Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 140 of 211
Found at i:41557011 original size:88 final size:88
Alignment explanation
Indices: 41556862--41557230 Score: 605
Period size: 88 Copynumber: 4.3 Consensus size: 88
41556852 ACTTACATAA
* * *
41556862 TACATAGCATACATAACTTGCATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
*
41556927 TAACCTACATAATATATTTAACT
66 TAACCTACATAATACATTTAACT
41556950 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
41557015 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
*
41557038 TACATAACTTACGTAACTTACATAATACAAAAC-TACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
41557102 TAACCTACATAATAC-----A-T
66 TAACCTACATAATACATTTAACT
41557119 T---TAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
41557181 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
* *
41557204 TATATAACTTATATAACTTACATAATA
1 TACATAACTTACATAACTTACATAATA
41557231 ACTTATACAC
Statistics
Matches: 264, Mismatches: 7, Indels: 20
0.91 0.02 0.07
Matches are distributed among these distances:
78 28 0.11
79 46 0.17
81 2 0.01
82 1 0.00
84 1 0.00
85 2 0.01
87 46 0.17
88 138 0.52
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (88 bp):
TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
TAACCTACATAATACATTTAACT
Found at i:41557149 original size:16 final size:16
Alignment explanation
Indices: 41557125--41557156 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41557115 ACATTTAACT
*
41557125 TACATAACTTACATAA
1 TACAAAACTTACATAA
41557141 TACAAAACTTACATAA
1 TACAAAACTTACATAA
41557157 CTTAAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
TACAAAACTTACATAA
Found at i:41557181 original size:166 final size:172
Alignment explanation
Indices: 41556862--41557230 Score: 597
Period size: 166 Copynumber: 2.2 Consensus size: 172
41556852 ACTTACATAA
* * *
41556862 TACATAGCATACATAACTTGCATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
41556927 TAACCTACATAATATATTTAACTTACATAACTTACATAACTTACATAATACAAAACTTACATAAC
66 TAACCTACATAATATA--TAACTT--ATAACTTACATAACTTACATAATACAAAACTTACATAAC
41556992 TTAAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
127 TTAAATATCTTACACAACTTACATAACCTACATAATACATTTAACT
*
41557038 TACATAACTTACGTAACTTACATAATACAAAAC-TACATAACTTAAATATCTTACACAACTTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
*
41557102 TAACCTACAT-A-ATA-CA-TT-TAACTTACATAACTTACATAATACAAAACTTACATAACTTAA
66 TAACCTACATAATATATAACTTATAACTTACATAACTTACATAATACAAAACTTACATAACTTAA
41557162 ATATCTTACACAACTTACATAACCTACATAATACATTTAACT
131 ATATCTTACACAACTTACATAACCTACATAATACATTTAACT
* *
41557204 TATATAACTTATATAACTTACATAATA
1 TACATAACTTACATAACTTACATAATA
41557231 ACTTATACAC
Statistics
Matches: 185, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
166 108 0.58
169 2 0.01
170 1 0.01
173 3 0.02
174 1 0.01
175 41 0.22
176 29 0.16
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (172 bp):
TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACA
TAACCTACATAATATATAACTTATAACTTACATAACTTACATAATACAAAACTTACATAACTTAA
ATATCTTACACAACTTACATAACCTACATAATACATTTAACT
Found at i:41562725 original size:21 final size:21
Alignment explanation
Indices: 41562699--41562769 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
41562689 CTACAACTTA
* *
41562699 AAGCAGAGGCGGCAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
41562720 AAGCAGCA-GTTGCAGCGAGGG
1 AAGCAG-AGGCTGCAGCGAGGG
* *
41562741 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
41562762 AAGCAGAG
1 AAGCAGAG
41562770 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.44, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:41563255 original size:84 final size:84
Alignment explanation
Indices: 41563082--41563327 Score: 318
Period size: 84 Copynumber: 2.9 Consensus size: 84
41563072 GCGTTTTTGT
* * * *
41563082 ATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-AGAAAAAACGCCGCTAAAGACCAT
1 ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAATGCCGCTAAAGACCAT
* *
41563146 GTTCTTTAGTGGTGCTTAG
66 GTTCTTTAGAGGCGCTTAG
* *
41563165 AAAAAAACGCCGTTAAAG-TCCATGTTCTTTAGCGGCGCTTAATAAAAAATGCCGCTAAAGACCT
1 ATAAAAACGCCGTTAAAGAT-CATGTTCTTTAGCGGCGCTTAATAAAAAATGCCGCTAAAGACCA
41563229 TGTTCTTTAGAGGCGCTTAG
65 TGTTCTTTAGAGGCGCTTAG
* * ** * *
41563249 ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGTTTATTATTAAGTGCCGCTAAAGAACAT
1 ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAATGCCGCTAAAGACCAT
*
41563314 GGTT-TTTAGCGGCG
66 -GTTCTTTAGAGGCG
41563328 TTTTTGTTTG
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
82 1 0.01
83 35 0.25
84 102 0.72
85 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (84 bp):
ATAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTAATAAAAAATGCCGCTAAAGACCAT
GTTCTTTAGAGGCGCTTAG
Found at i:41563309 original size:42 final size:41
Alignment explanation
Indices: 41563084--41563285 Score: 262
Period size: 42 Copynumber: 4.9 Consensus size: 41
41563074 GTTTTTGTAT
*
41563084 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA
* * *
41563125 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGTGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-A
* *
41563167 AAAAACGCCGTTAAAG-TCCATGTTCTTTAGCGGCGCTTAATA
1 AAAAACGCCGCTAAAGAT-CATGTTCTTTAGCGGCGCTT-AGA
* * * *
41563209 AAAAATGCCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA
*
41563250 TAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCG
1 -AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
41563286 TTTATTATTA
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
41 38 0.28
42 97 0.71
43 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA
Found at i:41563322 original size:126 final size:125
Alignment explanation
Indices: 41563084--41563327 Score: 292
Period size: 126 Copynumber: 1.9 Consensus size: 125
41563074 GTTTTTGTAT
* *
41563084 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGAAAAAACGCCGCTAAAGACCATGTT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGACGCTTAGAAAAAACGCCGCTAAAGACCATGTT
* * * **
41563149 CTTTAGTGGTGCTTAGAAAAAAACGCCGTTAAAGTCCATGTTCTTTAGCGGCGCTTAATA
66 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAATA
* * * * *
41563209 AAAAATGCCGCTAAAGACCTTGTTCTTTAGAGGCGCTTAGATAAAAACGCCGTTAAAGATCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGACGCTTAGA-AAAAACGCCGCTAAAGACCATGT
* ** ** **
41563274 TCTTTAGCGGCGTTTATTATTAAGTGCCGCTAAAGAACATGGTT-TTTAGCGGCG
65 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT-GTTCTTTAGCGGCG
41563328 TTTTTGTTTG
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
125 36 0.37
126 59 0.60
127 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (125 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGAGACGCTTAGAAAAAACGCCGCTAAAGACCATGTT
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAATA
Found at i:41571264 original size:390 final size:391
Alignment explanation
Indices: 41570557--41571314 Score: 1022
Period size: 390 Copynumber: 1.9 Consensus size: 391
41570547 AGCATCCCTG
* * *
41570557 GGACTCTCACTCGATCTTGCTATTTCTTTGACTTTTCCCTTGACGATCGACCTTTTGTAAGATAA
1 GGACTCTCACTCGATCTTGCTATTCCTTTGACTTTGCCCTTGACGATCGACCTTTTGTAAGACAA
* * * * * * * *
41570622 TTTGAGTTGGTCGCTTAGTTTACGGATGATGGAGGCCCCCGTGGATGGTTGTGCGAGCACGAACA
66 TCTGAGTCGATCGCTCAGTTTACGAATGAAGGAGGCCCCCGTGGATGGTTGTACGAGCACAAACA
* * * *
41570687 TATCTTATAGATCATCGTGATAGGGCTCAAAGTTGTCATCCTTCGTAGCCTCGTCATCATCCTCC
131 CATCTTATAGATAATCGTGATAGGGCTCAAAGTCGTCATCCTTCGTAGCCTCATCATCATCCTCC
* * ** *
41570752 TCTCCTGCTTCATATTCTTTCTATTCCTCCTAGGATACGTTTTCCTCAGATGAATCACTCAATTT
196 TCTCCTACTTCATATTCTTTCTATTCCTCCTAGGATACATTGCCCTCAGATAAATCACTCAATTT
*
41570817 GTCAGGCCATTGTATGCTTTCTGCCTCCTGACTCGCCATAAATGTGTCACACCCCAACATC-AGC
261 GTCAGGCCATTGTATGCTTTCTGCCCCCTGACTCGCCATAAATGTGTCACACCCCAACATCGA-C
*
41570881 GGATCCGA-GAAAAAGGGTAACTAGGCATG-ATGTTACCTGTTTTAACTTTTCCCTTGAGCATCT
325 GGATCCGAGGAAAAA-GGTAACTAGGCATGCATGTTACATGTTTTAACTTTTCCCTTGAGCATCT
41570944 CCA
389 CCA
* * *
41570947 GGACTCTCACTTGATCTTGTTATTCCTTTGACTTTGCCCTTGACGATCGACCTTTTGTAAGACAG
1 GGACTCTCACTCGATCTTGCTATTCCTTTGACTTTGCCCTTGACGATCGACCTTTTGTAAGACAA
*
41571012 TCTGAGTCGATCGCTCAGTTTACGAATGACAGG-GGCCCCCGTGGATGGTTGTACGAGCGCAAAC
66 TCTGAGTCGATCGCTCAGTTTACGAATGA-AGGAGGCCCCCGTGGATGGTTGTACGAGCACAAAC
* ** * *
41571076 ACATCTTATATATAATCGTGATAGGGCTTGAAGTCGTC-TTCTTCCGTAGCCTCATCATCGTCCT
130 ACATCTTATAGATAATCGTGATAGGGCTCAAAGTCGTCATCCTT-CGTAGCCTCATCATCATCCT
* * ** * * * * * **
41571140 TCTCTCTTACTTTGTCTTCTTTCTGTTCCTCCTTGGCTATATTGCCCTCAGATAAATCACTTGAT
194 CCTCTCCTACTTCATATTCTTTCTATTCCTCCTAGGATACATTGCCCTCAGATAAATCACTCAAT
* * *
41571205 TTTTTAGGTCATTGTATGCTTTCTGCCCCCTGACTCGCCATAAATGTGTCACACCCCAACATCGA
259 TTGTCAGGCCATTGTATGCTTTCTGCCCCCTGACTCGCCATAAATGTGTCACACCCCAACATCGA
* *
41571270 TGGATCTGAGGAAAAAGGTAACTAGGCATGCATGTTACATGTTTT
324 CGGATCCGAGGAAAAAGGTAACTAGGCATGCATGTTACATGTTTT
41571315 GGTGCATAAT
Statistics
Matches: 316, Mismatches: 47, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
389 4 0.01
390 290 0.92
391 22 0.07
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (391 bp):
GGACTCTCACTCGATCTTGCTATTCCTTTGACTTTGCCCTTGACGATCGACCTTTTGTAAGACAA
TCTGAGTCGATCGCTCAGTTTACGAATGAAGGAGGCCCCCGTGGATGGTTGTACGAGCACAAACA
CATCTTATAGATAATCGTGATAGGGCTCAAAGTCGTCATCCTTCGTAGCCTCATCATCATCCTCC
TCTCCTACTTCATATTCTTTCTATTCCTCCTAGGATACATTGCCCTCAGATAAATCACTCAATTT
GTCAGGCCATTGTATGCTTTCTGCCCCCTGACTCGCCATAAATGTGTCACACCCCAACATCGACG
GATCCGAGGAAAAAGGTAACTAGGCATGCATGTTACATGTTTTAACTTTTCCCTTGAGCATCTCC
A
Found at i:41577995 original size:18 final size:19
Alignment explanation
Indices: 41577974--41578011 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
41577964 TAAGAACACT
* *
41577974 TGCAAAGAACAAG-AAAAA
1 TGCAAAAAAAAAGTAAAAA
41577992 TGCAAAAAAAAAGTAAAAA
1 TGCAAAAAAAAAGTAAAAA
41578011 T
1 T
41578012 AGACCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.68, C:0.08, G:0.13, T:0.11
Consensus pattern (19 bp):
TGCAAAAAAAAAGTAAAAA
Found at i:41582207 original size:25 final size:26
Alignment explanation
Indices: 41582179--41582227 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
41582169 CAACAAAACT
*
41582179 AAAATCTAACCTAAAAA-GAAAAGGG
1 AAAATCTAAACTAAAAATGAAAAGGG
41582204 AAAATCTAAACTAAAAATGAAAAG
1 AAAATCTAAACTAAAAATGAAAAG
41582228 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.63, C:0.10, G:0.12, T:0.14
Consensus pattern (26 bp):
AAAATCTAAACTAAAAATGAAAAGGG
Found at i:41584309 original size:13 final size:13
Alignment explanation
Indices: 41584293--41584346 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
41584283 TTTAAACCAA
41584293 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
41584306 ACTTCTTAAAAAGT
1 ACTT-TTCAAAAGC
* *
41584320 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
41584333 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
41584346 A
1 A
41584347 ACGAAGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 21 0.66
14 11 0.34
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:41584323 original size:27 final size:26
Alignment explanation
Indices: 41584293--41584344 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
41584283 TTTAAACCAA
41584293 ACTTTTCAAAAGCACTTCTTAAAAAGT
1 ACTTTTCAAAAGCACTT-TTAAAAAGT
* * *
41584320 ACTTTTCCACAGCACTTTTCAAAAG
1 ACTTTTCAAAAGCACTTTTAAAAAG
41584345 CAACGAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTTTAAAAAGT
Found at i:41595111 original size:27 final size:27
Alignment explanation
Indices: 41595081--41595177 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
41595071 ATCAACGCAC
*
41595081 AGCAACCCCTTGGGGGAATCAGCACTT
1 AGCAACCCCTCGGGGGAATCAGCACTT
*
41595108 AGCAACCACCAAATGGGTCGAGGAATCAGCACTT
1 AGCAACC-CC---TCGG--G-GGAATCAGCACTT
