Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 47 of 175
Found at i:13501294 original size:45 final size:45
Alignment explanation
Indices: 13501229--13501387 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 45
13501219 TTGGAATTAT
* * * ** *
13501229 AGGTGGATGCTTTGTGCTGATTCCACCCGATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGATACCAATGAATATAA
* ** ** *
13501274 AGGTGGTTGCTATGTACTGATTTCACAGGATACCAATGGTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCCGATACCAATGAATATAA
* * *
13501319 AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGATACCAATGAATATAA
*
13501364 AGGTGGTTGTTATGTGCTGATTTC
1 AGGTGGTTGCTATGTGCTGATTTC
13501388 GCCGAGTACT
Statistics
Matches: 93, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCCGATACCAATGAATATAA
Found at i:13501402 original size:45 final size:44
Alignment explanation
Indices: 13501270--13501428 Score: 169
Period size: 45 Copynumber: 3.6 Consensus size: 44
13501260 ATTAATGAAA
* * *
13501270 ATAAAGGTGGTTGCTATGTACTGATTTCACAGGATACCAATG-GTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGG-TACCATTGAG-T
*
13501315 ATATAGGTGGTTGCTATGTGCTGATTTCACCCGGTACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA-CCGGTACCATTGAGT
* * * *
13501360 ATAAAGGTGGTTGTTATGTGCTGATTTCGCCGAGTACTATTGACT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCG-GTACCATTGAGT
* * *
13501405 GTAAGGGTGG-TGCTGTGTGCTGAT
1 ATAAAGGTGGTTGCTATGTGCTGAT
13501429 CCACCGTGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
44 15 0.15
45 79 0.81
46 4 0.04
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (44 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACCGGTACCATTGAGT
Found at i:13510378 original size:39 final size:39
Alignment explanation
Indices: 13510305--13510384 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
13510295 AAGGTGTTTT
*
13510305 TGAGTATTGTGACATATGCTTAATTATTATGTGATTATA
1 TGAGTATTGTGACATATGCTTAATTATTAGGTGATTATA
* * *
13510344 TGAGTATTGTGATATATGCTTGCA-TGTTAGGTGATTATA
1 TGAGTATTGTGACATATGCTT-AATTATTAGGTGATTATA
13510383 TG
1 TG
13510385 TGTAACATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 35 0.97
40 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGACATATGCTTAATTATTAGGTGATTATA
Found at i:13512898 original size:138 final size:138
Alignment explanation
Indices: 13512645--13513089 Score: 692
Period size: 138 Copynumber: 3.2 Consensus size: 138
13512635 AAAGAACATA
* **
13512645 AATAGAATTAATATATGAATTTGATTCATATTAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* *
13512710 TAATATCAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGGCATGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
13512775 TTGGAAAT
131 TTGGAAAT
* * *
13512783 AATATAATTATTATATGAATTTGATTCATACAAAATATGAATTGTAAATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* *
13512848 TAATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTATT
66 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
13512913 TTGGAAAG
131 TTGGAAAT
* * **
13512921 AATTTAATTAATATATGAATTTGATCCATACAAAATATTAATTGTATATATTTTACTAAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * * * *
13512986 TAATATAAATAGTTATATTAATTAATTTCGATCAAAATATACAAGACATGAAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
13513051 TTGAAAAT
131 TTGGAAAT
*
13513059 AATACAATTAATATATGAATTTGATTCATAC
1 AATATAATTAATATATGAATTTGATTCATAC
13513090 TTTACCGAAT
Statistics
Matches: 277, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 277 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
TTGGAAAT
Found at i:13513128 original size:118 final size:118
Alignment explanation
Indices: 13512979--13513203 Score: 346
Period size: 118 Copynumber: 1.9 Consensus size: 118
13512969 TATTTTACTA
* *
13512979 AATTTATTAATATAAATAGTTATATTAATTAATTTCGATCAAAATATACA-AGACATGAAAATTA
1 AATTTATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATA-ATAGACATGAAAATTA
*
13513043 ATATTC-TTTTGAAAATAATACAATTAATATATGAATTTGATTCATACTTTACCG
65 ATATTCTTTTTG-AAAGAATACAATTAATATATGAATTTGATTCATACTTTACCG
* * *
13513097 AATTTATTAATCTAAACAATTATATTAATTAATTTTGATCAAAATATAATAGACATGGAAATTAA
1 AATTTATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAATAGACATGAAAATTAA
* *
13513162 TATTCTTTTTGCAAGAATATAATTAATATATGAATTTGATTC
66 TATTCTTTTTGAAAGAATACAATTAATATATGAATTTGATTC
13513204 GTACAGAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
117 1 0.01
118 91 0.94
119 5 0.05
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (118 bp):
AATTTATTAATATAAACAATTATATTAATTAATTTCGATCAAAATATAATAGACATGAAAATTAA
TATTCTTTTTGAAAGAATACAATTAATATATGAATTTGATTCATACTTTACCG
Found at i:13513290 original size:256 final size:256
Alignment explanation
Indices: 13512834--13513323 Score: 793
Period size: 256 Copynumber: 1.9 Consensus size: 256
13512824 TTGTAAATAT
*
13512834 TTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGG
1 TTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATGG
*
13512899 AAATTAATATTATTTTGGAAAGAATTTAATTAATATATGAATTTGATCCATACAAAATATTAATT
66 AAATTAATATTATTTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATT
* * *
13512964 GTATATATTTTACTAAATTTATTAATATAAATAGTTATATTAATTAATTTCGATCAAAATATACA
131 GTATATATTTTACTAAATTTATTAATATAAACAGTTATATTAACTAATTTCGATCAAAATATAAA
*
13513029 AGACATGAAAATTAATATTCTTTTGAAAATAATACAATTAATATATGAATTTGATTCATAC
196 AGACATGAAAATTAATATTCTTTTGAAAAGAATACAATTAATATATGAATTTGATTCATAC
* *
13513090 TTTACCGAATTTATTAATCTAAACAATTATATTAATTAATTTTGATCAAAATATAATAGACATGG
1 TTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATGG
* * * * * *
13513155 AAATTAATATTCTTTTTGCAAGAATATAATTAATATATGAATTTGATTCGTACAGAATATTAATT
66 AAATTAATATTATTTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATT
* *
13513220 GTATATATTTTA-TCAAATTTATTAATATAAACAGTTATATTAACTAATTTTGGTCAAAATATAA
131 GTATATATTTTACT-AAATTTATTAATATAAACAGTTATATTAACTAATTTCGATCAAAATATAA
* * *
13513284 AAGACATGTAAATTAATATTCTTTTGGAAAGAATATAATT
195 AAGACATGAAAATTAATATTCTTTTGAAAAGAATACAATT
13513324 TATTTTCCTA
Statistics
Matches: 214, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
255 1 0.00
256 213 1.00
