATAT
110555326 TATTCAATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
79 18 0.23
80 59 0.77
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:110563212 original size:40 final size:40
Alignment explanation
Indices: 110563161--110563311 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
110563151 TATAACACGT
*
110563161 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
110563201 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
110563241 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
110563280 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
110563312 TTCAATTTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.91
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:110563295 original size:80 final size:80
Alignment explanation
Indices: 110563161--110563310 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
110563151 TATAACACGT
* *
110563161 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
110563226 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
110563241 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
110563304 CCCGGAT
64 CCCGGAT
110563311 ATTCAATTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:110567304 original size:31 final size:31
Alignment explanation
Indices: 110567248--110567313 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
110567238 AGAAAGTAAC
* * * *
110567248 AATTCTACTCTTTTTGATAGGTTGAT-GTTCA
1 AATTCAACTCTTTTTAAAAGATTGATGGTT-A
110567279 AATTCAACTCTTTTTAAAAGATTGATGGTTA
1 AATTCAACTCTTTTTAAAAGATTGATGGTTA
110567310 AATT
1 AATT
110567314 TAGTAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAGATTGATGGTTA
Found at i:110568888 original size:17 final size:16
Alignment explanation
Indices: 110568866--110568941 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
110568856 CTATACATGT
110568866 GAACCCTCTTTGTATGC
1 GAACCC-CTTTGTATGC
*
110568883 GAACCCCCTTGTATGC
1 GAACCCCTTTGTATGC
* *
110568899 GAGCCCCTTTTGTACGC
1 GAACCCC-TTTGTATGC
* *
110568916 GAACACCCTTGGTATGT
1 GAAC-CCCTTTGTATGC
110568933 GAACCCCTT
1 GAACCCCTT
110568942 ATAGTGAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
16 20 0.41
17 26 0.53
18 3 0.06
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (16 bp):
GAACCCCTTTGTATGC
Found at i:110568911 original size:33 final size:34
Alignment explanation
Indices: 110568869--110568941 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
110568859 TACATGTGAA
* * *
110568869 CCCTCTTTGTATGCGAACCCCCTT-GTATGCGAGC
1 CCCT-TTTGTACGCGAACACCCTTGGTATGCGAAC
*
110568903 CCCTTTTGTACGCGAACACCCTTGGTATGTGAAC
1 CCCTTTTGTACGCGAACACCCTTGGTATGCGAAC
110568937 CCCTT
1 CCCTT
110568942 ATAGTGAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.16, C:0.34, G:0.19, T:0.30
Consensus pattern (34 bp):
CCCTTTTGTACGCGAACACCCTTGGTATGCGAAC
Found at i:110584342 original size:29 final size:29
Alignment explanation
Indices: 110584300--110584372 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
110584290 GTGACAAGAT
110584300 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
110584329 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
110584358 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
110584373 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:110584391 original size:29 final size:29
Alignment explanation
Indices: 110584359--110584431 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
110584349 TGAAAAGTAT
* * *
110584359 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * * *
110584388 GGCACTATGTGTGTGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
110584417 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
110584432 TGATCGATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:110590736 original size:20 final size:21
Alignment explanation
Indices: 110590713--110590754 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
110590703 TATGTATGAG
*
110590713 TTTTGAA-GTTTCTTGATAGA
1 TTTTGAATGCTTCTTGATAGA
*
110590733 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTCTTGATAGA
110590754 T
1 T
110590755 ATATAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (21 bp):
TTTTGAATGCTTCTTGATAGA
Found at i:110591404 original size:29 final size:28
Alignment explanation
Indices: 110591371--110591426 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
110591361 GAGTTATACC