41595142 AGCAACCCCTCGGGGGAATCAGCACTT
1 AGCAACCCCTCGGGGGAATCAGCACTT
41595169 AGCAACCCC
1 AGCAACCCC
41595178 CTTTCACATT
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
27 29 0.48
28 3 0.05
30 3 0.05
31 3 0.05
33 3 0.05
34 20 0.33
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (27 bp):
AGCAACCCCTCGGGGGAATCAGCACTT
Found at i:41595146 original size:61 final size:60
Alignment explanation
Indices: 41595043--41595175 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 60
41595033 GGTGGATTCC
* *
41595043 GCACTTAGC-ACCACCAATGAATCGGGGAATCAACGCACAGCAACCCCTTGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGAGGAATCAACGCACAGCAACCCCTCGGGGGAATCA
**
41595102 GCACTTAGCAACCACCAAATGGGTCGAGGAATC-A-GCACTTAGCAACCCCTCGGGGGAATCA
1 GCACTTAGCAACCACC-AATGAATCGAGGAATCAACGCAC--AGCAACCCCTCGGGGGAATCA
41595163 GCACTTAGCAACC
1 GCACTTAGCAACC
41595176 CCCTTTCACA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
59 13 0.20
60 7 0.11
61 46 0.70
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.14
Consensus pattern (60 bp):
GCACTTAGCAACCACCAATGAATCGAGGAATCAACGCACAGCAACCCCTCGGGGGAATCA
Found at i:41595241 original size:33 final size:33
Alignment explanation
Indices: 41595199--41595354 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 33
41595189 AAAATACGGT
*
41595199 GGAATCAGCACTTACCAACCACCAATAGGTAGG
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGG
*
41595232 GGAATCAGCACTTAGCAACC-CC--T-CG--GG
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGG
* **
41595259 GGAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA---CC-ACCA-A--T-AGGTA-GG
*
41595301 TGGAACCAGCACTTAGCAACCACCAATAGGTAGG
1 -GGAATCAGCACTTAGCAACCACCAATAGGTAGG
41595335 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
41595355 CCTTTATATG
Statistics
Matches: 98, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
27 20 0.20
29 1 0.01
30 3 0.03
32 4 0.04
33 38 0.39
34 2 0.02
35 3 0.03
36 1 0.01
37 1 0.01
38 1 0.01
39 3 0.03
40 2 0.02
42 2 0.02
43 17 0.17
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATAGGTAGG
Found at i:41595275 original size:103 final size:103
Alignment explanation
Indices: 41595095--41595357 Score: 463
Period size: 103 Copynumber: 2.5 Consensus size: 103
41595085 ACCCCTTGGG
* * *
41595095 GGAATCAGCACTTAGCAACCACCAAATGGGTCGAGGAATCAGCACTTAGCAACCCCTCGGGGGAA
1 GGAATCAGCACTTAGCAACCACC-AATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
*
41595160 TCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
65 TCAGCACTTAGCAACCCCCTTCCACATTTAAAATACGGT
*
41595199 GGAATCAGCACTTACCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
41595264 CAGCACTTAGCAACCCCCTTCCACATTTAAAATACGGT
66 CAGCACTTAGCAACCCCCTTCCACATTTAAAATACGGT
*
41595302 GGAACCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCT
41595358 TTATATGCAA
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 130 0.86
104 22 0.14
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAAT
CAGCACTTAGCAACCCCCTTCCACATTTAAAATACGGT
Found at i:41595725 original size:30 final size:30
Alignment explanation
Indices: 41595691--41595748 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
41595681 CCACCCAACT
*
41595691 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATAACAATTTTGCCCCCAAAC
* * * *
41595721 TTTTGCATAATAACATTTTTGTCCCCAA
1 TTTTGAAAAATAACAATTTTGCCCCCAA
41595749 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATAACAATTTTGCCCCCAAAC
Found at i:41599394 original size:23 final size:22
Alignment explanation
Indices: 41599351--41599393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41599341 ATGATGATTG
41599351 ATATGATGAGATTGATATTTTC
1 ATATGATGAGATTGATATTTTC
*
41599373 ATATGTATGTGATT-ATATTTT
1 ATATG-ATGAGATTGATATTTT
41599394 TTTTATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (22 bp):
ATATGATGAGATTGATATTTTC
Found at i:41617070 original size:18 final size:17
Alignment explanation
Indices: 41617037--41617078 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
41617027 GTGTGAATCC
*
41617037 AAACTAATATATTAATT
1 AAACTAATAAATTAATT
41617054 AAACTAATTAAATTAATT
1 AAACTAA-TAAATTAATT
*
41617072 AACCTAA
1 AAACTAA
41617079 CTAACCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
AAACTAATAAATTAATT
Found at i:41621635 original size:39 final size:39
Alignment explanation
Indices: 41621380--41621632 Score: 364
Period size: 39 Copynumber: 6.5 Consensus size: 39
41621370 CATGTTTTTA
41621380 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * * *
41621419 AGAATTGT-AGTATATGCTTGCATTTTATATGATTATATG
1 AGTATTGTGA-TATATGCTTGAATGTTATGTGATTATATG
41621458 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
** *
41621497 AGTATTACGATATATTCTTGAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * * *
41621536 AGTATTGCGATATGTGCTTGAACGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
*
41621575 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* *
41621614 TGTAATGTGATATATGCTT
1 AGTATTGTGATATATGCTT
41621633 AAAAGTGAAC
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
38 1 0.01
39 187 0.99
40 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.45
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
Found at i:41638861 original size:45 final size:47
Alignment explanation
Indices: 41638775--41638863 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 47
41638765 TGAGCCATGT
* *
41638775 AACAGGAAGCTTATCCGGGCTATAACAGGAAACTCATAAGAGTTTAA
1 AACAGGAAGCTTATCCGAGCTATAACAGGAAACTCAGAAGAGTTTAA
* * *
41638822 AACAGGAAGCTTAT-TGAGCT-TAACAGGTAACTCCGAAGAGTT
1 AACAGGAAGCTTATCCGAGCTATAACAGGAAACTCAGAAGAGTT
41638864 ATTATTAGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 19 0.51
46 4 0.11
47 14 0.38
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (47 bp):
AACAGGAAGCTTATCCGAGCTATAACAGGAAACTCAGAAGAGTTTAA
Found at i:41641052 original size:55 final size:55
Alignment explanation
Indices: 41640973--41641151 Score: 205
Period size: 56 Copynumber: 3.2 Consensus size: 55
41640963 GCGCACTCTT
* * *
41640973 ATGAATTGCCCTTGTGGTGAATTCTAAAAAGAGTAGCCTTTGTGGCAAACTCTTGA
1 ATGAATAG-CCTTGTGGTGAATTCTAAAAAGAGTAGCCTTTGTGGAAAAATCTTGA
* *
41641029 ATGATTAGCCTTGTGGTGAATTCTGAAAAAAAGTAGCCTTTGTGGAAAAATCTTGA
1 ATGAATAGCCTTGTGGTGAATTCT-AAAAAGAGTAGCCTTTGTGGAAAAATCTTGA
* * * * * * ** *
41641085 ATGAATGGCCTTGTGGTGAATTTTGAAAAGAGTAACTTTTATGGAAATTTGTTGA
1 ATGAATAGCCTTGTGGTGAATTCTAAAAAGAGTAGCCTTTGTGGAAAAATCTTGA
*
41641140 ATGAATGGCCTT
1 ATGAATAGCCTT
41641152 TTGGCGATAA
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
55 51 0.48
56 55 0.52
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (55 bp):
ATGAATAGCCTTGTGGTGAATTCTAAAAAGAGTAGCCTTTGTGGAAAAATCTTGA
Found at i:41641065 original size:28 final size:29
Alignment explanation
Indices: 41640984--41641073 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
41640974 TGAATTGCCC
41640984 TTGTGGTGAATTCT-AAAAAGAGTAGCCT
1 TTGTGGTGAATTCTGAAAAAGAGTAGCCT
** * * *
41641012 TTGTGGCAAACTCTTG--AATGATTAGCC-
1 TTGTGGTGAATTC-TGAAAAAGAGTAGCCT
*
41641039 TTGTGGTGAATTCTGAAAAAAAGTAGCCT
1 TTGTGGTGAATTCTGAAAAAGAGTAGCCT
41641068 TTGTGG
1 TTGTGG
41641074 AAAAATCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
26 2 0.04
27 10 0.22
28 27 0.59
29 7 0.15
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
TTGTGGTGAATTCTGAAAAAGAGTAGCCT
Found at i:41642785 original size:23 final size:23
Alignment explanation
Indices: 41642759--41642814 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
41642749 GCAGTGCTAG
* *
41642759 TAATAGAAGTATCGAAGTACTAA
1 TAATAGAAGTACCAAAGTACTAA
* * *
41642782 TAATAAAATTACCAAAGTACTAG
1 TAATAGAAGTACCAAAGTACTAA
*
41642805 TAATTGAAGT
1 TAATAGAAGT
41642815 CCCCTGTGGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (23 bp):
TAATAGAAGTACCAAAGTACTAA
Found at i:41643317 original size:17 final size:17
Alignment explanation
Indices: 41643292--41643325 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41643282 TCAATTTTCA
*
41643292 ATTTTCATATTATGGCT
1 ATTTCCATATTATGGCT
41643309 ATTTCCATATTATGGCT
1 ATTTCCATATTATGGCT
41643326 TATATAGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (17 bp):
ATTTCCATATTATGGCT
Found at i:41648964 original size:9 final size:9
Alignment explanation
Indices: 41648950--41648993 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
41648940 ATTATGCCTA
41648950 ACCAAATTG
1 ACCAAATTG
*
41648959 ACCAAATTT
1 ACCAAATTG
**
41648968 ATAAAATTG
1 ACCAAATTG
41648977 ACCAAATTG
1 ACCAAATTG
41648986 ACCAAATT
1 ACCAAATT
41648994 TATATAAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (9 bp):
ACCAAATTG
Found at i:41661483 original size:41 final size:41
Alignment explanation
Indices: 41661438--41661586 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
41661428 ACCTCAGTGC
*
41661438 ATCATCGGATAAACCAAAGTAAATATACTAGCACATAGTAT
1 ATCATCGAATAAACCAAAGTAAATATACTAGCACATAGTAT
* *
41661479 ATCATCGAATAAA-CAGAAATAAATATACTAGCACATAGTGT
1 ATCATCGAATAAACCA-AAGTAAATATACTAGCACATAGTAT
* * * *
41661520 ATCATCGAATAAACCGAAGTAAATATATTGGCACATAGTAC
1 ATCATCGAATAAACCAAAGTAAATATACTAGCACATAGTAT
** **
41661561 ATCATCGGTTTCACCAAAGTAAATAT
1 ATCATCGAATAAACCAAAGTAAATAT
41661587 GATGGCATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
40 2 0.02
41 89 0.97
42 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (41 bp):
ATCATCGAATAAACCAAAGTAAATATACTAGCACATAGTAT
Found at i:41661614 original size:82 final size:81
Alignment explanation
Indices: 41661435--41661622 Score: 191
Period size: 82 Copynumber: 2.3 Consensus size: 81
41661425 GGCACCTCAG
* *
41661435 TGCATCATCGGATAAACCAAAGTAAATATACTAGCACATAGTATATCATCGAATAAACAGAAATA
1 TGCATCATC-GATAAACCGAAGTAAATATACTAGCACATAGTACATCATCGAATAAACAGAAATA
* *
41661500 AATATACTAGCACATAG
65 AATATACTAGCACAAAA
* * * ** * * *
41661517 TGTATCATCGAATAAACCGAAGTAAATATATTGGCACATAGTACATCATCGGTTTCACCA-AAGT
1 TGCATCATCG-ATAAACCGAAGTAAATATACTAGCACATAGTACATCATC-GAATAAACAGAAAT
* *
41661581 AAATATGA-TGGCATAAAA
64 AAATAT-ACTAGCACAAAA
41661599 TGCATCATCAGATAAACCGAAGTA
1 TGCATCATC-GATAAACCGAAGTA
41661623 TAAACTCGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
81 1 0.01
82 79 0.91
83 7 0.08
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (81 bp):
TGCATCATCGATAAACCGAAGTAAATATACTAGCACATAGTACATCATCGAATAAACAGAAATAA
ATATACTAGCACAAAA
Found at i:41661622 original size:41 final size:40
Alignment explanation
Indices: 41661437--41661622 Score: 113
Period size: 41 Copynumber: 4.5 Consensus size: 40
41661427 CACCTCAGTG
* * * * *
41661437 CATCATCGGATAAACCAAAGTAAATATACTAGCACATAGTA
1 CATCATC-GATAAACCGAAGTAAATATATTGGCACAAAATA
* * * * * * * *
41661478 TATCATCGAATAAACAGAAATAAATATACTAGCACATAGTG
1 CATCATCG-ATAAACCGAAGTAAATATATTGGCACAAAATA
* * *
41661519 TATCATCGAATAAACCGAAGTAAATATATTGGCACATAGTA
1 CATCATCG-ATAAACCGAAGTAAATATATTGGCACAAAATA
* ** * * *
41661560 CATCATCGGTTTCACCAAAGTAAATATGA-TGGCATAAAATG
1 CATCATC-GATAAACCGAAGTAAATAT-ATTGGCACAAAATA
41661601 CATCATCAGATAAACCGAAGTA
1 CATCATC-GATAAACCGAAGTA
41661623 TAAACTCGTA
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 115 0.97
42 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (40 bp):
CATCATCGATAAACCGAAGTAAATATATTGGCACAAAATA
Found at i:41674110 original size:309 final size:309
Alignment explanation
Indices: 41673551--41674172 Score: 1190
Period size: 309 Copynumber: 2.0 Consensus size: 309
41673541 CACCCCAATG
41673551 AATTTTCAGAGAATCGTCTTAAACTTATCCCATGCTTGCCCCAAAGTCTCTATTGGATCTTGCTT
1 AATTTTCAGAGAATCGTCTTAAACTTATCCCATGCTTGCCCCAAAGTCTCTATTGGATCTTGCTT
41673616 GAAATCAAACAATTCCTAGGCATGGAGGACTGCCGTCATTGGTATGTTTCGGCTCAAGAATAGTT
66 GAAATCAAACAATTCCTAGGCATGGAGGACTGCCGTCATTGGTATGTTTCGGCTCAAGAATAGTT
41673681 ACACAAATTCATCCCAAGTAGTGAAGGCTTCCAACCACACATTGGCTTCACCTCCAAGAACAAAA