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (256 bp):
TTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATGG
AAATTAATATTATTTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATT
GTATATATTTTACTAAATTTATTAATATAAACAGTTATATTAACTAATTTCGATCAAAATATAAA
AGACATGAAAATTAATATTCTTTTGAAAAGAATACAATTAATATATGAATTTGATTCATAC
Found at i:13514822 original size:41 final size:41
Alignment explanation
Indices: 13514730--13514922 Score: 228
Period size: 41 Copynumber: 4.7 Consensus size: 41
13514720 GCCCTGAGCA
* * *
13514730 TTAGCGGCGTTTTTGAAAAAGTGCCGCTGATGCTC-GGGTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
* *
13514770 TTAGCGGCGTTTTTGAGAAACCGCCTCTAATGCTCGGGGTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
* * * *
13514811 TTAGCGGCGTTTATGAGAAAGAGCCGCTAATGTTCGCGGTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
**
13514852 TTAATGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
* * * *
13514893 TTGGCAGCGCTTTTTCA-AAAACGCCGCTAA
1 TTAGCGGCG-TTTTTGAGAAAGCGCCGCTAA
13514923 AAACATTTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 30 0.23
41 92 0.72
42 6 0.05
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGGTT
Found at i:13515367 original size:22 final size:22
Alignment explanation
Indices: 13515342--13515383 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13515332 AGGTTTAGGG
*
13515342 GTTAGGGGTTTAGGGGTTAATA
1 GTTAGGGATTTAGGGGTTAATA
*
13515364 GTTAGGGATTTAGGGTTTAA
1 GTTAGGGATTTAGGGGTTAA
13515384 GGATTCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
GTTAGGGATTTAGGGGTTAATA
Found at i:13515368 original size:29 final size:28
Alignment explanation
Indices: 13515336--13515412 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
13515326 GATTTAAGGT
*
13515336 TTAGGGGTTAGGGGTTTAGGGGTTAATAG
1 TTAGGGGTTA-GGGTTTAGGGATTAATAG
* * *
13515365 TTAGGGATTTAGGGTTTAAGGATTCATAG
1 TTAGGG-GTTAGGGTTTAGGGATTAATAG
* *
13515394 GT-CGGGTTAGGGTTTAGGG
1 TTAGGGGTTAGGGTTTAGGG
13515413 TTTAGATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.31
28 2 0.05
29 22 0.56
30 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.35
Consensus pattern (28 bp):
TTAGGGGTTAGGGTTTAGGGATTAATAG
Found at i:13515672 original size:21 final size:21
Alignment explanation
Indices: 13515647--13515687 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13515637 AAGGATTATG
* *
13515647 GTTTAAGGGTTGGGATTTAAA
1 GTTTAAGGGTTAGGAGTTAAA
*
13515668 GTTTAGGGGTTAGGAGTTAA
1 GTTTAAGGGTTAGGAGTTAA
13515688 GGGCTAGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
GTTTAAGGGTTAGGAGTTAAA
Found at i:13515716 original size:21 final size:21
Alignment explanation
Indices: 13515653--13515717 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
13515643 TATGGTTTAA
* *
13515653 GGGTTGGGATTTAA-AGTTTAG
1 GGGTTAGGAGTTAAGAG-TTAG
* *
13515674 GGGTTAGGAGTTAAGGGCTAG
1 GGGTTAGGAGTTAAGAGTTAG
*
13515695 GGGTCT-GGGGTTAAGAGTTAG
1 GGGT-TAGGAGTTAAGAGTTAG
13515716 GG
1 GG
13515718 ATTTAGGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.46, T:0.29
Consensus pattern (21 bp):
GGGTTAGGAGTTAAGAGTTAG
Found at i:13520280 original size:43 final size:43
Alignment explanation
Indices: 13520132--13520440 Score: 300
Period size: 43 Copynumber: 7.3 Consensus size: 43
13520122 ATGGCACTTT
** *
13520132 TAGCGGCGTTTGTGAAAAAAGCACCGCTAAAAGTCATG-TCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
13520174 TAGCGGCGTTTGTGGGAGAAGCGTCGTTAAAAGTCATGATTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * ** * *
13520217 TAGCGGTGTTTGAGCAAAAAGTGCTGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * ** * * *
13520260 TAACGGCGTTTGTGGGAAAAGAGCCATTAAAGGTCTTGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
13520303 TAGCGGCG-TTGT-GTAAAAGCACCGCTAAAAGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
** * * * *
13520344 TAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCTTGATATA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
13520387 TAGCGACATTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
*
13520430 TAGCGGTGTTT
1 TAGCGGCGTTT
13520441 ATTTCTAAAA
Statistics
Matches: 211, Mismatches: 53, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
41 29 0.14
42 40 0.19
43 142 0.67
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:13520363 original size:127 final size:127
Alignment explanation
Indices: 13520201--13520435 Score: 299
Period size: 127 Copynumber: 1.9 Consensus size: 127
13520191 GAAGCGTCGT
* * * ** * * *
13520201 TAAAAGTCATGATTTATAGCGGTGTTTGAGCAAAAAGTGCTGCTAAAAGTCATGATCTATAACGG
1 TAAAAGTCATGATCTATAGCGGCGTTTGAGAAAAAAGCACCGCTAAAAGTCATGATATATAACGA
* * *
13520266 CGTTTGTGGGAAAAGAGCCATTAAAGGTCTTGACCTATAGCGGCGTTGTGTAAAAGCACCGC
66 CATTTGTGGGAAAAGAGCCACTAAAGGTCATGACCTATAGCGGCGTTGTGTAAAAGCACCGC
* * * * *
13520328 TAAAAGTCCTGATCTATAGCGGCGTTTGTGAAAAAAGCACCGCTAAAGGTCTTGATATATAGCGA
1 TAAAAGTCATGATCTATAGCGGCGTTTGAGAAAAAAGCACCGCTAAAAGTCATGATATATAACGA
* * *
13520393 CATTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
66 CATTTGTGGGAAAAGAGCCACTAAAGGTCATGACCTATAGCGG
13520436 TGTTTATTTC
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
127 89 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (127 bp):
TAAAAGTCATGATCTATAGCGGCGTTTGAGAAAAAAGCACCGCTAAAAGTCATGATATATAACGA
CATTTGTGGGAAAAGAGCCACTAAAGGTCATGACCTATAGCGGCGTTGTGTAAAAGCACCGC
Found at i:13528123 original size:81 final size:81
Alignment explanation
Indices: 13527988--13528222 Score: 393
Period size: 81 Copynumber: 2.9 Consensus size: 81
13527978 ATTGGTGGCT
*
13527988 TGGGTTGAAGAAGGACGTAGCTGATTTTATTGGTAGATGTTTAGTTTGCCAAAGGGTTAAAGCTA
1 TGGGTTGAAGAAGGACGTAGCTGATTTTGTTGGTAGATGTTTAGTTTGCCAAAGGGTTAAAGCTA
13528053 AGCATCAATGT-CTGCC
66 AGCATCAATGTGC-GCC
* * * *
13528069 TGGGTTGAAGAAGGACGTAGCTAATTTTGTTAGTA-ATTTTTTAGTTTTCCAAAGGGTTAAAGCT
1 TGGGTTGAAGAAGGACGTAGCTGATTTTGTTGGTAGA-TGTTTAGTTTGCCAAAGGGTTAAAGCT
13528133 AAGCATCAATGTGCGCC
65 AAGCATCAATGTGCGCC
13528150 TGGGTTGAAGAAGGACGTAGCTGATTTTGTTGGTAGATGTTTAGTTTGCCAAAGGGTTAAAGCTA
1 TGGGTTGAAGAAGGACGTAGCTGATTTTGTTGGTAGATGTTTAGTTTGCCAAAGGGTTAAAGCTA
13528215 AGCATCAA
66 AGCATCAA
13528223 CGTTCACCTA