110591371 GATTTGGCTACGGGCCATGCATATCAGTT
1 GATTTGGCTACGGGCCATG-ATATCAGTT
*
110591400 GATTTGGCTTCGGGCCATGATATCAGT
1 GATTTGGCTACGGGCCATGATATCAGT
110591427 ACTTTGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (28 bp):
GATTTGGCTACGGGCCATGATATCAGTT
Found at i:110592193 original size:30 final size:30
Alignment explanation
Indices: 110592158--110592218 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
110592148 AATTGGTATA
110592158 TTTGTGGAATTGAGCATATTAATGCATATT
1 TTTGTGGAATTGAGCATATTAATGCATATT
110592188 TTTGTGGAATTGAGCATATTAATGCATATT
1 TTTGTGGAATTGAGCATATTAATGCATATT
110592218 T
1 T
110592219 GTAAATGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (30 bp):
TTTGTGGAATTGAGCATATTAATGCATATT
Found at i:110592986 original size:16 final size:17
Alignment explanation
Indices: 110592962--110592999 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
110592952 AAATTGATTA
*
110592962 GTATTGATTGA-TAAAT
1 GTATGGATTGATTAAAT
110592978 GTATGGATTGATTAAAT
1 GTATGGATTGATTAAAT
110592995 GTATG
1 GTATG
110593000 TGAAAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (17 bp):
GTATGGATTGATTAAAT
Found at i:110595072 original size:50 final size:50
Alignment explanation
Indices: 110594899--110595130 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 50
110594889 AATTTGAGAC
* * *
110594899 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGT
* * * * *
110594947 AAG-GC-AGTGTAAGACCATGTCTCGGACATGGCATCGGCACATATA-GA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGT
*
110594994 G-GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGT
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGT
* * * * *
110595043 GAGAGCTAGTGCAAGACCATGTCTAGGACATGGCGTCAGCCTCA-AT-T-T
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-AGATATGT
*
110595091 CGATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 -GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGG
110595131 TATTATACCT
Statistics
Matches: 149, Mismatches: 24, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
46 10 0.07
47 17 0.11
48 51 0.34
49 35 0.23
50 34 0.23
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (50 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGT
Found at i:110595116 original size:99 final size:95
Alignment explanation
Indices: 110594906--110595130 Score: 276
Period size: 99 Copynumber: 2.3 Consensus size: 95
110594896 GACGAGAGCT
* * *
110594906 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGGCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGTAAGGCAGTGCAAGACCATGTCT
* *
110594969 CGGACATGGCATCGGCACATATAGAGGTGTC
66 AGGACATGGCATCGCCACATATAGA-GTGTC
* *
110595000 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGAGAGCTAGTGCAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGTAAG-GC-AGTGCAAGACCATGT
* * * *
110595065 CTAGGACATGGCGTCAGCCTCAATTTCGA-TAGTC
64 CTAGGACATGGCATC-GCCAC-ATATAGAGT-GTC
110595099 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
110595131 TATTATACCT
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
94 9 0.08
95 14 0.12
96 17 0.15
97 2 0.02
98 28 0.25
99 38 0.34
100 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGTAAGGCAGTGCAAGACCATGTCT
AGGACATGGCATCGCCACATATAGAGTGTC
Found at i:110605879 original size:39 final size:39
Alignment explanation
Indices: 110605835--110605913 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
110605825 TATGATGATC
110605835 ATATATATAGTTATCACTCTGAGTAATATTATGACTATT
1 ATATATATAGTTATCACTCTGAGTAATATTATGACTATT
110605874 ATATATATAGTTATCACTCTGAGTAATATTATGACTATT
1 ATATATATAGTTATCACTCTGAGTAATATTATGACTATT
110605913 A
1 A
110605914 CATAATAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (39 bp):
ATATATATAGTTATCACTCTGAGTAATATTATGACTATT
Found at i:110605902 original size:21 final size:21
Alignment explanation
Indices: 110605839--110605902 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
110605829 ATGATCATAT
110605839 ATATAGTTATCACTCTGAGT-
1 ATATAGTTATCACTCTGAGTA
* * *
110605859 A-ATA-TTATGACTATTA-TA
1 ATATAGTTATCACTCTGAGTA
110605877 TATATAGTTATCACTCTGAGTA
1 -ATATAGTTATCACTCTGAGTA
110605899 ATAT
1 ATAT
110605903 TATGACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 9 0.27
19 4 0.12
20 4 0.12
21 13 0.39
22 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
ATATAGTTATCACTCTGAGTA
Found at i:110621677 original size:24 final size:24