131 ACACAAATTCATCCCAAGTAGTGAAGGCTTCCAACCACACATTGGCTTCACCTCCAAGAACAAAA
41673746 GGGGTTAATAATAAATTGATCACTTCATTTGACACCCTCGAATAAGCAATTGTGTTGTATAAACG
196 GGGGTTAATAATAAATTGATCACTTCATTTGACACCCTCGAATAAGCAATTGTGTTGTATAAACG
*
41673811 TTTGAATTGTTGAAGGAACATTATTGGATGCAATACTTCGCTGTTACAA
261 TTTGAATTGTTGAAGGAACATTATTGGATGCAATACTTCGCAGTTACAA
41673860 AATTTTCAGAGAATCGTCTTAAACTTATCCCATGCTTGCCCCAAAGTCTCTATTGGATCTTGCTT
1 AATTTTCAGAGAATCGTCTTAAACTTATCCCATGCTTGCCCCAAAGTCTCTATTGGATCTTGCTT
*
41673925 GAAATCAAACAATTCCTAGGTATGGAGGACTGCCGTCATTGGTATGTTTCGGCTCAAGAATAGTT
66 GAAATCAAACAATTCCTAGGCATGGAGGACTGCCGTCATTGGTATGTTTCGGCTCAAGAATAGTT
* **
41673990 ACACAAATTCATCCCAAGTAGTGAAGGCTTCCAACCACACCTTGGCTTCACCTTTAAGAACAAAA
131 ACACAAATTCATCCCAAGTAGTGAAGGCTTCCAACCACACATTGGCTTCACCTCCAAGAACAAAA
*
41674055 GGGGTTAATAATAAATTGATCACTTCATTTGACACCTTCGAATAAGCAATTGTGTTGTATAAACG
196 GGGGTTAATAATAAATTGATCACTTCATTTGACACCCTCGAATAAGCAATTGTGTTGTATAAACG
41674120 TTTGAATTGTTGAAGGAACATTATTGGATGCAATACTTCGCAGTTACAA
261 TTTGAATTGTTGAAGGAACATTATTGGATGCAATACTTCGCAGTTACAA
41674169 AATT
1 AATT
41674173 GAAGTGTAAT
Statistics
Matches: 307, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
309 307 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (309 bp):
AATTTTCAGAGAATCGTCTTAAACTTATCCCATGCTTGCCCCAAAGTCTCTATTGGATCTTGCTT
GAAATCAAACAATTCCTAGGCATGGAGGACTGCCGTCATTGGTATGTTTCGGCTCAAGAATAGTT
ACACAAATTCATCCCAAGTAGTGAAGGCTTCCAACCACACATTGGCTTCACCTCCAAGAACAAAA
GGGGTTAATAATAAATTGATCACTTCATTTGACACCCTCGAATAAGCAATTGTGTTGTATAAACG
TTTGAATTGTTGAAGGAACATTATTGGATGCAATACTTCGCAGTTACAA
Found at i:41679628 original size:30 final size:30
Alignment explanation
Indices: 41679585--41679849 Score: 428
Period size: 30 Copynumber: 8.9 Consensus size: 30
41679575 TTATTTATTT
*
41679585 CCGAATTGA-TTGTATATGGGTATACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
41679614 CCGAATTGATTTGTATATGGATATACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
* *
41679644 CCGAATTGATTTGTATATGGATATACGTTA
1 CCGAATTGATTTGTATATGGATATACATTG
* *
41679674 CCGAATTGATTTGTATATAGATATACGTTG
1 CCGAATTGATTTGTATATGGATATACATTG
41679704 CCGAATTGATTTGTATATGGATATACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
41679734 CCGAATTGATTTGTATATGGATATACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
* *
41679764 CCAAATTGACTTGTATATGGATATACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
* *
41679794 CCGAATTGATTTGTATATAGATAGACATTG
1 CCGAATTGATTTGTATATGGATATACATTG
41679824 CCGAATTGATTTGTATAT-G-TATACAT
1 CCGAATTGATTTGTATATGGATATACAT
41679850 ATATATTGCC
Statistics
Matches: 221, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
28 6 0.03
29 10 0.05
30 205 0.93
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (30 bp):
CCGAATTGATTTGTATATGGATATACATTG
Found at i:41686872 original size:10 final size:10
Alignment explanation
Indices: 41686857--41686904 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
41686847 GAAAAAAGTG
41686857 AGAAAGAAAA
1 AGAAAGAAAA
41686867 AGAAAGAAAA
1 AGAAAGAAAA
41686877 CCAGAAA-AAAA
1 --AGAAAGAAAA
41686888 AGGAAAGAAAGA
1 A-GAAAGAAA-A
41686900 AGAAA
1 AGAAA
41686905 AAATGAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 14 0.42
11 11 0.33
12 7 0.21
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:41686906 original size:22 final size:21
Alignment explanation
Indices: 41686857--41686907 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
41686847 GAAAAAAGTG
*
41686857 AGAAAGAAAAAGAAAGAAAACC
1 AGAAAAAAAAAGAAAGAAAA-C
*
41686879 AGAAAAAAAAGGAAAGAAAGA-
1 AGAAAAAAAAAGAAAGAAA-AC
41686900 AGAAAAAA
1 AGAAAAAA
41686908 TGAGTAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 17 0.65
23 1 0.04
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAGAAAAC
Found at i:41698379 original size:138 final size:138
Alignment explanation
Indices: 41698167--41698857 Score: 924
Period size: 138 Copynumber: 5.1 Consensus size: 138
41698157 TAGAAAAACG
41698167 AATTATA-TACTTTCCAAAAGAATATTAATTTT-A--TCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTA-TTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
* * *
41698228 ATATAACTATTTATATTAATAAATTTGATAAAATATATACAATTAATAATATGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
41698293 TCATATATT
130 TCATATATT
* * * *
41698302 AATTATATTATTTCCATAAGAATATTAATTTTCATGTGTTTTATATTTTGATCAAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
** * *
41698367 TATAGTTTTTTATATTAATAAA-TTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTTGA-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
41698431 TCATATATT
130 TCATATATT
* * *
41698440 AATTATATCATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTTA
1 AATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
41698505 TGTAACTGTATATATTAATAAATTCGGTAAAATAT-TGACAATTAATATTTTGTTTGAATCAAAT
66 TATAACTGTTTATATTAATAAATTTGATAAAATATAT-ACAATTAATATTTTGTATGAATCAAAT
41698569 TCATATATT
130 TCATATATT
* * * *
41698578 AATTATATTCTTTTCAAAAGAATATTAATTTTCATATCTTTTATATTATGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
41698643 TATAACCGTTCATATTAATAAATTTTG-CAAAATATATAAAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAA-TTTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
41698707 TCATATATT
130 TCATATATT
* * *
41698716 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCTAAATCAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * * *
41698781 TATAATTGTTTATA-T--T---TTCGGTAAAATATATACAGTTAATATTTTATATTAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
41698840 CATATATT
131 CATATATT
41698848 AATTAT-TTAT
1 AATTATATTAT
41698858 ATATCTATAT
Statistics
Matches: 490, Mismatches: 56, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
131 6 0.01
132 47 0.10
135 29 0.06
136 3 0.01
137 5 0.01
138 395 0.81
139 5 0.01
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:41705582 original size:40 final size:39
Alignment explanation
Indices: 41705530--41705713 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
41705520 TAACTCATTC
*
41705530 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
41705570 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
41705610 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
41705650 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
41705691 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41705714 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 99 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:41705592 original size:79 final size:80
Alignment explanation
Indices: 41705493--41705713 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
41705483 CTCGTTCAAG
* * ** * *
41705493 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
41705556 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
41705572 TGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
41705637 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
41705652 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
41705714 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.01
79 36 0.31
80 73 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:41705673 original size:80 final size:80
Alignment explanation
Indices: 41705533--41705713 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
41705523 CTCATTCAAT
* * *
41705533 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
41705597 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
41705612 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
41705675 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
41705693 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
41705714 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:41709034 original size:138 final size:138
Alignment explanation
Indices: 41708480--41709016 Score: 734
Period size: 138 Copynumber: 3.9 Consensus size: 138
41708470 AAGAAACTAT
* ** *
41708480 ATTCTTTCCAAAAGAATATTAATTTCCACGCCTTTTATATTTTGACAAAAATTAATTAATATAAT
1 ATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAAC
* * * * * * *
41708545 TATTTATGTTATTAAATTCGGTAAAATGTATACAATTATTATTTTTTATGAATCAAATTCATATA
66 TGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATATA
*
41708610 TTAATTAT
131 TTAATTAC
* * * * **
41708618 ATTCTTTCCAAAAGAATACTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAAGCTAAC
1 ATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAAC
* * *
41708683 AGTTTATATTAATAAATTCGGTAAAAATATATATAATTAATATTTTGCATGAATCAAATTCATAT
66 TGTTTATATTAATAAATTCGGT-AAAATATATAAAATTAATATTTTGTATGAATCAAATTCATAT
*
41708748 ATTAATTAT
130 ATTAATTAC
* * * * * *
41708757 TTTCTTTGC-AAAGAATAATAATTTTCACGTCTTTTATATTTTGACCGAAATTAATTAATGTAAT
1 ATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAAC
* *
41708821 TGTTTATATTAATAAATTTGGTAAAATATATAAAATTAATATTTTGTATTAATCAAATTCATATA
66 TGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATATA
41708886 TTAATTAC
131 TTAATTAC
* ** *
41708894 ATTCTTTCCAAAAGAATATTAATTCCCATTTCTTTTAAATTTTGACCGAAATTAATTAATATAAC
1 ATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAAC
* *
41708959 TGTTTATATTAATAAATTCAGTAAAACATATAAAATTAATATTTTGTATGAATCAAAT
66 TGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAAT
41709017 AGAGAACATA
Statistics
Matches: 350, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
137 54 0.15
138 243 0.69
139 53 0.15
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (138 bp):
ATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTATATTTTGACCGAAATTAATTAATATAAC
TGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAATTCATATA
TTAATTAC
Found at i:41717326 original size:10 final size:10
Alignment explanation
Indices: 41717311--41717341 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
41717301 ATTAATTTTT
41717311 ATATTATATA
1 ATATTATATA
41717321 ATATTATATA
1 ATATTATATA
*
41717331 ATATAATATA
1 ATATTATATA
41717341 A
1 A
41717342 AAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATTATATA
Found at i:41717327 original size:15 final size:15
Alignment explanation
Indices: 41717295--41717339 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
41717285 TTTTATTTAA
*
41717295 TATATAAT-TAATTTT
1 TATATAATATAA-TAT
*
41717310 TATATTATATAATAT
1 TATATAATATAATAT
41717325 TATATAATATAATAT
1 TATATAATATAATAT
41717340 AAAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 23 0.88
16 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATAATATAATAT
Found at i:41717764 original size:31 final size:33
Alignment explanation
Indices: 41717714--41717774 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
41717704 TAAAAGAGAC
*
41717714 AAAAAAAAACTTGATTAGTTGAGAGACTAATTG
1 AAAAAAAAAATTGATTAGTTGAGAGACTAATTG
*
41717747 AAAAAAAAAATT-A-TAGTTGAGTGACTAA
1 AAAAAAAAAATTGATTAGTTGAGAGACTAA
41717775 AAGAGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 14 0.54
32 1 0.04
33 11 0.42
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.26
Consensus pattern (33 bp):
AAAAAAAAAATTGATTAGTTGAGAGACTAATTG
Found at i:41720879 original size:21 final size:21
Alignment explanation
Indices: 41720853--41720893 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41720843 AATTATTTCC
41720853 TTTATTT-AGTGTTATTTTATT
1 TTTATTTGA-TGTTATTTTATT
*
41720874 TTTATTTGATTTTATTTTAT
1 TTTATTTGATGTTATTTTAT
41720894 AGTTTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTATTTGATGTTATTTTATT
Found at i:41730552 original size:29 final size:29
Alignment explanation
Indices: 41730515--41730742 Score: 144
Period size: 29 Copynumber: 7.8 Consensus size: 29
41730505 CAATGGTTGT
*
41730515 AACCGTCCCTTTTCATATTCGATGGTCGA
1 AACCATCCCTTTTCATATTCGATGGTCGA
* * *
41730544 AACCATCCCTTTTCATTAATCAATGGTTC-T
1 AACCATCCCTTTTCA-TATTCGATGG-TCGA
*
41730574 CACCATCCCTTTTCATAGTT-GATGGTC-A