Statistics
Matches: 142, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
80 1 0.01
81 139 0.98
82 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (81 bp):
TGGGTTGAAGAAGGACGTAGCTGATTTTGTTGGTAGATGTTTAGTTTGCCAAAGGGTTAAAGCTA
AGCATCAATGTGCGCC
Found at i:13537695 original size:10 final size:10
Alignment explanation
Indices: 13537671--13537719 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
13537661 AGCTCGTTTC
*
13537671 CAGCTCACTT
1 CAGCTCAATT
* *
13537681 GAGCTCAAGT
1 CAGCTCAATT
13537691 CAGCTC-ATT
1 CAGCTCAATT
13537700 CGAGCTCAATT
1 C-AGCTCAATT
13537711 CAGCTCAAT
1 CAGCTCAAT
13537720 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:13537696 original size:20 final size:20
Alignment explanation
Indices: 13537671--13537717 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13537661 AGCTCGTTTC
13537671 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
13537691 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
13537711 CAGCTCA
1 CAGCTCA
13537718 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:13539287 original size:26 final size:26
Alignment explanation
Indices: 13539258--13539315 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
13539248 ATTGAAATTC
**
13539258 AAAAAAAAATTCG-AAAAAAAAAGAA
1 AAAAAAAAATGAGCAAAAAAAAAGAA
* *
13539283 AAAAAGAAGTGAGCAAAAAAAAAGAA
1 AAAAAAAAATGAGCAAAAAAAAAGAA
13539309 AAAAAAA
1 AAAAAAA
13539316 GTGAAAAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.05
Consensus pattern (26 bp):
AAAAAAAAATGAGCAAAAAAAAAGAA
Found at i:13539300 original size:25 final size:25
Alignment explanation
Indices: 13539271--13539319 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
13539261 AAAAAATTCG
13539271 AAAAAAAAAGAAAAAAAGAAGTGAGC
1 AAAAAAAAAGAAAAAAA-AAGTGAGC
13539297 AAAAAAAAAGAAAAAAAAAGTGA
1 AAAAAAAAAGAAAAAAAAAGTGA
13539320 AAAGTCTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAAAAGTGAGC
Found at i:13540383 original size:15 final size:15
Alignment explanation
Indices: 13540358--13540404 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
13540348 AGAAAAGAAT
13540358 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
13540374 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
13540389 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
13540404 A
1 A
13540405 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:13542410 original size:10 final size:10
Alignment explanation
Indices: 13542386--13542434 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
13542376 AGCTCGTTTC
*
13542386 CAGCTCACTT
1 CAGCTCAATT
* *
13542396 GAGCTCAAGT
1 CAGCTCAATT
13542406 CAGCTC-ATT
1 CAGCTCAATT
13542415 CGAGCTCAATT
1 C-AGCTCAATT
13542426 CAGCTCAAT
1 CAGCTCAAT
13542435 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:13542411 original size:20 final size:20
Alignment explanation
Indices: 13542386--13542432 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13542376 AGCTCGTTTC
13542386 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
13542406 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
13542426 CAGCTCA
1 CAGCTCA
13542433 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:13558286 original size:29 final size:30
Alignment explanation
Indices: 13558235--13558295 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
13558225 TGAATTATTT
* *
13558235 TTAAAAATTTGATTACTCTTTTTGTAAATA
1 TTAAAAATTAGATGACTCTTTTTGTAAATA
*
13558265 TTAAAAATTAGATGCCT-TTTTTGTAAATA
1 TTAAAAATTAGATGACTCTTTTTGTAAATA
13558294 TT
1 TT
13558296 TTCAAAAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (30 bp):
TTAAAAATTAGATGACTCTTTTTGTAAATA
Found at i:13561422 original size:12 final size:12
Alignment explanation
Indices: 13561400--13561434 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13561390 CTTTACTTAC
13561400 TCACTTACTTGT
1 TCACTTACTTGT
13561412 TCACTTACTTGT
1 TCACTTACTTGT
*
13561424 TTACTTACTTG
1 TCACTTACTTG
13561435 CTTACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (12 bp):
TCACTTACTTGT
Found at i:13561439 original size:12 final size:12
Alignment explanation
Indices: 13561392--13561442 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
13561382 ACTCGCTTCT
* *
13561392 TTACTTACTCAC
1 TTACTTGCTTAC
13561404 TTACTTG-TTCAC
1 TTACTTGCTT-AC
*
13561416 TTACTTGTTTAC
1 TTACTTGCTTAC
13561428 TTACTTGCTTAC
1 TTACTTGCTTAC
13561440 TTA
1 TTA
13561443 AATAACTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.91
13 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:13561784 original size:50 final size:50
Alignment explanation
Indices: 13561712--13562033 Score: 401
Period size: 50 Copynumber: 6.3 Consensus size: 50
13561702 TACCCCATAT
* ** * * *
13561712 ATGGTATTACATGGGAGTTCTCATATCAGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
**
13561762 ATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
* * *
13561812 ATTGCCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
**
13561862 ATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
* * *
13561912 ATTGCCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
* * * *
13561962 ATGGTCTTACATGGGACCTCCCATAATCTCAATGATGCCAATGTCATGTCCCAGAA
1 ATGGTCTTACATGGGACCT--C-TCATCTC-A-G-TGCCAACGCCATGTCCCAGAC
*
13562018 ATGATCTTACATGGGA
1 ATGGTCTTACATGGGA
13562034 TCTCATTCCC
Statistics
Matches: 235, Mismatches: 31, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
50 194 0.83
52 1 0.00
53 6 0.03
55 1 0.00
56 33 0.14
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGAC
Found at i:13561834 original size:100 final size:100
Alignment explanation
Indices: 13561718--13561981 Score: 456
Period size: 100 Copynumber: 2.6 Consensus size: 100
13561708 ATATATGGTA
** * * * *
13561718 TTACATGGGAGTTCTCATATCAGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
1 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
13561783 CATCTCAGTGCCAACGCCATGTCCCAGACATTGCC
66 CATCTCAGTGCCAACGCCATGTCCCAGACATTGCC
13561818 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
1 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