Alignment explanation
Indices: 110621589--110621678 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 24
110621579 GAGCTGATGG
110621589 ACAGTAAGCT-TTATTGAGCTAAA
1 ACAGTAAGCTCTTATTGAGCTAAA
**
110621612 ATGGTAAGCTC-TATTGAGCTAAA
1 ACAGTAAGCTCTTATTGAGCTAAA
* * *
110621635 ACGGTAAGCTCTGA-CGAGCTAAAA
1 ACAGTAAGCTCTTATTGAGCT-AAA
110621659 ACAGTAAGCTCTTA-TGAGCT
1 ACAGTAAGCTCTTATTGAGCT
110621679 GATATATCAG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 35 0.62
24 21 0.38
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (24 bp):
ACAGTAAGCTCTTATTGAGCTAAA
Found at i:110633664 original size:27 final size:27
Alignment explanation
Indices: 110633620--110633695 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 27
110633610 TACATACATG
110633620 CATATGGCCCACTT-GGCCCATCTC-ATT
1 CATATGGCCCA-TTAGGCCCAT-TCAATT
*
110633647 CATATGGCCCATTAGGCCAAATTCATATT
1 CATATGGCCCATTAGGCC-CATTCA-ATT
*
110633676 CATATGGCCCATTAAGCCCA
1 CATATGGCCCATTAGGCCCA
110633696 AATCACCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.05
27 17 0.40
28 3 0.07
29 20 0.48
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
CATATGGCCCATTAGGCCCATTCAATT
Found at i:110635783 original size:30 final size:30
Alignment explanation
Indices: 110635716--110635784 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
110635706 TTTTAAAAGG
*
110635716 TCACACGCCTATGTGAACATGCCATGTGCC
1 TCACACGGCTATGTGAACATGCCATGTGCC
110635746 TCACACGGCTATGTGAACATGCCATGTGCC
1 TCACACGGCTATGTGAACATGCCATGTGCC
110635776 TCACACGGC
1 TCACACGGC
110635785 CTTAGACACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (30 bp):
TCACACGGCTATGTGAACATGCCATGTGCC
Found at i:110637788 original size:36 final size:36
Alignment explanation
Indices: 110637746--110637819 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
110637736 TTTAACTTGG
110637746 GATAATTTTTTGTTTTTATTGAATAAAGTCTAACTT
1 GATAATTTTTTGTTTTTATTGAATAAAGTCTAACTT
*
110637782 GATAATTTTTTGTTTTTATTGAATAAAGTCTGACTT
1 GATAATTTTTTGTTTTTATTGAATAAAGTCTAACTT
110637818 GA
1 GA
110637820 GGTCAGTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (36 bp):
GATAATTTTTTGTTTTTATTGAATAAAGTCTAACTT
Found at i:110639144 original size:38 final size:39
Alignment explanation
Indices: 110639053--110639146 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 39
110639043 CGGTACCTTT
* *
110639053 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA-ACA
* *
110639093 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
*
110639131 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
110639147 TCGGAGATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 17 0.35
40 32 0.65
ACGTcount: A:0.13, C:0.13, G:0.38, T:0.36
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
Found at i:110645573 original size:20 final size:20
Alignment explanation
Indices: 110645548--110645586 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
110645538 TCCCATATAA
110645548 CCCAAAA-TTTATAGTTTTGT
1 CCCAAAATTTTAT-GTTTTGT
*
110645568 CCCAAAGTTTTATGTTTTG
1 CCCAAAATTTTATGTTTTG
110645587 ATCATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (20 bp):
CCCAAAATTTTATGTTTTGT
Found at i:110647799 original size:37 final size:37
Alignment explanation
Indices: 110647749--110647839 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
110647739 TTATTACGAA
110647749 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
110647786 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
110647823 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
110647840 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:110647954 original size:35 final size:34
Alignment explanation
Indices: 110647876--110647954 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 34
110647866 ACATGTTACA
110647876 ACATTCACATTAGCCATTCGGCTTTACCACACAT
1 ACATTCACATTAGCCATTCGGCTTTACCACACAT
* *
110647910 ATATTTCACATTAGCCATTCGGCTTTACCACATAT
1 ACA-TTCACATTAGCCATTCGGCTTTACCACACAT
110647945 ACATATCACA
1 ACAT-TCACA
110647955 CATATATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 3 0.08
35 37 0.93
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (34 bp):
ACATTCACATTAGCCATTCGGCTTTACCACACAT
Found at i:110647955 original size:48 final size:48
Alignment explanation
Indices: 110647903--110648065 Score: 290
Period size: 48 Copynumber: 3.4 Consensus size: 48
110647893 TCGGCTTTAC