1 AACCATCCCTTTTCATA-TTCGATGGTCGA
* * *
41730602 TCACCATCCCTTTTCATTAATCGATAGTCGA
1 -AACCATCCCTTTTCA-TATTCGATGGTCGA
* * ** *
41730633 AGCTATCATTTTTCATATTCGATAGTCGA
1 AACCATCCCTTTTCATATTCGATGGTCGA
** * * *
41730662 TGCTATCCCTTTTCACACTT-GATGGTCGT
1 AACCATCCCTTTTCATA-TTCGATGGTCGA
* *
41730691 CACCATCCCTTTTCATAGTT-GATGATC-A
1 AACCATCCCTTTTCATA-TTCGATGGTCGA
* *
41730719 TTACCATCCCTTTTCATAATCGAT
1 -AACCATCCCTTTTCATATTCGAT
41730743 AGCCGAAGCT
Statistics
Matches: 158, Mismatches: 31, Indels: 20
0.76 0.15 0.10
Matches are distributed among these distances:
28 3 0.02
29 109 0.69
30 43 0.27
31 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (29 bp):
AACCATCCCTTTTCATATTCGATGGTCGA
Found at i:41730598 original size:59 final size:57
Alignment explanation
Indices: 41730505--41730739 Score: 172
Period size: 59 Copynumber: 4.0 Consensus size: 57
41730495 GTGTGCTAAA
* * *
41730505 CAATGGTTGTAACCGTCCCTTTTCATATTCGATGGTCGA-AACCATCCCTTTTCATTAAT
1 CAATGG-TCTAACCATCCCTTTTCATATTCGATGGTC-ATTACCATCCCTTTTCA-TAAT
* *
41730564 CAATGGTTCTCACCATCCCTTTTCATAGTT-GATGGTCATCACCATCCCTTTTCATTAAT
1 CAATGG-TCTAACCATCCCTTTTCATA-TTCGATGGTCATTACCATCCCTTTTCA-TAAT
* * * * ** * * * * *
41730623 CGATAGTCGAAGCTATCATTTTTCATATTCGATAGTCGA-TGCTATCCCTTTTCACACT
1 CAATGGTCTAA-CCATCCCTTTTCATATTCGATGGTC-ATTACCATCCCTTTTCATAAT
** * *
41730681 TGATGGTCGTCACCATCCCTTTTCATAGTT-GATGATCATTACCATCCCTTTTCATAAT
1 CAATGGTC-TAACCATCCCTTTTCATA-TTCGATGGTCATTACCATCCCTTTTCATAAT
41730739 C
1 C
41730740 GATAGCCGAA
Statistics
Matches: 137, Mismatches: 31, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
57 1 0.01
58 46 0.34
59 87 0.64
60 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (57 bp):
CAATGGTCTAACCATCCCTTTTCATATTCGATGGTCATTACCATCCCTTTTCATAAT
Found at i:41730731 original size:117 final size:116
Alignment explanation
Indices: 41730524--41730761 Score: 336
Period size: 117 Copynumber: 2.0 Consensus size: 116
41730514 TAACCGTCCC
* *
41730524 TTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCAATGGTTCTCACCATCCCTTTTCA
1 TTTTCATATTCGATAGTCGAAACCATCCCTTTTCATCAATCAATGGTTCTCACCATCCCTTTTCA
* *
41730589 TAGTTGATGGTCATCACCATCCCTTTTCATTAATCGATAGTCGAAGCTATCAT
66 TAGTTGATGATCATCACCATCCCTTTTCA-TAATCGATAGCCGAAGCTATC-T
** * * **
41730642 TTTTCATATTCGATAGTCGATGCTATCCCTTTTCA-CACTTGATGG-TCGTCACCATCCCTTTTC
1 TTTTCATATTCGATAGTCGAAACCATCCCTTTTCATCAATCAATGGTTC-TCACCATCCCTTTTC
*
41730705 ATAGTTGATGATCATTACCATCCCTTTTCATAATCGATAGCCGAAGCTATCT
65 ATAGTTGATGATCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCT
41730757 TTTTC
1 TTTTC
41730762 CATTGGTCGA
Statistics
Matches: 108, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
115 6 0.06
116 22 0.20
117 49 0.45
118 31 0.29
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (116 bp):
TTTTCATATTCGATAGTCGAAACCATCCCTTTTCATCAATCAATGGTTCTCACCATCCCTTTTCA
TAGTTGATGATCATCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCT
Found at i:41751138 original size:19 final size:18
Alignment explanation
Indices: 41751107--41751144 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
41751097 TATTTATTTG
41751107 TATTTTTTCTCTT-TTTT
1 TATTTTTTCTCTTCTTTT
41751124 TATTTTTTCCTTCTTCTTTT
1 TATTTTTT-C-TCTTCTTTT
41751144 T
1 T
41751145 CTAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 4 0.22
20 5 0.28
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TATTTTTTCTCTTCTTTT
Found at i:41753312 original size:43 final size:43
Alignment explanation
Indices: 41753264--41753348 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
41753254 CTTCTCTACG
41753264 GTGGAGGACACGGACTTGTCATAGCCCATGTGTGGTTCGTCCC
1 GTGGAGGACACGGACTTGTCATAGCCCATGTGTGGTTCGTCCC
41753307 GTGGAGGACACGGACTTGTCATAGCCCATGTGTGGTTCGTCC
1 GTGGAGGACACGGACTTGTCATAGCCCATGTGTGGTTCGTCC
41753349 TTGAATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.16, C:0.25, G:0.33, T:0.26
Consensus pattern (43 bp):
GTGGAGGACACGGACTTGTCATAGCCCATGTGTGGTTCGTCCC
Found at i:41760580 original size:66 final size:66
Alignment explanation
Indices: 41760474--41760606 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
41760464 CTTAAAAATG
41760474 TAAAAAACACTCAAATCGGAAGTCAAAAACCTACCATGCAATGAAGACAACCTAGTTGAATCAAG
1 TAAAAAACACTCAAATCGGAAGTCAAAAACCTACCATGCAATGAAGACAACCTAGTTGAATCAAG
41760539 C
66 C
41760540 TAAAAAACACTCAAATCGGAAGTCAAAAACCTACCATGCAATGAAGACAACCTAGTTGAATCAAG
1 TAAAAAACACTCAAATCGGAAGTCAAAAACCTACCATGCAATGAAGACAACCTAGTTGAATCAAG
41760605 C
66 C
41760606 T
1 T
41760607 CATTCAATAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.17
Consensus pattern (66 bp):
TAAAAAACACTCAAATCGGAAGTCAAAAACCTACCATGCAATGAAGACAACCTAGTTGAATCAAG
C
Found at i:41766077 original size:32 final size:34
Alignment explanation
Indices: 41766003--41766077 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 34
41765993 CCACTACATA
*
41766003 ATATGGTAATATAGTGTATAATTATTACTAAAAG
1 ATATGGTAATATAGTGTATAATTAGTACTAAAAG
41766037 ATAT--TAATATA-T-TATAGATT-GTACTAAAAG
1 ATATGGTAATATAGTGTATA-ATTAGTACTAAAAG
41766067 ATATGGTAATA
1 ATATGGTAATA
41766078 CCACATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
30 17 0.46
31 4 0.11
32 12 0.32
34 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (34 bp):
ATATGGTAATATAGTGTATAATTAGTACTAAAAG
Found at i:41766232 original size:58 final size:57
Alignment explanation
Indices: 41766127--41766236 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 57
41766117 TTTGATATAA
* * * *
41766127 TATTACAAATTATAATAATATATATTATGTATTCTTAGTATAGCATATGATATAGTAT
1 TATTACAAATTATAATAATATATATTATATATTATTAATAAAGCATAT-ATATAGTAT
* *
41766185 TATTACATAA-TATAATAATATATTTTATAT-TTATTAATACAATCATATATAT
1 TATTACA-AATTATAATAATATATATTATATATTATTAATA-AAGCATATATAT
41766237 GACATTAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
57 11 0.25
58 31 0.70
59 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (57 bp):
TATTACAAATTATAATAATATATATTATATATTATTAATAAAGCATATATATAGTAT
Found at i:41766810 original size:21 final size:21
Alignment explanation
Indices: 41766771--41766810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
41766761 AACTCTTAAT
* * *
41766771 ATATTATATTATATGATATGG
1 ATATAATATTACATAATATGG
41766792 ATATAATATTACATAATAT
1 ATATAATATTACATAATAT
41766811 AATATAACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATAATATTACATAATATGG
Found at i:41766812 original size:15 final size:17
Alignment explanation
Indices: 41766792--41766829 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
41766782 TATGATATGG
*
41766792 ATATAATATTAC-A-TA
1 ATATAATATAACAATTA
41766807 ATATAATATAACAATTA
1 ATATAATATAACAATTA
41766824 ATATAA
1 ATATAA
41766830 CTTTTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 1 0.05
17 8 0.40
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAATATAACAATTA
Found at i:41768206 original size:15 final size:15
Alignment explanation
Indices: 41768167--41768206 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
41768157 GAATTATTAC
* *
41768167 ATTTAAAATTAAAAT
1 ATTTAAATTTAAAAA
41768182 ATTTATAATTTAAAAA
1 ATTTA-AATTTAAAAA
41768198 ATTTAAATT
1 ATTTAAATT
41768207 ATTTGAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAATTTAAAAA
Found at i:41780293 original size:4 final size:5
Alignment explanation
Indices: 41780268--41780296 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
41780258 AGAAGAGAAT
41780268 GGGAA GGGAA GGGAA GGGAA -GGAA GGGAA
1 GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA
41780297 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:41784696 original size:9 final size:9
Alignment explanation
Indices: 41784683--41784759 Score: 73
Period size: 9 Copynumber: 8.6 Consensus size: 9
41784673 TTTGGTTAAA
*
41784683 AATTAACCA
1 AATTAACCG
*
41784692 AATTACCCG
1 AATTAACCG
*
41784701 AATTAATCG
1 AATTAACCG
*
41784710 AATTACCCG
1 AATTAACCG
41784719 AATTAACCG
1 AATTAACCG
*
41784728 ACTTAACCG
1 AATTAACCG
**
41784737 AATTCCCCG
1 AATTAACCG
**
41784746 AATTGCCCG
1 AATTAACCG
41784755 AATTA
1 AATTA
41784760 TATGTTTTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:41784706 original size:18 final size:18
Alignment explanation
Indices: 41784683--41784759 Score: 91
Period size: 18 Copynumber: 4.3 Consensus size: 18
41784673 TTTGGTTAAA
*
41784683 AATTAACCAAATTACCCG
1 AATTAACCGAATTACCCG
*
41784701 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCG
* *
41784719 AATTAACCGACTTAACCG
1 AATTAACCGAATTACCCG
** *
41784737 AATTCCCCGAATTGCCCG
1 AATTAACCGAATTACCCG
41784755 AATTA
1 AATTA
41784760 TATGTTTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:41784722 original size:27 final size:27
Alignment explanation
Indices: 41784683--41784759 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
41784673 TTTGGTTAAA
* * *
41784683 AATTAACCAAATTACCCGAATTAATCG
1 AATTACCCGAATTACCCGAATTAACCG
* *
41784710 AATTACCCGAATTAACCGACTTAACCG
1 AATTACCCGAATTACCCGAATTAACCG
* *
41784737 AATTCCCCGAATTGCCCGAATTA
1 AATTACCCGAATTACCCGAATTA
41784760 TATGTTTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (27 bp):
AATTACCCGAATTACCCGAATTAACCG
Found at i:41789515 original size:24 final size:24
Alignment explanation
Indices: 41789456--41789519 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
41789446 AAATTTGTAT
* * *
41789456 TTTATTTATATTTATTGATTATAA
1 TTTATTTATATTTATTAAATAAAA
41789480 TTAATATTTAT-TTT-TTAAATAAAA
1 TT--TATTTATATTTATTAAATAAAA
41789504 TTTATTTATATTTATT
1 TTTATTTATATTTATT
41789520 GTAAAACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 7 0.21
23 3 0.09
24 13 0.39
25 3 0.09
26 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTATTTATATTTATTAAATAAAA
Found at i:41791692 original size:16 final size:16
Alignment explanation
Indices: 41791648--41791693 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
41791638 ATATTAATTG
41791648 AATTAAATTAAGTTTTT
1 AATTAAATTAA-TTTTT
*
41791665 AATTTTAA-TAATTTTT
1 AA-TTAAATTAATTTTT
41791681 AATTAAATTAATT
1 AATTAAATTAATT
41791694 GAATCGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 12 0.48
17 5 0.20
18 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AATTAAATTAATTTTT
Found at i:41792416 original size:23 final size:22
Alignment explanation
Indices: 41792376--41792418 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
41792366 TTTAATAAAT
41792376 ATATTTATATTATATTATTTTA
1 ATATTTATATTATATTATTTTA
* *
41792398 ATATTTAATATTTTTTTATTT
1 ATATTT-ATATTATATTATTT
41792419 ATCAAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATATTTATATTATATTATTTTA
Found at i:41803995 original size:26 final size:27
Alignment explanation
Indices: 41803966--41804025 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
41803956 TTTACCCTAG
*
41803966 TAAAATTTTTGACAATTTT-ACCCCGA
1 TAAAATTTTTGACAATTTTGACCCCAA
*
41803992 TAAAA-TTTTGACAATTTTGCCCCCAA
1 TAAAATTTTTGACAATTTTGACCCCAA
41804018 TAAAATTT
1 TAAAATTT
41804026 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 13 0.43
26 15 0.50
27 2 0.07
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (27 bp):
TAAAATTTTTGACAATTTTGACCCCAA
Found at i:41806985 original size:23 final size:26
Alignment explanation
Indices: 41806952--41807002 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
41806942 ATAGTAATAA
*
41806952 GACAACA-TTTTAAAAA-TAATATAT
1 GACAACATTTTTAAAAACAAATATAT
41806976 GACAA-ATTTTTAAAAACAAATATAT
1 GACAACATTTTTAAAAACAAATATAT
41807001 GA
1 GA
41807003 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.58
25 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (26 bp):
GACAACATTTTTAAAAACAAATATAT
Found at i:41809266 original size:33 final size:33
Alignment explanation
Indices: 41809189--41809254 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
41809179 CAAACTCAAC
41809189 ATAAAATAAAATAGTAAGTTCTATATAAACTTA