13561883 CATCTCAGTGCCAACGCCATGTCCCAGACATTGCC
66 CATCTCAGTGCCAACGCCATGTCCCAGACATTGCC
**
13561918 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC
1 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTC
13561982 CCATAATCTC
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 156 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (100 bp):
TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
CATCTCAGTGCCAACGCCATGTCCCAGACATTGCC
Found at i:13569958 original size:92 final size:88
Alignment explanation
Indices: 13569832--13570059 Score: 255
Period size: 89 Copynumber: 2.5 Consensus size: 88
13569822 TTAAGGGTGT
* * * *
13569832 AAAAA-GCCCTCAAACTTTTTCAAAAAAAATAATTAAGCCCCTACTCTTTTTTTTTGCACAC-AT
1 AAAAAGGCCCTCAAAC-CTTTAAAAAAAAACAATTAAGCCCCTA--C-TTTTTTTTGCAC-CTAA
13569895 TTGGGTACTTAAACTTTCAAAATGCATC
61 TTGGGTACTTAAACTTTCAAAATGCATC
**
13569923 AAAAAGGCCCTCAAACCTTTAAAAAAAAAGCAATTAAGTTCCTACTTTTTTTTGCACCTAATTGG
1 AAAAAGGCCCTCAAACCTTTAAAAAAAAA-CAATTAAGCCCCTACTTTTTTTTGCACCTAATTGG
* * *
13569988 GTATTTGAACTTTCAAAATGCATT
65 GTACTTAAACTTTCAAAATGCATC
* * * *
13570012 AAAAAGACCCTCAAA-CTTAAGAAAAAAAACAATTAAACCCCTTCTTTT
1 AAAAAGGCCCTCAAACCTTTA-AAAAAAAACAATTAAGCCCCTACTTTT
13570060 ATTAAAAATT
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
88 20 0.17
89 60 0.51
90 1 0.01
91 16 0.14
92 21 0.18
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (88 bp):
AAAAAGGCCCTCAAACCTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACCTAATTGGG
TACTTAAACTTTCAAAATGCATC
Found at i:13570166 original size:10 final size:10
Alignment explanation
Indices: 13570153--13570251 Score: 64
Period size: 10 Copynumber: 10.4 Consensus size: 10
13570143 AAAAAAATAT
13570153 TAAAAATTTA
1 TAAAAATTTA
**
13570163 TAAAAA-TCG
1 TAAAAATTTA
* *
13570172 TAAAAAGTAA
1 TAAAAATTTA
*
13570182 TAAAAA-TTG
1 TAAAAATTTA
*
13570191 TAAAATTTTA
1 TAAAAATTTA
13570201 TAAAAA-TTA
1 TAAAAATTTA
*
13570210 T-AAAATATA
1 TAAAAATTTA
* *
13570219 TAGAAATATA
1 TAAAAATTTA
*
13570229 -AAAAAATTA
1 TAAAAATTTA
*
13570238 TAAAATTTTA
1 TAAAAATTTA
13570248 TAAA
1 TAAA
13570252 GTAGTAAGAA
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
8 4 0.06
9 26 0.38
10 38 0.56
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:13570169 original size:19 final size:19
Alignment explanation
Indices: 13570145--13570242 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 19
13570135 AATATTAGAA
13570145 AAAAATATTAAAAATTTAT
1 AAAAATATTAAAAATTTAT
** * *
13570164 AAAAATCGTAAAAAGTAAT
1 AAAAATATTAAAAATTTAT
*
13570183 AAAAAT-TGTAAAATTTTAT
1 AAAAATAT-TAAAAATTTAT
*
13570202 -AAAA-ATTATAAAATATAT
1 AAAAATATTA-AAAATTTAT
* * *
13570220 AGAAATATAAAAAAATTAT
1 AAAAATATTAAAAATTTAT
13570239 AAAA
1 AAAA
13570243 TTTTATAAAG
Statistics
Matches: 59, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
17 2 0.03
18 12 0.20
19 42 0.71
20 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATATTAAAAATTTAT
Found at i:13570214 original size:47 final size:48
Alignment explanation
Indices: 13570153--13570251 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 48
13570143 AAAAAAATAT
* *
13570153 TAAAAATTTATAAAA-ATCGTA-AAA-AGTAATAAAAATTGTAAAATTTTA
1 TAAAAATTTATAAAATAT-ATAGAAATA-TAA-AAAAATTATAAAATTTTA
13570201 TAAAAA-TTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTA
1 TAAAAATTTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTA
13570248 TAAA
1 TAAA
13570252 GTAGTAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
47 31 0.67
48 14 0.30
49 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (48 bp):
TAAAAATTTATAAAATATATAGAAATATAAAAAAATTATAAAATTTTA
Found at i:13570233 original size:28 final size:28
Alignment explanation
Indices: 13570202--13570290 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 28
13570192 AAAATTTTAT
13570202 AAAAATTATAAAATATATAGAAATATAA
1 AAAAATTATAAAATATATAGAAATATAA
* *
13570230 AAAAATTATAAAATTTTATA-AAGTAGTAA
1 AAAAATTATAAAA-TATATAGAAATA-TAA
* *
13570259 GAAAAATTATACAAAATGTAAAGAAATATAA
1 -AAAAATTAT--AAAATATATAGAAATATAA
13570290 A
1 A
13570291 TTTCGTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
28 17 0.34
29 8 0.16
30 10 0.20
31 7 0.14
32 8 0.16
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAAATTATAAAATATATAGAAATATAA
Found at i:13570569 original size:30 final size:30
Alignment explanation
Indices: 13570516--13570574 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13570506 AATTTTTTAT
13570516 ATTTTTATTATAATTAATAATTTTTCTAAA
1 ATTTTTATTATAATTAATAATTTTTCTAAA
* *
13570546 ATTTATTATTAT-TTTAATTATTTTTCTAA
1 ATTT-TTATTATAATTAATAATTTTTCTAA
13570575 TTTTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTTATTATAATTAATAATTTTTCTAAA
Found at i:13570746 original size:88 final size:84
Alignment explanation
Indices: 13570590--13570803 Score: 248
Period size: 88 Copynumber: 2.5 Consensus size: 84
13570580 AATAAGAGTA
* * *
13570590 AGGGCTTATTTGCTTTTTTGAAAAAATTTGAGTCTTTTTTATGCATTTTGAAAGTTCAAATACTC
1 AGGGCTTAATTGCTTTCTTGAAAAAATTTGAGCCTTTTTTATGCATTTTGAAAGTTCAAATACTC
** *
13570655 AATTGAGTGGAAACAAAAG
66 AATTGAGTAAAAAAAAAAG
* * *
13570674 CAGGGTCTTAATTGCTTTCTTGAAGAAGTTTGATAGCCTTTTTTATGCATTTTGAAAGTTCAAGT
1 -AGGG-CTTAATTGCTTTCTTGAAAAAATTTG--AGCCTTTTTTATGCATTTTGAAAGTTCAAAT
*
13570739 GCTCAATTGAGTAAAAAAAAAAG
62 ACTCAATTGAGTAAAAAAAAAAG
** * **
13570762 AGGGACTTAATTTTTTTTTTGAAAAAATTTGAGGATTTTTTA
1 AGGG-CTTAATTGCTTTCTTGAAAAAATTTGAGCCTTTTTTA
13570804 GACCCTTATG
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
85 13 0.12
86 22 0.20
87 25 0.23
88 48 0.44
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (84 bp):
AGGGCTTAATTGCTTTCTTGAAAAAATTTGAGCCTTTTTTATGCATTTTGAAAGTTCAAATACTC
AATTGAGTAAAAAAAAAAG
Found at i:13578726 original size:43 final size:43
Alignment explanation
Indices: 13578566--13578736 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
13578556 ACATAGGATT
*
13578566 TCGATATGT-ATTTTCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
13578609 TCGA-ATTGTG-TATACGTATAAGACCATGTTTGGGACATTGGCA
1 TCGATA-TGTGAT-TACATGTAAGACCACGTCTGGGACGTTGGCA
* ** *
13578652 TCG-TATTTGATT-TGTGTAAGACC-CTATCTGGGAC-TGTGGCA