110647903 CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* * *
110647951 CACACATATATTTCACATTGGCCCTTCGGCTTTACCACATATACACAT
1 CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
110647999 CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
110648047 CACACATATGTTTCACATT
1 CACACATATATTTCACATT
110648066 CATCACATCG
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
CACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
Found at i:110648111 original size:49 final size:49
Alignment explanation
Indices: 110648057--110648388 Score: 550
Period size: 47 Copynumber: 6.9 Consensus size: 49
110648047 CACACATATG
110648057 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
* *
110648106 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
110648153 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
110648202 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
* *
110648251 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
110648298 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
110648345 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
110648389 CATCTCCTAC
Statistics
Matches: 269, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 135 0.50
49 134 0.50
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:110648407 original size:145 final size:144
Alignment explanation
Indices: 110648057--110648388 Score: 621
Period size: 145 Copynumber: 2.3 Consensus size: 144
110648047 CACACATATG
*
110648057 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
110648122 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTAT
110648187 CACATATATATACAC
131 CACA-ATATATACAC
110648202 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
110648267 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
110648332 CAC-ATATATACTC
131 CACAATATATACAC
110648345 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
110648389 CATCTCCTAC
Statistics
Matches: 184, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 53 0.29
145 131 0.71
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (144 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACAATATATACAC
Found at i:110663412 original size:28 final size:28
Alignment explanation
Indices: 110663372--110663436 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
110663362 ATGTAGTAGA
*
110663372 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
110663400 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
110663428 ATACCCCTA
1 ATACCCCTA
110663437 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:110663599 original size:27 final size:27
Alignment explanation
Indices: 110663541--110663630 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
110663531 AGGAAGCGTC
*
110663541 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
110663569 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
110663596 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
110663625 CTGGTG
1 CTGGTG
110663631 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:110663641 original size:29 final size:28
Alignment explanation
Indices: 110663551--110663641 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
110663541 CTGGTGGCTA
* * * *
110663551 TGCCACAAATTATCTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
110663579 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
110663606 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
110663635 TGTCACA
1 TGCCACA
110663642 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:110663649 original size:55 final size:56
Alignment explanation
Indices: 110663541--110663655 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
110663531 AGGAAGCGTC
* *
110663541 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
110663596 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGCCACATATATCTGTAT
110663652 CTGG
1 CTGG
110663656 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:110664649 original size:17 final size:19
Alignment explanation
Indices: 110664624--110664673 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
110664614 GTGGAATTAG
*
110664624 TTTACAAAAAAAA-AG-AT
1 TTTAAAAAAAAAACAGTAT
*
110664641 TTTAAAAAAAAAATCAGTTT
1 TTTAAAAAAAAAA-CAGTAT
110664661 TTTAAAAAAAAAA
1 TTTAAAAAAAAAA
110664674 TCTAGACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.43
19 2 0.07