1 ATAAAATAAAATAGTAAGTTCTATATAAACTTA
41809222 ATAAAATAAAATAGTAAGTTCTATATAAACTTA
1 ATAAAATAAAATAGTAAGTTCTATATAAACTTA
41809255 CTTATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (33 bp):
ATAAAATAAAATAGTAAGTTCTATATAAACTTA
Found at i:41811735 original size:18 final size:17
Alignment explanation
Indices: 41811700--41811761 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
41811690 AAAAAACTAC
**
41811700 ATATATTTTGATTTTTTT
1 ATATATTTTGA-AATTTT
41811718 ATATATTTTGAAAGTTTT
1 ATATATTTTGAAA-TTTT
*
41811736 -TATATTTTTAAATTTT
1 ATATATTTTGAAATTTT
41811752 ATTATATTTT
1 A-TATATTTT
41811762 ATTATTTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.11
17 11 0.29
18 23 0.61
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
ATATATTTTGAAATTTT
Found at i:41811741 original size:17 final size:17
Alignment explanation
Indices: 41811714--41811761 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
41811704 ATTTTGATTT
41811714 TTTTATATATTTTGAAAG
1 TTTT-TATATTTTGAAAG
* *
41811732 TTTTTATATTTTTAAAT
1 TTTTTATATTTTGAAAG
41811749 TTTATTATATTTT
1 TTT-TTATATTTT
41811762 ATTATTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTTGAAAG
Found at i:41819299 original size:7 final size:7
Alignment explanation
Indices: 41819289--41819328 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
41819279 TTATATAATG
41819289 ATATCTC
1 ATATCTC
41819296 ATATCTC
1 ATATCTC
41819303 ATATCTC
1 ATATCTC
*
41819310 ATATTTC
1 ATATCTC
41819317 ATATCTC
1 ATATCTC
41819324 ATATC
1 ATATC
41819329 ATATATCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATCTC
Found at i:41819341 original size:14 final size:14
Alignment explanation
Indices: 41819289--41819341 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
41819279 TTATATAATG
*
41819289 ATATCTCATATCTC
1 ATATCTCATATATC
*
41819303 ATATCTCATATTTC
1 ATATCTCATATATC
41819317 ATATCTC--ATATC
1 ATATCTCATATATC
*
41819329 ATATATCATATAT
1 ATATCTCATATAT
41819342 TAATTGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.29
14 24 0.71
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATCTCATATATC
Found at i:41819727 original size:30 final size:32
Alignment explanation
Indices: 41819693--41819756 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
41819683 TAGATAAAGA
41819693 ATTTTGT-AATTAAAATTAAATAATAAAA-AT
1 ATTTTGTAAATTAAAATTAAATAATAAAATAT
* * *
41819723 ATTTTTTAAATTAAAATTTAATTATAAAATAT
1 ATTTTGTAAATTAAAATTAAATAATAAAATAT
41819755 AT
1 AT
41819757 AAAATATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 19 0.66
32 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (32 bp):
ATTTTGTAAATTAAAATTAAATAATAAAATAT
Found at i:41819773 original size:22 final size:22
Alignment explanation
Indices: 41819734--41819778 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
41819724 TTTTTTAAAT
*
41819734 TAAAATTTAATTATAAAATATA
1 TAAAATTCAATTATAAAATATA
41819756 TAAAATATCAATTA-AAAATATA
1 TAAAAT-TCAATTATAAAATATA
41819778 T
1 T
41819779 TTTTAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAATTCAATTATAAAATATA
Found at i:41826724 original size:21 final size:21
Alignment explanation
Indices: 41826672--41826770 Score: 132
Period size: 21 Copynumber: 4.7 Consensus size: 21
41826662 AAATTAAATC
* *
41826672 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATATATCATA
41826692 TCTTCCAAGATTGCATATATCATA
1 TC-T--AAGATTGCATATATCATA
41826716 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
41826737 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
41826756 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
41826771 CCTTGAAGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
19 19 0.27
20 2 0.03
21 32 0.45
23 9 0.13
24 9 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:41826752 original size:40 final size:43
Alignment explanation
Indices: 41826672--41826770 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 43
41826662 AAATTAAATC
* *
41826672 TCTAAGATTACA-AAATCATATCTTCCAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATATCTT-CAAGATTGCA-ATATCATA
41826716 TCTAAGATTGCATATATCATATC-T-AAGATTGC-ATATCATA
1 TCTAAGATTGCATATATCATATCTTCAAGATTGCAATATCATA
41826756 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
41826771 CCTTGAAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
40 23 0.44
42 8 0.15
44 12 0.23
45 9 0.17
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (43 bp):
TCTAAGATTGCATATATCATATCTTCAAGATTGCAATATCATA
Found at i:41827194 original size:44 final size:43
Alignment explanation
Indices: 41827144--41827560 Score: 362
Period size: 44 Copynumber: 9.5 Consensus size: 43
41827134 ACCAGTATGG
* * *
41827144 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-GCCAATACAT
* *
41827188 AAAGACAAGATCTGCTTTCTTCT-ATCTACTTC-GCCAATACAT
1 GAAGACAAGATCTGCTATCTT-TGATCTACTTCAGCCAATACAT
* * * * *
41827230 GAAGACAAGATCTACTTTCTTCGATCTACTTC-GCCACTAGTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAGCCAATA-CAT
41827273 GGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCA-GCCAATACAT
* * ***
41827319 GAAGACAAGAT-TCGCTTTCTTCGATCTACTTC-GCCACCAGTATGG
1 GAAGACAAGATCT-GCTATCTTTGATCTACTTCAGCCA--A-TACAT
* *
41827364 GAAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-GCCAATACAT
*
41827408 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-GCCAATACAT
* * * **
41827452 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGACAACCCAGT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-GCCAATACA-T
* * * * * * *
41827497 G-AGGCAAG-GCTGGTATCTTTGATCTGCTTCACTGTCGATACAG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA--GCCAATACAT
*
41827540 GAAGGCAAGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
41827561 CAACCTGCTC
Statistics
Matches: 308, Mismatches: 47, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
42 47 0.15
43 22 0.07
44 153 0.50
45 73 0.24
46 3 0.01
47 10 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCAGCCAATACAT
Found at i:41827338 original size:89 final size:89
Alignment explanation
Indices: 41827189--41827486 Score: 421
Period size: 89 Copynumber: 3.4 Consensus size: 89
41827179 CCGATACATA
* * *
41827189 AAGACAAGATCTGCTTTCTTCTATCTACTT--CGCCAATACATGAAGACAAGATCTACTTTCTTC
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
41827252 GATCTACTTCGCCACTAGTATGGG
66 GATCTACTTCGCCACTAGTATGGG
*
41827276 AAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT-TCGCTTTCTT
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-GCTTTCTT
*
41827340 CGATCTACTTCGCCACCAGTATGGG
65 CGATCTACTTCGCCACTAGTATGGG
*
41827365 AAGACAAGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTATCTT
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTT
* * *
41827429 TGATCTACTTCACGCCAATA-CAT--G
65 CGATCTACTT--CGCCACTAGTATGGG
*
41827453 AAGACAAGATCTGCTTTCTTCGATCTACTTCACG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACG
41827487 ACAACCCAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
87 27 0.14
88 36 0.19
89 119 0.62
90 3 0.02
91 6 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (89 bp):
AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
GATCTACTTCGCCACTAGTATGGG
Found at i:41827350 original size:131 final size:133
Alignment explanation
Indices: 41827114--41827483 Score: 518
Period size: 131 Copynumber: 2.8 Consensus size: 133
41827104 ATATGACTTG
* * * *
41827114 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACCTTTGATCTATTTCATG
1 TATCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
* * * * *
41827179 CCGATACATAAAGACAAGATCTGCTTTCTTCTATCTACTTCGCCA-A-TACATGAAGACAAGATC
66 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACAGTACAGGAAGACAAGATA
41827242 TAC
131 TAC
*
41827245 TTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
1 TATCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
**
41827310 CCAATACATGAAGACAAGAT-TCGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
66 CCAATACATGAAGACAAGATCT-GCTTTCTTCGATCTACTTCGCCA-CAGTACAGGAAGACAAGA
*
41827374 TATGC
129 TATAC
* * *
41827379 TATCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGTTATCTTTGATCTACTTCA
1 TATCTTCGATCTACTT--CGCCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA
41827441 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
64 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
41827484 ACGACAACCC
Statistics
Matches: 215, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
130 1 0.00
131 100 0.47
133 74 0.34
134 31 0.14
135 2 0.01
136 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (133 bp):
TATCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACG
CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACAGTACAGGAAGACAAGATA
TAC
Found at i:41827538 original size:88 final size:88
Alignment explanation
Indices: 41827423--41828474 Score: 1478
Period size: 88 Copynumber: 12.0 Consensus size: 88
41827413 CAAGATCTGT
* * * * * * * * * * * *
41827423 TATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41827487 ACAACCCAGTGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* *
41827510 TATCTTTGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCATT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
41827575 ACAACCCAGGGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * *
41827598 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTACTATCTTCAACATGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* * *
41827663 ACGACCTAAGGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* *
41827686 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCATT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41827751 ACAACCTAGGGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * * *
41827774 TATCTTCGATCTGCTTCGCTGTCGATACATGAAGACAAGATCTTCTATCTTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41827839 ACAACCCAGGGAGGCAAGGTTGG
66 ACAACCCAGGGAGGCAAGGCTGG
*
41827862 TATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* ** *
41827927 ATAA-ATAGGGAGGCAAGGTTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * *
41827949 TATCTTCGATCTGCTTCGCTGTCGATGCAGAAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41828014 ACGACCCAGGGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * * *
41828037 TATCTTCGATCTGCTTCACTGTTGGTACAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCATT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* **
41828102 ACGACCCAGGGAGATAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * * **
41828125 TATCTTCGATCTGCTTCGCTATTGATGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* *
41828190 ATAACCCAGGGAGGTAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * * *
41828213 TATCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTAAACCTGATCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
* *
41828278 ACAACCCAAGGAGGTAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * * * *
41828301 TATCTTCGACCTGCTTCGCTGTCGATGCAGGAAGGCAAGGTCTGCTATATTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41828366 ACAACCCAAGGAGGCAAGGCTGG
66 ACAACCCAGGGAGGCAAGGCTGG
* * *
41828389 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTGCTATCTTCAACCTGCTCCACT
1 TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
*
41828454 ACAACCCAGGGAGACAAGGCT
66 ACAACCCAGGGAGGCAAGGCT
41828475 TTGTGATTTC
Statistics
Matches: 870, Mismatches: 93, Indels: 3
0.90 0.10 0.00
Matches are distributed among these distances:
87 97 0.11
88 773 0.89
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (88 bp):
TATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
ACAACCCAGGGAGGCAAGGCTGG
Found at i:41828125 original size:527 final size:527
Alignment explanation
Indices: 41827457--41828454 Score: 1546
Period size: 527 Copynumber: 1.9 Consensus size: 527