1 TCGATATGTGATTACATGTAAGACCAC-GTCTGGGACGT-TGGCA
*
13578693 TCGATATGTGATTACATGTAAGACTACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
13578736 T
1 T
13578737 TGTACGAGCC
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 1 0.01
41 24 0.24
42 14 0.14
43 59 0.59
44 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:13584051 original size:25 final size:25
Alignment explanation
Indices: 13584020--13584069 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13584010 TTGTGTAAAT
13584020 TAATCCATTGTTGTTCAATAATTCA
1 TAATCCATTGTTGTTCAATAATTCA
13584045 TAATCCATTGTTGTTCAATAATTCA
1 TAATCCATTGTTGTTCAATAATTCA
13584070 AATAGCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (25 bp):
TAATCCATTGTTGTTCAATAATTCA
Found at i:13584712 original size:16 final size:17
Alignment explanation
Indices: 13584691--13584728 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
13584681 TTAATTACTG
13584691 ATTACAACTT-TATTCC
1 ATTACAACTTCTATTCC
*
13584707 ATTAC-AGTTCTATTCC
1 ATTACAACTTCTATTCC
13584723 ATTACA
1 ATTACA
13584729 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTACAACTTCTATTCC
Found at i:13594429 original size:24 final size:24
Alignment explanation
Indices: 13594391--13594483 Score: 123
Period size: 24 Copynumber: 3.9 Consensus size: 24
13594381 AGCTGCATCT
* *
13594391 TTGTGGTCAAACCACTCAATAACA
1 TTGTGGTCAAGCCACTCAATAGCA
*
13594415 TTGTGGCCAAGCCACTCAATAGCA
1 TTGTGGTCAAGCCACTCAATAGCA
* * *
13594439 TTCTGGGCAAGCTACTCAATAGCA
1 TTGTGGTCAAGCCACTCAATAGCA
*
13594463 TTGGGGTCAAGCCACTCAATA
1 TTGTGGTCAAGCCACTCAATA
13594484 TTGCAGTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (24 bp):
TTGTGGTCAAGCCACTCAATAGCA
Found at i:13608505 original size:25 final size:26
Alignment explanation
Indices: 13608456--13608505 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
13608446 CACTAAATTT
* *
13608456 TTACCTTATTTTACTTAATTATTAAA
1 TTACCTTATTTAACCTAATTATTAAA
*
13608482 TTACCTT-TTTAACCTACTTATTAA
1 TTACCTTATTTAACCTAATTATTAA
13608506 CCTTAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (26 bp):
TTACCTTATTTAACCTAATTATTAAA
Found at i:13616389 original size:25 final size:25
Alignment explanation
Indices: 13616361--13616408 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
13616351 GAGAACATAA
13616361 ATGTGCTAATAATCAGAGAGCACCG
1 ATGTGCTAATAATCAGAGAGCACCG
13616386 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
13616409 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACCG
Found at i:13617449 original size:50 final size:50
Alignment explanation
Indices: 13617367--13617639 Score: 411
Period size: 50 Copynumber: 5.5 Consensus size: 50
13617357 TATCCTAGAT
** * * *
13617367 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * * * * *
13617417 ATGGTCTTACAGGGGACCTCTTATCTCAGTGCCAACACTATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
13617467 ATGGTCTTACATGAGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
13617517 ATGGTATTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
13617567 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
13617617 ATGGTCTTACATGGGACCTCTCA
1 ATGGTCTTACATGGGACCTCTCA
13617640 GAATTTCAAT
Statistics
Matches: 200, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 200 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:13622244 original size:30 final size:30
Alignment explanation
Indices: 13622210--13622266 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13622200 CCTAAGACAC
*
13622210 GGGCGTGTGTCTTAGCCGTGTGTGACACAT
1 GGGCGTGTGTCTCAGCCGTGTGTGACACAT
*
13622240 GGGCGTGTTTCTCAGCCGTGTGTGACA
1 GGGCGTGTGTCTCAGCCGTGTGTGACA
13622267 TACTGCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.37, T:0.30
Consensus pattern (30 bp):
GGGCGTGTGTCTCAGCCGTGTGTGACACAT
Found at i:13644637 original size:12 final size:13
Alignment explanation
Indices: 13644606--13644637 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13644596 GTTGTAAAGT
13644606 TTTATTT-TATTA
1 TTTATTTATATTA
13644618 TTTATTTAT-TTA
1 TTTATTTATATTA
13644630 TTTATTTA
1 TTTATTTA
13644638 CTTAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:13646648 original size:41 final size:41
Alignment explanation
Indices: 13646591--13646806 Score: 261
Period size: 41 Copynumber: 5.3 Consensus size: 41
13646581 TTCTGACCTT
* * *
13646591 TCGGGGCTTCAGCGGCGTTTTTGAAAAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
** *
13646632 TCGGGGCTTTAGCGGCGCTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
* * * *
13646673 TCGAGACTTTAGCGGCATTTTTGAAAAAGTGCCGCTAAAGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
* * *
13646714 TTGGTGCTTTAGCGACATTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
* * * *
13646755 TCGGTGCTATAGTGGCATTTTTGAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
* *
13646796 TCTGTGCTTTA
1 TCGGGGCTTTA
13646807 AACATTTTAT
Statistics
Matches: 150, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
Found at i:13647158 original size:15 final size:15
Alignment explanation
Indices: 13647138--13647185 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
13647128 ACTATCTTAA
13647138 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
13647153 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
13647167 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
13647182 GGTT
1 GGTT
13647186 GGAGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:13647215 original size:21 final size:21
Alignment explanation
Indices: 13647153--13647222 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
13647143 ATGGATTATG
* *
13647153 GGTTTAGGGATTATGGT-TTAT
1 GGTTTAGGGGTTA-GGTGTTAA
* *
13647174 GGTTTAAGGGTT-GGAGTTTAA
1 GGTTTAGGGGTTAGGTG-TTAA
13647195 GGTTTAGGGGTTAGGTGTTAA
1 GGTTTAGGGGTTAGGTGTTAA
13647216 GGGTTTA
1 -GGTTTA
13647223 TGATTCATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 2 0.05
21 28 0.72
22 9 0.23
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGTGTTAA
Found at i:13647239 original size:36 final size:35
Alignment explanation
Indices: 13647195--13647262 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