20 14 0.50
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
TTTAAAAAAAAAACAGTAT
Found at i:110664751 original size:11 final size:10
Alignment explanation
Indices: 110664723--110664756 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
110664713 AGCCTGTAAG
110664723 TATTCTGAAT
1 TATTCTGAAT
*
110664733 TTTTCTGAAT
1 TATTCTGAAT
110664743 ATATTCTGAAT
1 -TATTCTGAAT
110664754 TAT
1 TAT
110664757 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:110670939 original size:8 final size:8
Alignment explanation
Indices: 110670926--110670957 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
110670916 CTAGATCGGC
110670926 AAAAGCCG
1 AAAAGCCG
110670934 AAAAGCCG
1 AAAAGCCG
*
110670942 AAATGCCG
1 AAAAGCCG
110670950 AAAAGCCG
1 AAAAGCCG
110670958 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:110671244 original size:28 final size:28
Alignment explanation
Indices: 110671204--110671268 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
110671194 ATGTACTAGA
*
110671204 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
110671232 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
110671260 ATACCCCTA
1 ATACCCCTA
110671269 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:110671432 original size:27 final size:27
Alignment explanation
Indices: 110671374--110671463 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
110671364 AGGAAGCGTC
110671374 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
110671402 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
110671429 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
110671458 CTGGTG
1 CTGGTG
110671464 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:110671482 original size:55 final size:56
Alignment explanation
Indices: 110671374--110671488 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
110671364 AGGAAGCGTC
* *
110671374 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
110671429 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
110671485 CTGG
1 CTGG
110671489 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:110672573 original size:11 final size:10
Alignment explanation
Indices: 110672545--110672578 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
110672535 AGCCTGTAAG
110672545 TATTCTGAAT
1 TATTCTGAAT
*
110672555 TTTTCTGAAT
1 TATTCTGAAT
110672565 ATATTCTGAAT
1 -TATTCTGAAT
110672576 TAT
1 TAT
110672579 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:110677987 original size:13 final size:15
Alignment explanation
Indices: 110677958--110677991 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
110677948 CCATTCTTCC
110677958 TTCTCTTCCTTTCTT
1 TTCTCTTCCTTTCTT
110677973 TTCT-TTCCTTT-TT
1 TTCTCTTCCTTTCTT
110677986 TTCTCT
1 TTCTCT
110677992 CCATATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTCTTCCTTTCTT
Found at i:110679453 original size:37 final size:36
Alignment explanation
Indices: 110679412--110679498 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
110679402 TACGAAGTCT
110679412 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
110679448 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
110679485 TCACCCGGAACATA
1 T-ACCCGG-ACATA
110679499 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:110679636 original size:49 final size:49
Alignment explanation
Indices: 110679567--110679818 Score: 414
Period size: 49 Copynumber: 5.1 Consensus size: 49
110679557 TTTACCACAT
* * *
110679567 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGTCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
110679616 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAG
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
110679665 ATATATTCACACTTTCACATTCATCACATCGGCCAATAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
110679714 ATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
110679763 ATATATACACATTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
110679812 ATATATA
1 ATATATA
110679819 TATCTCATAC
Statistics
Matches: 190, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 190 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:110683131 original size:28 final size:28
Alignment explanation
Indices: 110683091--110683183 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
110683081 ATGTACTAGA
110683091 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
110683119 ATACCCCTATGTATGAAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
110683147 ATACCCCTATGTATGCAAAATAACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
110683175 ATACCCCTA
1 ATACCCCTA
110683184 GGGTTAATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:110683347 original size:27 final size:28
Alignment explanation
Indices: 110683301--110683378 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
110683291 GGTGGCTATG
* *
110683301 CCACAAATTATCTGTTCTGGTGGCCCTA
1 CCACAAAATATCTGTTCTGGTGGCACTA
* *
110683329 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
110683356 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
110683379 ACTCTGTCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.53
28 13 0.30
29 7 0.16
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:110683389 original size:29 final size:28
Alignment explanation
Indices: 110683299--110683389 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
110683289 CTGGTGGCTA
* * *
110683299 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* * *
110683327 TACCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
110683354 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
110683383 TGTCACA
1 TGCCACA
110683390 TTTTCTGCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:110699163 original size:40 final size:39
Alignment explanation
Indices: 110699118--110699323 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
110699108 CGGAATACAA
*
110699118 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
110699158 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
110699198 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
** * *
110699238 CCGGAT-TAGTCACTACA-ATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACA-AA-TGCCTTCGGGTCTTAGC
* * * *
110699277 CCGGAT-TAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
110699316 CCGGATAT
1 CCGGATAT
110699324 CATTCAATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
38 5 0.04
39 51 0.37
40 81 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:110707228 original size:40 final size:39
Alignment explanation
Indices: 110707183--110707388 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
110707173 CGGAATACAA
*
110707183 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
110707223 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
110707263 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
** * *
110707303 CCGGAT-TAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
110707342 CCGGAT-TAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
110707381 CCGGATAT
1 CCGGATAT
110707389 CATTAATTGC
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
38 1 0.01
39 63 0.45
40 77 0.55
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:110707336 original size:39 final size:40
Alignment explanation
Indices: 110707199--110707386 Score: 204
Period size: 39 Copynumber: 4.8 Consensus size: 40
110707189 ATAACCACAT
* * *
110707199 GCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTAG-ACAACTA
* *
110707239 GCACAAATGCCTTCGGGTATTAGCCCGGATTTA-ACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TTAGACAACTA
* *
110707279 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGTC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
* * **
110707318 GCACAATTGCCTTCGGGTCTTAACCCGGATTA-ATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
* * *
110707357 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
110707387 ATCATTAATT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 64 0.50
40 61 0.48
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
Found at i:110712688 original size:13 final size:13
Alignment explanation
Indices: 110712670--110712697 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
110712660 TTTGGGGTAA
110712670 ACGGCCATGGAAC
1 ACGGCCATGGAAC
110712683 ACGGCCATGGAAC
1 ACGGCCATGGAAC
110712696 AC
1 AC
110712698 ACCCGTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.29, T:0.07
Consensus pattern (13 bp):
ACGGCCATGGAAC
Found at i:110712959 original size:55 final size:55
Alignment explanation
Indices: 110712865--110712981 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
110712855 TAGGCCCATG
** * *
110712865 CCGTGTTAATTTAACAGGTTAGACCACAGGTACTTGGCACGGGCGTGTCGCACGC