41827447 TACATGAAGA
* * * * * *
41827457 CAAGATCTGCTTTCTTCGATCTACTTCACGACAACCCAGTGAGGCAAGGCTGGTATCTTTGATCT
1 CAAGATCTGCTATCTTCAACCTACTCCACGACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
*
41827522 GCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCATTACAACCCAGGGA
66 GCTTCACTGTCGATACAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCATTACAACCCAGGGA
* * *
41827587 GGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTACTATCTTCAA
131 GACAAGGCTGGTATCTTCGATCTGCTTCACTATCGATACAGGAAGGCAAGATCTACTATCTTCAA
* * *
41827652 CATGCTCCACTACGACCTAAGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGG
196 CATGCTCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
* * * * *
41827717 AAGGCAAGATCTGCTATCTTCAACCTGCTCCATTACAACCTAGGGAGGCAAGGCTGGTATCTTCG
261 AAGGCAAGATCTGCTATCTTAAACCTGATCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCG
* * * *
41827782 ATCTGCTTCGCTGTCGATACATGAAGACAAGATCTTCTATCTTCAACCTGCTCCACTACAACCCA
326 ACCTGCTTCGCTGTCGATACAGGAAGACAAGATCTGCTATATTCAACCTGCTCCACTACAACCCA
* * *
41827847 GGGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCT
391 AGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCT
41827912 TCAACCTGCTCCACTATAAATAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGC
456 TCAACCTGCTCCACTATAAATAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGC
41827977 AGAAAGG
521 AGAAAGG
* * *
41827984 CAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTCAACCTACTCCACGACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * *
41828049 GCTTCACTGTTGGTACAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCATTACGACCCAGGGA
66 GCTTCACTGTCGATACAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCATTACAACCCAGGGA
* * * ** *
41828114 GATAAGGCTGGTATCTTCGATCTGCTTCGCTATTGATGTAGGAAGGCAAGATCTGCTATCTTCAA
131 GACAAGGCTGGTATCTTCGATCTGCTTCACTATCGATACAGGAAGGCAAGATCTACTATCTTCAA
* * * * * *
41828179 CCTGCTCCACTATAACCCAGGGAGGTAAGGCTGGTATCTTTGATCTGCTTCACTGTCGATGCAGG
196 CATGCTCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
*
41828244 AAGGCAAGATCTGCTATCTTAAACCTGATCCACTACAACCCAAGGAGGTAAGGCTGGTATCTTCG
261 AAGGCAAGATCTGCTATCTTAAACCTGATCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCG
* * *
41828309 ACCTGCTTCGCTGTCGATGCAGGAAGGCAAGGTCTGCTATATTCAACCTGCTCCACTACAACCCA
326 ACCTGCTTCGCTGTCGATACAGGAAGACAAGATCTGCTATATTCAACCTGCTCCACTACAACCCA
* * *
41828374 AGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATCTGCTATCT
391 AGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCT
41828439 TCAACCTGCTCCACTA
456 TCAACCTGCTCCACTA
41828455 CAACCCAGGG
Statistics
Matches: 421, Mismatches: 50, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
527 421 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (527 bp):
CAAGATCTGCTATCTTCAACCTACTCCACGACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
GCTTCACTGTCGATACAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCATTACAACCCAGGGA
GACAAGGCTGGTATCTTCGATCTGCTTCACTATCGATACAGGAAGGCAAGATCTACTATCTTCAA
CATGCTCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
AAGGCAAGATCTGCTATCTTAAACCTGATCCACTACAACCCAAGGAGGCAAGGCTGGTATCTTCG
ACCTGCTTCGCTGTCGATACAGGAAGACAAGATCTGCTATATTCAACCTGCTCCACTACAACCCA
AGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGGAAGGCAAGATCTGCTATCT
TCAACCTGCTCCACTATAAATAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGC
AGAAAGG
Found at i:41835361 original size:21 final size:19
Alignment explanation
Indices: 41835327--41835398 Score: 110
Period size: 19 Copynumber: 3.7 Consensus size: 19
41835317 CATATCTTCC
41835327 AAGATTGCATATCATAT-T
1 AAGATTGCATATCATATCT
41835345 CAAGATTGCATATATCATATCT
1 -AAGATTGC--ATATCATATCT
41835367 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
41835386 AAGATTGCATATC
1 AAGATTGCATATC
41835399 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
19 32 0.64
21 17 0.34
22 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:41837243 original size:13 final size:13
Alignment explanation
Indices: 41837225--41837299 Score: 105
Period size: 13 Copynumber: 5.8 Consensus size: 13
41837215 TTCTTCATTA
41837225 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
41837238 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
* * *
41837251 TTTTTCAAAAGTG
1 CTTTTGAGAAGTG
*
41837264 TTTTTGAGAAGTG
1 CTTTTGAGAAGTG
*
41837277 CTTTTTAGAAGTG
1 CTTTTGAGAAGTG
41837290 CTTTTGAGAA
1 CTTTTGAGAA
41837300 ATTTGAGTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:41842365 original size:18 final size:19
Alignment explanation
Indices: 41842326--41842366 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41842316 AAAAATTACA
*
41842326 AAAATTCAAAATAATTTCT
1 AAAATTCAAAATAATTTAT
*
41842345 AAAATTTAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
41842363 AAAA
1 AAAA
41842367 AAATTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:41842367 original size:19 final size:20
Alignment explanation
Indices: 41842325--41842377 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
41842315 CAAAAATTAC
*
41842325 AAAAATTCAAAATAATTTCT
1 AAAAATTCAAAATAATTTAT
*
41842345 -AAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
41842363 AAAAAAATTCAAAAT
1 --AAAAATTCAAAAT
41842378 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
21 11 0.41
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:41842402 original size:10 final size:10
Alignment explanation
Indices: 41842389--41842448 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
41842379 TAATTTTTTT
41842389 TAAAAAATTA
1 TAAAAAATTA
41842399 TAAAAAATTA
1 TAAAAAATTA
*
41842409 -AAAAAATTC
1 TAAAAAATTA
41842418 TAAAAAATATA
1 TAAAAAAT-TA
*
41842429 TAAAGAAAGT-
1 TAAA-AAATTA
41842439 TAAAAAATTA
1 TAAAAAATTA
41842449 AAATTTTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
9 12 0.29
10 21 0.50
11 6 0.14
12 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:41842412 original size:19 final size:18
Alignment explanation
Indices: 41842390--41842451 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 18
41842380 AATTTTTTTT
41842390 AAAAAATTATAAAAAATTA
1 AAAAAATT-TAAAAAATTA
41842409 AAAAAATTCTAAAAAATATA
1 AAAAAATT-TAAAAAAT-TA
*
41842429 TAAAGAAAGTTAAAAAATTA
1 -AAA-AAATTTAAAAAATTA
41842449 AAA
1 AAA
41842452 TTTTCTAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 19 0.50
20 4 0.11
21 11 0.29
22 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATTTAAAAAATTA
Found at i:41842945 original size:17 final size:18
Alignment explanation
Indices: 41842919--41842968 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
41842909 AAATATTTTA
41842919 AAAAATTATAAAAACACT
1 AAAAATTATAAAAACACT
*
41842937 AAAAA-TATAAAAACATT
1 AAAAATTATAAAAACACT
*
41842954 AAAATTTTATAAAAA
1 AAAA-ATTATAAAAA
41842969 ATATAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 5 0.18
19 8 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTATAAAAACACT
Found at i:41843038 original size:22 final size:22
Alignment explanation
Indices: 41842965--41843038 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
41842955 AAATTTTATA
* *
41842965 AAAAATATAGA-AAAATATCTT
1 AAAATTATAGATAAAATATATT
* *
41842986 AAAATTTATAAAT-AAATAAATAT
1 AAAA-TTATAGATAAAATATAT-T
*
41843009 AAAA-TATAGATAAAATTTATT
1 AAAATTATAGATAAAATATATT
41843030 AAAATTATA
1 AAAATTATA
41843039 AATTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
21 15 0.37
22 21 0.51
23 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (22 bp):
AAAATTATAGATAAAATATATT
Found at i:41843084 original size:10 final size:10
Alignment explanation
Indices: 41842937--41843084 Score: 52
Period size: 10 Copynumber: 14.4 Consensus size: 10
41842927 TAAAAACACT
41842937 AAAA-ATATA
1 AAAATATATA
*
41842946 AAAACAT-TA
1 AAAATATATA
* *
41842955 AAATTTTATAA
1 AAAATATAT-A
*
41842966 AAAATATAGA
1 AAAATATATA
* *
41842976 AAAATATCTT
1 AAAATATATA
*
41842986 AAAATTTATAA
1 AAAATATAT-A
*
41842997 ATAAATAAATA
1 A-AAATATATA
*
41843008 TAAAATATAGA
1 -AAAATATATA
* *
41843019 TAAAATTTATT
1 -AAAATATATA
41843030 AAAAT-TATA
1 AAAATATATA
** * *
41843039 AATTTTTTTTA
1 AA-AATATATA
41843050 AAAATATATA
1 AAAATATATA
*
41843060 TAAAT-TACTA
1 AAAATATA-TA
41843070 TAAAATATATA
1 -AAAATATATA
41843081 AAAA
1 AAAA
41843085 AAAGATAGAT
Statistics
Matches: 99, Mismatches: 29, Indels: 21
0.66 0.19 0.14
Matches are distributed among these distances:
9 17 0.17
10 38 0.38
11 35 0.35
12 9 0.09
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAATATATA
Found at i:41843148 original size:35 final size:35
Alignment explanation
Indices: 41843109--41843179 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
41843099 AAAAATGTGA
41843109 AAAAAATTATAAGATTTAAAGTTATTATCTCCACT
1 AAAAAATTATAAGATTTAAAGTTATTATCTCCACT
*
41843144 AAAAATTTATAAGATTTAAAGTTATTATCTCCACT
1 AAAAAATTATAAGATTTAAAGTTATTATCTCCACT
41843179 A
1 A
41843180 TGTTTAATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (35 bp):
AAAAAATTATAAGATTTAAAGTTATTATCTCCACT
Found at i:41848750 original size:33 final size:32
Alignment explanation
Indices: 41848713--41848891 Score: 101
Period size: 33 Copynumber: 5.4 Consensus size: 32
41848703 TGGCCCTGCC
* * *
41848713 ATGGTCTTACATTCATAGTGCCATAACCCAATT
1 ATGGTCTTACA-TCAGAATGCCATAACCCAACT
*
41848746 ATGGTCTTATCATCAGAATGCCATAGCCCAACT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAACT
* * * *** *
41848779 ATGGTCTTACGTAT-AAACACCGTCATGGTCCAACC
1 ATGGTCTTAC--ATCAGA-A-TGCCATAACCCAACT
* * *
41848814 ATGGTCTTACGTCCATAGTGCCATAACCCAA-T
1 ATGGTCTTACAT-CAGAATGCCATAACCCAACT
* * *
41848846 CATGGTCTTATCATCGGAATGCCATAGCCCAGCT
1 -ATGGTCTTA-CATCAGAATGCCATAACCCAACT
*
41848880 GTGGTCTTACAT
1 ATGGTCTTACAT
41848892 ATAAACATTG
Statistics
Matches: 110, Mismatches: 26, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
32 4 0.04
33 76 0.69
34 8 0.07
35 22 0.20
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAACT
Found at i:41848838 original size:101 final size:101
Alignment explanation
Indices: 41848711--41848926 Score: 326
Period size: 101 Copynumber: 2.1 Consensus size: 101
41848701 CATGGCCCTG
* * *
41848711 CCATGGTCTTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCA
1 CCATGGTCTTACGTCCATAGTGCCATAACCCAATCATGGTCTTATCATCAGAATGCCATAGCCCA
* *
41848776 ACTATGGTCTTACGTATAAACACCGTC-ATGGTCCAA
66 ACTATGGTCTTACATATAAACACCG-CGATGGTCAAA
*
41848812 CCATGGTCTTACGTCCATAGTGCCATAACCCAATCATGGTCTTATCATCGGAATGCCATAGCCCA
1 CCATGGTCTTACGTCCATAGTGCCATAACCCAATCATGGTCTTATCATCAGAATGCCATAGCCCA
* * **
41848877 GCTGTGGTCTTACATATAAACATTGCGATGGTCAAA
66 ACTATGGTCTTACATATAAACACCGCGATGGTCAAA
41848913 CCATGGTCTTACGT
1 CCATGGTCTTACGT
41848927 TTGAATAATT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
100 1 0.01
101 103 0.99
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (101 bp):
CCATGGTCTTACGTCCATAGTGCCATAACCCAATCATGGTCTTATCATCAGAATGCCATAGCCCA
ACTATGGTCTTACATATAAACACCGCGATGGTCAAA
Found at i:41857336 original size:47 final size:47
Alignment explanation
Indices: 41857267--41858509 Score: 2171
Period size: 47 Copynumber: 26.2 Consensus size: 47
41857257 TTTAGGATTC
*
41857267 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41857314 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
41857363 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41857410 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
41857459 TATGTGATAAGGCCTAATGGGCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41857506 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41857553 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
41857602 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41857649 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41857696 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41857743 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41857790 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