13647185 TGGAGTTTAA
*
13647195 GGTTTAGGGGTTAGGTGTTAAGGGTTTATGATTCAT
1 GGTTTAGGGGTTAGGGGTTAAGGGTTTA-GATTCAT
*
13647231 GGTTTAGGGGTTAGGGGTTTAGGGTTTAGATT
1 GGTTTAGGGGTTAGGGGTTAAGGGTTTAGATT
13647263 AATTAGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.18, C:0.01, G:0.40, T:0.41
Consensus pattern (35 bp):
GGTTTAGGGGTTAGGGGTTAAGGGTTTAGATTCAT
Found at i:13647428 original size:21 final size:22
Alignment explanation
Indices: 13647404--13647496 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
13647394 TAGGGATTAT
* *
13647404 GGTTTATGGTTTAAGTGTT-GG
1 GGTTTAAGGTTTAAGGGTTAGG
13647425 GGTTTAAGGTTTAAGGGTTAGG
1 GGTTTAAGGTTTAAGGGTTAGG
* * *
13647447 GGTACTTAAGGGTTAGGGGTTTA-T
1 GGT--TTAAGGTTTAAGGG-TTAGG
* * *
13647471 GATTTAAGGTTTAGGGGATAGG
1 GGTTTAAGGTTTAAGGGTTAGG
13647493 GGTT
1 GGTT
13647497 AGTGGTTTAG
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
21 19 0.33
22 21 0.37
24 14 0.25
25 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.40, T:0.39
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGGGTTAGG
Found at i:13647456 original size:38 final size:39
Alignment explanation
Indices: 13647414--13647487 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
13647404 GGTTTATGGT
* *
13647414 TTAAGTGTT-GGGGTTTAAGGTTTAAGGGTTAGGGGTAC
1 TTAAGGGTTAGGGGTTTAAGATTTAAGGGTTAGGGGTAC
* *
13647452 TTAAGGGTTAGGGGTTTATGATTTAAGGTTTAGGGG
1 TTAAGGGTTAGGGGTTTAAGATTTAAGGGTTAGGGG
13647488 ATAGGGGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.38
Consensus pattern (39 bp):
TTAAGGGTTAGGGGTTTAAGATTTAAGGGTTAGGGGTAC
Found at i:13648293 original size:40 final size:40
Alignment explanation
Indices: 13648249--13648378 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
13648239 TTTTCCCCAT
13648249 TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCC
1 TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCC
* * *** ** *
13648289 TTTATTTTTCCC--CCCAATT-TCCCC-AAATCGACAGCTCT
1 TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGA-TTC-CC
*
13648327 TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCAC
1 TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCC
13648367 TTTATTTTTCCC
1 TTTATTTTTCCC
13648379 TTTAATTTCC
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
36 4 0.06
37 6 0.09
38 18 0.27
40 29 0.43
41 6 0.09
42 4 0.06
ACGTcount: A:0.18, C:0.38, G:0.03, T:0.40
Consensus pattern (40 bp):
TTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCC
Found at i:13648345 original size:78 final size:78
Alignment explanation
Indices: 13648248--13648396 Score: 262
Period size: 78 Copynumber: 1.9 Consensus size: 78
13648238 TTTTTCCCCA
*
13648248 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCCCTTTATTTTTCCCCCCAATTTCCCC
1 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCACTTTATTTTTCCCCCCAATTTCCCC
13648313 AAATCGACAGCTC
66 AAATCGACAGCTC
***
13648326 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCACTTTATTTTTCCCTTTAATTTCCCC
1 TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCACTTTATTTTTCCCCCCAATTTCCCC
13648391 AAATCG
66 AAATCG
13648397 GCAACCCTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.19, C:0.37, G:0.03, T:0.40
Consensus pattern (78 bp):
TTTTATTTTTCCCAAACCATTTCTCCCCTACCCCGATTCACTTTATTTTTCCCCCCAATTTCCCC
AAATCGACAGCTC
Found at i:13649075 original size:42 final size:43
Alignment explanation
Indices: 13648890--13649242 Score: 401
Period size: 43 Copynumber: 8.3 Consensus size: 43
13648880 TTATTTCTAA
* * * *
13648890 AAACGCCGCTATA-AGTCATGACCTTTAGCGGCGCTTATACAAC
1 AAACGCCGCTATAGA-TCAGGACCTTTAGCGGCGCTTTTTCCAC
*
13648933 AAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
*
13648976 AAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
*
13649019 AAACGCCGCTATAGATCAGGACTTTTAGCGGCAG-TTTTT-CAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGC-GCTTTTTCCAC
* * * * * *
13649061 AAATGCCGCTATAGATCAGAACCTTTACCGACGCTTTTTACAA
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * ** *
13649104 AAACGCCGCTATAGCTCAAGATCTTTAGCGGC-AATTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * *
13649146 AAACGCCGCTATAAATCAAGACCTTTAGCGGCGCATTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* ** *
13649189 AAACGCCACTATAGATCAAAACCTTTAGCGACGC-TTTTCCAAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCC-AC
13649232 AAACGCCGCTA
1 AAACGCCGCTA
13649243 AAAACATATC
Statistics
Matches: 269, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.00
42 74 0.28
43 192 0.71
44 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
Found at i:13649099 original size:85 final size:85
Alignment explanation
Indices: 13648890--13649242 Score: 358
Period size: 85 Copynumber: 4.1 Consensus size: 85
13648880 TTATTTCTAA
* * * *
13648890 AAACGCCGCTATA-AGTCATG-ACCTTTAGCGGCGCTTATACAACAAACGCCGCTATAGATCGGG
1 AAACGCCGCTATAGA-TCA-GAACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGG
*
13648953 ACCTTTAGCGGC-GCTTTTTCCAC
64 ACTTTTAGCGGCAG-TTTTT-CAC
* *
13648976 AAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGAACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
13649041 TTTTAGCGGCAGTTTTTCAC
66 TTTTAGCGGCAGTTTTTCAC
* * * * * * *
13649061 AAATGCCGCTATAGATCAGAACCTTTACCGACGCTTTTTACAAAAACGCCGCTATAGCTCAAGA-
1 AAACGCCGCTATAGATCAGAACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
* **
13649125 TCTTTAGCGGCAATTTCCCAC
66 T-TTTAGCGGCAGTTTTTCAC
* * * * **
13649146 AAACGCCGCTATAAATCA-AGACCTTTAGCGGCGCATTTCCCACAAACGCCACTATAGATCAAAA
1 AAACGCCGCTATAGATCAGA-ACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGA
* * *
13649210 CCTTTAGCGAC-GCTTTTCCAAC
65 CTTTTAGCGGCAG-TTTTTC-AC
13649232 AAACGCCGCTA
1 AAACGCCGCTA
13649243 AAAACATATC
Statistics
Matches: 226, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
84 2 0.01
85 139 0.62
86 83 0.37
87 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGAACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
TTTTAGCGGCAGTTTTTCAC
Found at i:13649130 original size:128 final size:126
Alignment explanation
Indices: 13648890--13649242 Score: 413