1 CCGTGTTAATTTAACAGGTTAGACCACAGGTACCAGGCACGAGCGTGTCACACGC
* * * *
110712920 CCGTGTTAATTTGACAGGTTCA-ACCACAGTTTCCAGGCACGAGCGTGTTACACGC
1 CCGTGTTAATTTAACAGGTT-AGACCACAGGTACCAGGCACGAGCGTGTCACACGC
*
110712975 TCGTGTT
1 CCGTGTT
110712982 GTTTTGGCAG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 51 0.98
56 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (55 bp):
CCGTGTTAATTTAACAGGTTAGACCACAGGTACCAGGCACGAGCGTGTCACACGC
Found at i:110717121 original size:29 final size:29
Alignment explanation
Indices: 110717060--110717158 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
110717050 ACAGTAAGTC
110717060 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
110717088 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
110717117 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
110717145 CGCACACTTAGTGC
1 CGCACACTTAGTGC
110717159 CAATCTCATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:110726141 original size:2 final size:2
Alignment explanation
Indices: 110726136--110726167 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
110726126 TGTGAATGAG
*
110726136 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110726168 GGTCAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:110730069 original size:78 final size:78
Alignment explanation
Indices: 110729980--110730242 Score: 242
Period size: 77 Copynumber: 3.4 Consensus size: 78
110729970 AACCCCAAAA
* * * *
110729980 CCCCAAATTCTTTTCCCCAAATCAATTCCCCCTCTTCTCAAAAT-CAAAGTTTTTTTTTCCCAAA
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAATCCAAAG--TTTCTTTCCCAAA
110730044 CCCCTTTCT-TTTTT
64 CCCCTTTCTGTTTTT
* * *
110730058 CCCCAATTTC-TTTCCCCAAATCAATTCTCCCTCTCCCCAAAATCCCTAAGTTTCTTTCCCAGAC
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAAT-CCAAAGTTTCTTTCCCAAAC
110730122 CCCTTTCTGTTTTT
65 CCCTTTCTGTTTTT
* * ***
110730136 -CCCAATTT-TTTT-CCCAAATCAATT-CCCCT-ACCCCAAAATCCCTAA-TTT-TTTTAGAAAT
1 CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAAT-CCAAAGTTTCTTTCCCAAA-
* *
110730194 CCCGTTT-TTTTTTT
64 CCCCTTTCTGTTTTT
** *
110730208 CCTGAATTTCTTTTCCCCAAATCAGTTCTCCCCTC
1 CCCCAATTTCTTTTCCCCAAATCAATTC-CCCCTC
110730243 CCCGATATAT
Statistics
Matches: 156, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
72 11 0.07
73 15 0.10
74 19 0.12
75 15 0.10
76 12 0.08
77 66 0.42
78 14 0.09
79 4 0.03
ACGTcount: A:0.22, C:0.35, G:0.03, T:0.40
Consensus pattern (78 bp):
CCCCAATTTCTTTTCCCCAAATCAATTCCCCCTCTCCCCAAAATCCAAAGTTTCTTTCCCAAACC
CCTTTCTGTTTTT
Found at i:110730882 original size:12 final size:12
Alignment explanation
Indices: 110730865--110730890 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
110730855 ATAATTAAAA
110730865 TATTTTATTTGT
1 TATTTTATTTGT
110730877 TATTTTATTTGT
1 TATTTTATTTGT
110730889 TA
1 TA
110730891 AGGCAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (12 bp):
TATTTTATTTGT
Found at i:110732683 original size:25 final size:24
Alignment explanation
Indices: 110732612--110732683 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
110732602 TTATACTCTC
110732612 TTTTTTTTTAATAATTGA-ATTT-AT
1 TTTTTTTTTAAT--TTGATATTTAAT
* * * *
110732636 ATTTTTTTAAATTTGGTACTTAAT
1 TTTTTTTTTAATTTGATATTTAAT
110732660 TTTTTTTTCTAATTTGATATTTAA
1 TTTTTTTT-TAATTTGATATTTAA
110732684 ATTTATCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 19 0.51
25 12 0.32
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTTTTTTTAATTTGATATTTAAT
Found at i:110736885 original size:43 final size:43
Alignment explanation
Indices: 110736828--110736910 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
110736818 ACATTTTCTA
* *
110736828 AAAAACGCCGCTAAAGAACATAATCTTTAACAGCACTTTTCCT
1 AAAAACGCCACTAAAGAACATAATCTTTAACAACACTTTTCCT
* ** *
110736871 AAAAACGCCACTAAAGATCATGTTCTTTAGCAACACTTTT
1 AAAAACGCCACTAAAGAACATAATCTTTAACAACACTTTT
110736911 ACCACTAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.28
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATAATCTTTAACAACACTTTTCCT
Found at i:110737443 original size:19 final size:20
Alignment explanation
Indices: 110737407--110737446 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
110737397 GGTGGATTTT
110737407 TATTTTATTTAATATTAATA
1 TATTTTATTTAATATTAATA
110737427 TATTTATATTT-AT-TTAATA
1 TATTT-TATTTAATATTAATA
110737446 T
1 T
110737447 TAATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTAATATTAATA
Done.