41857837 TATGTGATAAGGCCTAATAGCCGATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
41857884 TATGTGATAAGGCCTAATAGCCGATGTGATGGATGTGAAAGTGTATATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
41857933 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41857980 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858027 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858074 TATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
41858123 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858170 TATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858217 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41858264 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41858311 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858358 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41858405 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * * *
41858452 TATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
41858499 AATGTGATAAG
1 TATGTGATAAG
41858510 TCCCGAAGGG
Statistics
Matches: 1151, Mismatches: 35, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
47 922 0.80
49 229 0.20
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:41857426 original size:143 final size:141
Alignment explanation
Indices: 41857267--41858509 Score: 2171
Period size: 143 Copynumber: 8.7 Consensus size: 141
41857257 TTTAGGATTC
*
41857267 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
41857332 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAAT
66 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
41857397 GTGAAAGTGTATA
129 GTGAAAGTGTATA
*
41857410 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
* *
41857475 ATGGGCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAAT
64 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
41857540 GTGAAAGTGTATA
129 GTGAAAGTGTATA
*
41857553 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
41857618 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
41857683 GTGAAAGTGTATA
129 GTGAAAGTGTATA
41857696 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
41857761 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
41857826 GAAAGTGTATA
131 GAAAGTGTATA
* *
41857837 TATGTGATAAGGCCTAATAGCCGATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * *
41857902 AGCCGATGTGATGGATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
66 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
41857967 GTGAAAGTGTATA
129 GTGAAAGTGTATA
*
41857980 TATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* *
41858045 GGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
41858110 GAAAGTGTATATA
131 GAAAGTG--TATA
41858123 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* *
41858188 GACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
41858253 GAAAGTGTATA
131 GAAAGTGTATA
41858264 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
41858329 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
41858394 GAAAGTGTATA
131 GAAAGTGTATA
* * * *
41858405 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
1 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
* * * *
41858470 GGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41858510 TCCCGAAGGG
Statistics
Matches: 1061, Mismatches: 33, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
141 469 0.44
143 546 0.51
145 46 0.04
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (141 bp):
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATA
Found at i:41858684 original size:37 final size:37
Alignment explanation
Indices: 41858628--41858706 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41858618 CCGAGCTCTA
* * *
41858628 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
41858665 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41858702 AAGAC
1 AAGAC
41858707 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41861225 original size:30 final size:31
Alignment explanation
Indices: 41861189--41861300 Score: 94
Period size: 32 Copynumber: 3.7 Consensus size: 31
41861179 TGACGATTTC
41861189 GCCACAAAGGC-TCACATATAACAGAGAAAA
1 GCCACAAAGGCTTCACATATAACAGAGAAAA
* **
41861219 GCCACAAAGGCTTCCACATATATCA-A-ATTTA
1 GCCACAAAGGCTT-CACATATAACAGAGA-AAA
*
41861250 GCCACAAATGC-T--CATATAACAGAGAACAA
1 GCCACAAAGGCTTCACATATAACAGAGAA-AA
*
41861279 -CCAAAAAGGCTTTCACATATAA
1 GCCACAAAGGC-TTCACATATAA
41861301 TAGATTCAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
27 8 0.13
28 9 0.14
29 2 0.03
30 14 0.22
31 13 0.21
32 17 0.27
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (31 bp):
GCCACAAAGGCTTCACATATAACAGAGAAAA
Found at i:41861275 original size:59 final size:60
Alignment explanation
Indices: 41861184--41861299 Score: 164
Period size: 59 Copynumber: 1.9 Consensus size: 60
41861174 CTCCTTGACG
* *
41861184 ATTTCGCCACAAAGGCTCACATATAACAGAGAA-AAGCCACAAAGGCTTCCACATATATCAA
1 ATTTAGCCACAAAGGCT-ACATATAACAGAGAACAA-CCAAAAAGGCTTCCACATATATCAA
* *
41861245 ATTTAGCCACAAATGCT-CATATAACAGAGAACAACCAAAAAGGCTTTCACATATA
1 ATTTAGCCACAAAGGCTACATATAACAGAGAACAACCAAAAAGGCTTCCACATATA
41861300 ATAGATTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 33 0.66
60 2 0.04
61 15 0.30
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (60 bp):
ATTTAGCCACAAAGGCTACATATAACAGAGAACAACCAAAAAGGCTTCCACATATATCAA
Found at i:41861314 original size:59 final size:59
Alignment explanation
Indices: 41861203--41861316 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
41861193 CAAAGGCTCA
* * *
41861203 CATATAACAGAGAAAAGCCACAAAGGCTTCCACATATATCAAATTTAGCCACAAATGCT
1 CATATAACAGAGAAAAGCCAAAAAGGCTTCCACATATATCAAATTCAACCACAAATGCT
* *
41861262 CATATAACAGAGAACAA-CCAAAAAGGCTTTCACATATAAT-AGATTCAACCACAAA
1 CATATAACAGAGAA-AAGCCAAAAAGGCTTCCACATAT-ATCAAATTCAACCACAAA
41861317 GGCATCACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 44 0.92
60 4 0.08
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (59 bp):
CATATAACAGAGAAAAGCCAAAAAGGCTTCCACATATATCAAATTCAACCACAAATGCT
Found at i:41862450 original size:177 final size:180
Alignment explanation
Indices: 41862128--41862476 Score: 589
Period size: 177 Copynumber: 1.9 Consensus size: 180
41862118 TTACCTAGAG
41862128 TTAACTAAGTTTTCTTTCAAAAATCACATCACATAGTGCTTATAATCTTCATATCTGAAGTCAAA
1 TTAACTAAGTTTTCTTTCAAAAATCACATCACATAGTGCTTAT-ATCTTCATATCTGAAGTCAAA
41862193 CATACAAGCCACCATACACACACATTGAATTTGCTAACTTGACCTCAAACACCATGCCTAGATCC
65 CATACAAGCCACCATACACACACATTGAATTTGCTAACTTGACCTCAAACACCATGCCTAGATCC
*
41862258 AAACCAATTACTACCATTCATGATCAAACATTGAGCACAACTCACCTAAAC
130 AAACCAATTACTACCACTCATGATCAAACATTGAGCACAACTCACCTAAAC
* * * *
41862309 TTAACTAAGTTTTCTTTCAAAATTCACATCACATGGTGC-T-T-T-TTCATCTCTTAAGTCAAAC
1 TTAACTAAGTTTTCTTTCAAAAATCACATCACATAGTGCTTATATCTTCATATCTGAAGTCAAAC
* *
41862370 ATACAAGCCACCATACACACACATTGAATTTGCTTACCTTGACCTCAAACACCATGCTTAGATCC
66 ATACAAGCCACCATACACACACATTGAATTTGC-TAACTTGACCTCAAACACCATGCCTAGATCC
41862435 AAACCAATTACTACCACTCATGATCAAACATTGAGCACAACT
130 AAACCAATTACTACCACTCATGATCAAACATTGAGCACAACT
41862477 TAAGAGTTAA
Statistics
Matches: 160, Mismatches: 7, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
176 50 0.31
177 71 0.44
179 1 0.01
180 1 0.01
181 37 0.23
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.28
Consensus pattern (180 bp):
TTAACTAAGTTTTCTTTCAAAAATCACATCACATAGTGCTTATATCTTCATATCTGAAGTCAAAC
ATACAAGCCACCATACACACACATTGAATTTGCTAACTTGACCTCAAACACCATGCCTAGATCCA
AACCAATTACTACCACTCATGATCAAACATTGAGCACAACTCACCTAAAC
Found at i:41881205 original size:14 final size:14
Alignment explanation
Indices: 41881186--41881212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41881176 GTGGTCCAGT
41881186 TGAACTGAACCGAG
1 TGAACTGAACCGAG
41881200 TGAACTGAACCGA
1 TGAACTGAACCGA
41881213 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:41884529 original size:47 final size:47
Alignment explanation
Indices: 41884437--41884529 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
41884427 TTTTTGAAAG
**
41884437 TCTGAAGGATTTCTACTGATACTTAGGTGGACAAGTATCTTTAGAAC
1 TCTGAAGGATTTCTACTGATACTTAGGTGGACAAGTATCGGTAGAAC
41884484 TCTGAAGGATTTCTACTGATACTTAGGTGGACAAGTATCGGTAGAA
1 TCTGAAGGATTTCTACTGATACTTAGGTGGACAAGTATCGGTAGAA
41884530 ATCAAAATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (47 bp):
TCTGAAGGATTTCTACTGATACTTAGGTGGACAAGTATCGGTAGAAC
Found at i:41884950 original size:31 final size:31
Alignment explanation
Indices: 41884915--41884980 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
41884905 CCTCAAACAC
41884915 CATGCCAAGATCTAAACCAATTACTACCATT
1 CATGCCAAGATCTAAACCAATTACTACCATT
*
41884946 CATGCCAAGATCTAAACCAATTCCTACCATT
1 CATGCCAAGATCTAAACCAATTACTACCATT
41884977 CATG
1 CATG
41884981 ATCAAACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.30, G:0.08, T:0.26
Consensus pattern (31 bp):
CATGCCAAGATCTAAACCAATTACTACCATT
Found at i:41890205 original size:20 final size:20
Alignment explanation
Indices: 41890129--41890204 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
41890119 AAACTTATGC
41890129 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
*
41890149 TAAGTAGAT-AAA-GTGAAGAG
1 TAAGTAAATGAAATG-GAA-AG
* *
41890169 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGAAATGGAAAG
41890189 TAAGTAAATGAAATGG
1 TAAGTAAATGAAATGG
41890205 TTCATCATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
18 1 0.02
19 6 0.13
20 35 0.74
21 4 0.09
22 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:41894012 original size:30 final size:30
Alignment explanation
Indices: 41893978--41894056 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
41893968 CTTGACTTAA
* *
41893978 ATAGCCACAAACGCATCCATACATCATTAG
1 ATAGCCACAAAGGCATCCACACATCATTAG
***
41894008 ATAGCCACAAAGGTGCCCACACATCATTAG
1 ATAGCCACAAAGGCATCCACACATCATTAG
* *
41894038 ATAGCAACAAGGGCATCCA
1 ATAGCCACAAAGGCATCCA
41894057 AATTCATTCA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.16
Consensus pattern (30 bp):
ATAGCCACAAAGGCATCCACACATCATTAG
Found at i:41894334 original size:61 final size:61
Alignment explanation
Indices: 41894216--41894367 Score: 162
Period size: 61 Copynumber: 2.5 Consensus size: 61
41894206 ACATGTATCC
* * * * *
41894216 GAGAACAACCACAAAGGCTTTCACATATAAGATGTTTCGTCAATATGGCTCCCATATAATA
1 GAGAACAACCACAAAGGCTTTCACATATAAGATATTTAGCCAAAATGGCTCACATATAATA
* * *
41894277 GAGAACAACCACAAAGGCTTTCACATGTAATATATTTAGCCATAAAT-GCTCATATATAATA
1 GAGAACAACCACAAAGGCTTTCACATATAAGATATTTAGCCA-AAATGGCTCACATATAATA
* * * * * *
41894338 AAGAATAGCCATAAAGGCTTCCACTTATAA
1 GAGAACAACCACAAAGGCTTTCACATATAA
41894368 CAGATTCAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 72 0.96
62 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (61 bp):
GAGAACAACCACAAAGGCTTTCACATATAAGATATTTAGCCAAAATGGCTCACATATAATA
Found at i:41894603 original size:54 final size:54
Alignment explanation
Indices: 41894541--41894647 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
41894531 GTGGCCTTTG
* * *
41894541 TTTCCCCATATGATGCCATAG-CTAATGGCTAGACCTTAGACTATATGGTCTTCT
1 TTTCCCCATATGATGCCATAGTC-AACGACTAGACCTTACACTATATGGTCTTCT
* **
41894595 TTTCCCCATTTGATGCCATAGTCAACGACTAGGGCTTACACTATATGGTCTTC
1 TTTCCCCATATGATGCCATAGTCAACGACTAGACCTTACACTATATGGTCTTC
41894648 AATTGCCACT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 45 0.98
55 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
TTTCCCCATATGATGCCATAGTCAACGACTAGACCTTACACTATATGGTCTTCT
Found at i:41900415 original size:28 final size:27
Alignment explanation
Indices: 41900363--41900431 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
41900353 TGGTTATACA
* *