Period size: 128 Copynumber: 2.8 Consensus size: 126
13648880 TTATTTCTAA
* * * *
13648890 AAACGCCGCTATAAGTCATGACCTTTAGCGGCGCTTATACAACAAACGCCGCTATAGATCGGGAC
1 AAACGCCGCTATAA-TCAAGACCTTTAGCGGCGCTTTTAC-ACAAACGCCGCTATAGATCAGAAC
* * ** ** *
13648955 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCGGGACCTTTAGCGGCGCTTTTTCCAC
64 CTTTAGCGACGCTTTTTCCAAAAACGCCGCTATAGATCAAGACCTTTAGCGGC-AATTTCCCAC
* * * *
13649019 AAACGCCGCTATAGATCAGGACTTTTAGCGGCAG-TTTTTCACAAATGCCGCTATAGATCAGAAC
1 AAACGCCGCTATA-ATCAAGACCTTTAGCGGC-GCTTTTACACAAACGCCGCTATAGATCAGAAC
* * * *
13649083 CTTTACCGACGCTTTTTACAAAAACGCCGCTATAGCTCAAGATCTTTAGCGGCAATTTCCCAC
64 CTTTAGCGACGCTTTTTCCAAAAACGCCGCTATAGATCAAGACCTTTAGCGGCAATTTCCCAC
** * *
13649146 AAACGCCGCTATAAATCAAGACCTTTAGCGGCGCATTTCCCACAAACGCCACTATAGATCAAAAC
1 AAACGCCGCTAT-AATCAAGACCTTTAGCGGCGC-TTTTACACAAACGCCGCTATAGATCAGAAC
13649211 CTTTAGCGACGC-TTTTCCAACAAACGCCGCTA
64 CTTTAGCGACGCTTTTTCCAA-AAACGCCGCTA
13649243 AAAACATATC
Statistics
Matches: 191, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
126 1 0.01
127 42 0.22
128 114 0.60
129 32 0.17
130 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (126 bp):
AAACGCCGCTATAATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGAACCT
TTAGCGACGCTTTTTCCAAAAACGCCGCTATAGATCAAGACCTTTAGCGGCAATTTCCCAC
Found at i:13661273 original size:108 final size:108
Alignment explanation
Indices: 13661161--13661357 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 108
13661151 CAAAAACGTC
* * *
13661161 GCAAAAAATTATTTCATTTTGAATAAAATAACACCGTT-TTCTTATGATAAAAATTTTTATTTTA
1 GCAAAAAATTATTTCATTTTGAACAAAATAACACCATTCTTCTTATCA-AAAAATTTTTATTTTA
13661225 TTTTTTATAAATTGATTTATTTTTTGTTTGCGGCGTTTTTATGT
65 TTTTTTATAAATTGATTTATTTTTTGTTTGCGGCGTTTTTATGT
* ** *
13661269 GCAAAAAATTATTTCATTTTGAACAAAATGATGCCATTCTTCTTATCAAAAAATTTTTATTTTGT
1 GCAAAAAATTATTTCATTTTGAACAAAATAACACCATTCTTCTTATCAAAAAATTTTTATTTTAT
13661334 TTTTTATAAATTGATTTATTTTTT
66 TTTTTATAAATTGATTTATTTTTT
13661358 ACGGCGTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 73 0.90
109 8 0.10
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (108 bp):
GCAAAAAATTATTTCATTTTGAACAAAATAACACCATTCTTCTTATCAAAAAATTTTTATTTTAT
TTTTTATAAATTGATTTATTTTTTGTTTGCGGCGTTTTTATGT
Found at i:13661510 original size:96 final size:99
Alignment explanation
Indices: 13661405--13661692 Score: 375
Period size: 96 Copynumber: 2.8 Consensus size: 99
13661395 TAAAAACGCT
13661405 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTG
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTG
*
13661470 TTTTTTATAAATTGATTTA-TTTTT-T-GTTTGC
66 TTTTTTATAAATTGATTTATTTTTTATAGTTTCC
* *
13661501 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGTTATGCTAAAATTTTTTTATTTTG
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTG
* *
13661566 TATTTTATAAATTGATTTATTTTTGCGGCGTTTTTATATTTTCC
66 TTTTTTATAAATTGATTTA----T------TTTTTATAGTTTCC
* * * **
13661610 GCAAAAAAATATTTCATTTTGAACAAAATGACACCGTTTTGCTACGCTAAAAAAATTTTATTTTG
1 GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTG
13661675 TTTTTTATAAATTGATTT
66 TTTTTTATAAATTGATTT
13661693 TTTATAAAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
96 81 0.49
107 5 0.03
108 1 0.01
109 79 0.48
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (99 bp):
GCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTG
TTTTTTATAAATTGATTTATTTTTTATAGTTTCC
Found at i:13662222 original size:28 final size:28
Alignment explanation
Indices: 13662191--13662252 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
13662181 AACGTCTAAC
13662191 CCCTAACCCCTAAACCTTAAATCC-CAAT
1 CCCTAACCCCTAAACCTT-AATCCACAAT
* * *
13662219 CCCTAATCCCTAATCCTTAATCCATAAT
1 CCCTAACCCCTAAACCTTAATCCACAAT
13662247 CCCTAA
1 CCCTAA
13662253 ATCCATACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (28 bp):
CCCTAACCCCTAAACCTTAATCCACAAT
Found at i:13662226 original size:7 final size:7
Alignment explanation
Indices: 13662186--13662252 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
13662176 CCCCTAACGT
*
13662186 CTAACCC
1 CTAATCC
*
13662193 CTAACCC
1 CTAATCC
*
13662200 CTAAACC
1 CTAATCC
*
13662207 TTAAATCC
1 CT-AATCC
13662215 C-AATCC
1 CTAATCC
13662221 CTAATCC
1 CTAATCC
13662228 CTAATCC
1 CTAATCC
*
13662235 TTAATCC
1 CTAATCC
*
13662242 ATAATCC
1 CTAATCC
13662249 CTAA
1 CTAA
13662253 ATCCATACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
6 6 0.12
7 41 0.80
8 4 0.08
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.25
Consensus pattern (7 bp):
CTAATCC
Found at i:13662268 original size:15 final size:15
Alignment explanation
Indices: 13662205--13662268 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 15
13662195 AACCCCTAAA
*
13662205 CCTTAAATCC-CAAT
1 CCTTAAATCCATAAT
* *
13662219 CCCT-AATCCCTAAT
1 CCTTAAATCCATAAT
13662233 CCTT-AATCCATAAT
1 CCTTAAATCCATAAT
* *
13662247 CCCTAAATCCATACT
1 CCTTAAATCCATAAT
13662262 CCTTAAA
1 CCTTAAA
13662269 CCTTAAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
13 5 0.12
14 21 0.51
15 15 0.37
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:13662494 original size:15 final size:15
Alignment explanation
Indices: 13662470--13662507 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13662460 TCACGCATCT
*
13662470 AACCCCTAACCCATA
1 AACCCTTAACCCATA
*
13662485 AACCCTTAACCCCTA
1 AACCCTTAACCCATA
13662500 AA-CCTTAA
1 AACCCTTAA
13662508 ATCCCAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCTTAACCCATA
Found at i:13662522 original size:21 final size:20
Alignment explanation
Indices: 13662470--13662532 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
13662460 TCACGCATCT
* *
13662470 AACCCCTAACCCATAAACCC
1 AACCCCTAAACCATAATCCC
*
13662490 TTAACCCCTAAACCTTAAATCCC
1 --AACCCCTAAACCAT-AATCCC
*
13662513 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
13662533 TAATCCATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.17
21 12 0.34
22 12 0.34
23 5 0.14
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:13662731 original size:282 final size:280
Alignment explanation
Indices: 13662049--13662731 Score: 917