41900363 TATATTATATATATGCATGATTTTATCT
1 TATATAATATATATGCATGACTTTAT-T
*
41900391 TATATAATATATATGCATGGCTTTATT
1 TATATAATATATATGCATGACTTTATT
* *
41900418 TACATAGTATATAT
1 TATATAATATATAT
41900432 TAATGGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (27 bp):
TATATAATATATATGCATGACTTTATT
Found at i:41910531 original size:27 final size:27
Alignment explanation
Indices: 41910501--41910560 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
41910491 ATCCCAACGA
** * *
41910501 ACTACTCTGTGTTTACTGTTTCGATAG
1 ACTACTCCATGTTTACTGTTCCAATAG
* *
41910528 ACTACCCCATTTTTACTGTTCCAATAG
1 ACTACTCCATGTTTACTGTTCCAATAG
41910555 ACTACT
1 ACTACT
41910561 TCGTATTTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (27 bp):
ACTACTCCATGTTTACTGTTCCAATAG
Found at i:41922591 original size:7 final size:7
Alignment explanation
Indices: 41922581--41922607 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
41922571 ATAAATCACA
41922581 AATAAAG
1 AATAAAG
41922588 AATAAAG
1 AATAAAG
41922595 AATAAAG
1 AATAAAG
41922602 AATAAA
1 AATAAA
41922608 TTAGTAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AATAAAG
Found at i:41923220 original size:20 final size:20
Alignment explanation
Indices: 41923195--41923235 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
41923185 ATTTAATCAC
*
41923195 ATAAACCTAAAAACTATGCA
1 ATAAACCTAAAAACAATGCA
41923215 ATAAACCTAAAAACAATGCA
1 ATAAACCTAAAAACAATGCA
41923235 A
1 A
41923236 GATAATAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.17
Consensus pattern (20 bp):
ATAAACCTAAAAACAATGCA
Found at i:41936172 original size:25 final size:26
Alignment explanation
Indices: 41936123--41936172 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
41936113 AGAAAATTCA
* *
41936123 ATTAATTATTGTAAATTAGTGCTATG
1 ATTAATTAATGTAAATTAGTACTATG
*
41936149 ATTAA-TAATGTAAATTATTACTAT
1 ATTAATTAATGTAAATTAGTACTAT
41936173 TTTTTTCGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTAATTAATGTAAATTAGTACTATG
Found at i:41942999 original size:16 final size:16
Alignment explanation
Indices: 41942978--41943008 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41942968 AAATAAAGTA
*
41942978 AAAGAATAAAAGAAAT
1 AAAGAAGAAAAGAAAT
41942994 AAAGAAGAAAAGAAA
1 AAAGAAGAAAAGAAA
41943009 CAGAGACCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAT
Found at i:41948212 original size:27 final size:27
Alignment explanation
Indices: 41948194--41948254 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
41948184 CCCTGTTCTA
41948194 CAGGCCTTCTGGCAAACCCCAGCTCAT
1 CAGGCCTTCTGGCAAACCCCAGCTCAT
* * * *
41948221 CAGGCCTTCTGGCGAACACCAGTTCAC
1 CAGGCCTTCTGGCAAACCCCAGCTCAT
41948248 CAGGCCT
1 CAGGCCT
41948255 CAAACTCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.39, G:0.21, T:0.18
Consensus pattern (27 bp):
CAGGCCTTCTGGCAAACCCCAGCTCAT
Found at i:41953692 original size:11 final size:11
Alignment explanation
Indices: 41953676--41953715 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
41953666 ATACTTGTAT
41953676 TGGTGATATAA
1 TGGTGATATAA
41953687 TGGTGATATAA
1 TGGTGATATAA
41953698 TGGTGATATAA
1 TGGTGATATAA
41953709 TGGTGAT
1 TGGTGAT
41953716 GTATTGCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (11 bp):
TGGTGATATAA
Found at i:41964413 original size:47 final size:48
Alignment explanation
Indices: 41964347--41964616 Score: 383
Period size: 47 Copynumber: 5.7 Consensus size: 48
41964337 CCCTTCGGGA
* * * *
41964347 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTGTTCACATTCATCACATTGGCCATTCGGC
41964394 CTTATCACATATATGCACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTGTTCACATTCATCACATTGGCCATTCGGC
*
41964441 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTGTTCACATTCATCACATTGGCCATTCGGC
*
41964488 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATGCACTGTTCACATTCATCACATTGGCCATTCGGC
* *
41964535 CTTATCACACATA--CACATGTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATGCAC-TGTTCACATTCATCACATTGGCCATTCGGC
*
41964582 CTTATCACATATATATACACT-TTCACATTCATCAC
1 CTTATCAC--ATATATGCACTGTTCACATTCATCAC
41964617 TTTCCAATGA
Statistics
Matches: 207, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
47 182 0.88
49 18 0.09
50 1 0.00
51 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (48 bp):
CTTATCACATATATGCACTGTTCACATTCATCACATTGGCCATTCGGC
Found at i:41966451 original size:56 final size:56
Alignment explanation
Indices: 41966384--41966503 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
41966374 TATTAGTTTA
41966384 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
41966440 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41966496 TTGCCCAT
1 TTGCCCAT
41966504 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41967878 original size:80 final size:80
Alignment explanation
Indices: 41967780--41968083 Score: 441
Period size: 80 Copynumber: 3.8 Consensus size: 80
41967770 CCAGCAAGAT
* * *
41967780 TGCTCTTCGGGACCTAGCCCGGATATAAAACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATAACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
41967845 CATCACTAGCATGAA
66 CATCACTAGCATGAA
* * *
41967860 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATAACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
41967925 CATCACTAGCATGAA
66 CATCACTAGCATGAA
* * * *
41967940 TGCTGTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATAACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
41968005 CATCACTAGCATGAA
66 CATCACTAGCATGAA
* * * * *
41968020 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTC-GCACAAATGC-CTTCGGATCTTAGTCCGGA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TAAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
41968083 T
64 T
41968084 GTAGTCGCTT
Statistics
Matches: 204, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
80 192 0.94
81 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATAACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCATGAA
Found at i:41968069 original size:40 final size:40
Alignment explanation
Indices: 41967780--41968041 Score: 416
Period size: 40 Copynumber: 6.5 Consensus size: 40
41967770 CCAGCAAGAT
* * ** *
41967780 TGCTCTTCGGGACCTAGCCCGGATATAAAACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
41967820 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
41967860 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
41967900 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
41967940 TGCTGTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
41967980 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
41968020 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
41968042 TTATAGTAAC
Statistics
Matches: 208, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:41968069 original size:120 final size:120
Alignment explanation
Indices: 41967780--41968083 Score: 425
Period size: 120 Copynumber: 2.5 Consensus size: 120
41967770 CCAGCAAGAT
* * *
41967780 TGCTCTTCGGGACCTAGCCCGGATATAAAAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGATATATAACTC-GCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
41967844 ACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
65 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * * * * *
41967900 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTGTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATAACTCGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
41967965 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
41968020 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTC-GGATCTTAGTCCGGA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TAACTCGCACGAATGCTCTTCGGGA-CTTAGCCCGGA
41968083 T
64 T
41968084 GTAGTCGCTT
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
119 3 0.02
120 145 0.91
121 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATATATAACTCGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:41968076 original size:40 final size:39
Alignment explanation
Indices: 41967780--41968083 Score: 385
Period size: 40 Copynumber: 7.6 Consensus size: 39
41967770 CCAGCAAGAT
* * ** *
41967780 TGCTCTTCGGGACCTAGCCCGGATATAAAACCAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
*
41967820 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
41967860 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
*
41967900 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAA
*
41967940 TGCTGTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
*
41967980 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
41968020 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTC-GGACTTAGCCCGGATACA-TCACTAGCACGAA
*
41968061 TGC-CTTCGGATCTTAGTCCGGAT
1 TGCTCTTCGGA-CTTAGCCCGGAT
41968084 GTAGTCGCTT
Statistics
Matches: 240, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 5 0.02
40 221 0.92
41 14 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:41970444 original size:47 final size:47
Alignment explanation
Indices: 41970381--41970650 Score: 384
Period size: 47 Copynumber: 5.7 Consensus size: 47
41970371 CCCTTCGGGA
* * *
41970381 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
41970428 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
41970475 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
41970522 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
41970569 CTTATCACACATACACATGTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
41970616 CTTATCACATATATATTCACT-TTCACATTCATCAC
1 CTTATCACATATATA--CA-TGTTCACATTCATCAC
41970651 TTTCCAATGA
Statistics
Matches: 207, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 189 0.91
49 16 0.08
50 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:41972355 original size:56 final size:56
Alignment explanation
Indices: 41972288--41972407 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
41972278 TATTAGTTTA
41972288 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41972344 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41972400 TTGCCCAT
1 TTGCCCAT
41972408 CATCCCTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41974226 original size:33 final size:33
Alignment explanation
Indices: 41974183--41974255 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
41974173 TTGCCACTAT
*
41974183 GGAGAAGGCCACAAAAGGGCCAGAGGGAGATAA
1 GGAGAAGGCCACAAAAGGACCAGAGGGAGATAA
* * *
41974216 TGAGAAGGCCACAACAGGACCAGAGGGAGATGA
1 GGAGAAGGCCACAAAAGGACCAGAGGGAGATAA
41974249 GGAGAAG
1 GGAGAAG
41974256 ACTAAATCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.15, G:0.40, T:0.04
Consensus pattern (33 bp):
GGAGAAGGCCACAAAAGGACCAGAGGGAGATAA
Found at i:41981785 original size:50 final size:50
Alignment explanation
Indices: 41981668--41982058 Score: 356
Period size: 50 Copynumber: 7.7 Consensus size: 50
41981658 GAATATAACA
* * * ** * * *
41981668 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
41981717 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** * *
41981767 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
41981817 TGCCAACGCCATGTCTCAGACATGGTCTTATATGGGACCTCTCTTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
41981867 TGCCAACGCCATGTCCTAGATATGGTTTTTCATGGGACGTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
41981917 TGCCAACGGCATGTCCTAGACATGGCCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
41981967 TGCCAACGGCATGTCCCAGACATGGTCCTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
41982023 TGCCAATGACATGTCCCAGACATGGT-TTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
41982059 TCTTTTTACC
Statistics
Matches: 281, Mismatches: 53, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
49 36 0.13
50 206 0.73
53 5 0.02
55 9 0.03
56 25 0.09
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Done.