Period size: 282 Copynumber: 2.4 Consensus size: 280
13662039 AATATATTTG
*
13662049 ATTTATTATTATCTCTTTTACAATTATACAAGAACATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
* *
13662114 ATCTAAACTCAAAACCTTAACCCGACCCCTGAATCCCTAAACCTTAAATTCCTAACTTTTAACCC
66 ATCTAAACCCAAAACCCTAACCCGA--CC---A---CTAAACC-------CCTAACTTTTAACCC
* * * * *
13662179 CTAACGTCTAACCCCTAACCCCTAAACCTTAAATCCCAATCCCTAATCCCTAATCCTTAATCCAT
116 CTAACGTCTAACCCCTAACCCATAAACCTTAAACCCCAAACCCTAATCCCTAACCCTTAAACCAT
* *
13662244 AATCCCTAAATCCATACTCCTTAAACCTTAAAATGTGAACTCCTAAACCAGCCTTAAATATTAAA
181 AATCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATATTAAA
* *
13662309 TTAATCATATACCCTAAACTAAAAACCCTAAACAA
246 TAAATCATATACCCTAAACCAAAAACCCTAAACAA
13662344 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
* * * *
13662409 ATCTAAACTCAAAACCCTAACCCGACCACTGAATCCCTAACTTTTAACCCCTCACGCATCTAACC
66 ATCTAAACCCAAAACCCTAACCCGACCACTAAACCCCTAACTTTTAACCCCTAACG--TCTAACC
*
13662474 CCTAACCCATAAACCCTT-AACCCCTAAACCTTAAATCCC-AACCCTTAAACCATAATCCCT-AA
129 CCTAACCCATAAA-CCTTAAACCCC-AAACCCT-AATCCCTAACCCTTAAACCATAATCCCTAAA
* * *
13662536 TCCATACTCCCTAAATCTTAAAATATGAACTCCTAAACCGGCCTTAAATATTAAATAAATTATAT
191 TCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATATTAAATAAATCATAT
13662601 ACCCTAAACCAAAAACCCTAAACAA
256 ACCCTAAACCAAAAACCCTAAACAA
13662626 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAA-AATTA
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
* ** *
13662689 ATCTAAACGCCCAAAATCCTAACTGGACCCCTAAACCCCTAAC
66 ATCTAAA--CCCAAAACCCTAACCCGACCACTAAACCCCTAAC
13662732 CCTCTAACCC
Statistics
Matches: 356, Mismatches: 25, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
280 32 0.09
281 5 0.01
282 189 0.53
283 28 0.08
284 6 0.02
287 5 0.01
290 1 0.00
293 2 0.01
295 88 0.25
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (280 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTA
ATCTAAACCCAAAACCCTAACCCGACCACTAAACCCCTAACTTTTAACCCCTAACGTCTAACCCC
TAACCCATAAACCTTAAACCCCAAACCCTAATCCCTAACCCTTAAACCATAATCCCTAAATCCAT
ACTCCCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATATTAAATAAATCATATACCCT
AAACCAAAAACCCTAAACAA
Found at i:13662813 original size:15 final size:14
Alignment explanation
Indices: 13662764--13662812 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
13662754 TCTCAACCCT
13662764 TAAACCATAATCCC
1 TAAACCATAATCCC
* *
13662778 TAATCCATAATGCC
1 TAAACCATAATCCC
*
13662792 TAAACCTATACTCCC
1 TAAACC-ATAATCCC
13662807 TAAACC
1 TAAACC
13662813 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:13663208 original size:41 final size:41
Alignment explanation
Indices: 13663157--13663275 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
13663147 TAAAAAGTTT
* * * *
13663157 TTAGCAGCGCTTTTCCAAAAATGCTGCTAAAGCCCCCATCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAACA
* * * *
13663198 TTAGCGGCGCTTTTACAAAAACGCCGTTAAAGCCCCTAACG
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAACA
*
13663239 TTAGCGGTGCTTTTCCAAAAACGCCGCTAAAGCCCCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCC
13663276 GAAAGGTAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAACA
Found at i:13663373 original size:39 final size:41
Alignment explanation
Indices: 13663317--13663462 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
13663307 TGTTTTTTGT
13663317 GGCGTTTTTCTGT-AAAACGCCGCTAATGCTC-ATTTTTAGC
1 GGCGTTTTT-TGTAAAAACGCCGCTAATGCTCGATTTTTAGC
* * *
13663357 GGCGTTTTTT-TAAAAACACCGCTAATGCTCGATCTTTAGT
1 GGCGTTTTTTGTAAAAACGCCGCTAATGCTCGATTTTTAGC
* * *** * *
13663397 GACGATTTCCAT-AAAGCGCCGCTAATGCTCGATTTTTACC
1 GGCGTTTTTTGTAAAAACGCCGCTAATGCTCGATTTTTAGC
**
13663437 GGCGTTTTTTGTCCAAACGCCGCTAA
1 GGCGTTTTTTGTAAAAACGCCGCTAA
13663463 AAGCCTGTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
38 1 0.01
39 18 0.22
40 52 0.63
41 12 0.14
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (41 bp):
GGCGTTTTTTGTAAAAACGCCGCTAATGCTCGATTTTTAGC
Found at i:13663683 original size:86 final size:86
Alignment explanation
Indices: 13663514--13663730 Score: 242
Period size: 86 Copynumber: 2.5 Consensus size: 86
13663504 AAAAGAGGTG
* * *
13663514 CATGAACTTGAACCATTTATTTTTGCTAATTTGTTGCATATAAGTTGTTATAAAGATTGAAAAAT
1 CATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGATTGAAAAAT
* ****
13663579 TAGTCTGATTTTTGGTAAATA
66 TAGCCTGATTGCCAGTAAATA
* *
13663600 CATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAGAA-ATTGAAGAT
1 CATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATA-AAGATTGAAAAA
13663664 TTAGCCCT-ATTGCCAGTAAATA
65 TTAG-CCTGATTGCCAGTAAATA
* * * * *
13663686 TATGAACTATGAA-TAGTTGATTTGTGCTAATTTGTTTCACATAAA
1 CATGAACT-TGAACCA-TTGATTTTTGCTAATTTGTTGCATATAAA
13663731 CTGTTGTAAG
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
86 78 0.70
87 34 0.30
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (86 bp):
CATGAACTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCGTTATAAAGATTGAAAAAT
TAGCCTGATTGCCAGTAAATA
Found at i:13663786 original size:40 final size:39
Alignment explanation
Indices: 13663742--13663826 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 39
13663732 TGTTGTAAGA
* *
13663742 TTGATTTTAATTAATTTCTTGCATA-TAAATTATTGAAATG
1 TTGATTTTAA-TAATTCCTTACATATTAAA-TATTGAAATG
* *
13663782 TTGATTTTTGATAATTCCTTACATATTAAATATTGAAGTG
1 TTGA-TTTTAATAATTCCTTACATATTAAATATTGAAATG
13663822 TTGAT
1 TTGAT
13663827 ATTCAAGCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 29 0.74
41 9 0.23
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (39 bp):
TTGATTTTAATAATTCCTTACATATTAAATATTGAAATG
Found at i:13665454 original size:23 final size:24
Alignment explanation
Indices: 13665399--13665451 Score: 61
Period size: 29 Copynumber: 2.0 Consensus size: 24
13665389 AAGGCTTTCG
13665399 AGCCTAAAGTCTTTGACTTTGTACGCGAA
1 AGCCTAAAGTCTTTGACTTTGT-----AA
13665428 AGCCTAAAGTCTTTGACTTTGTAA
1 AGCCTAAAGTCTTTGACTTTGTAA
13665452 GCCGACCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 2 0.08
29 22 0.92
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCCTAAAGTCTTTGACTTTGTAA
Found at i:13667114 original size:43 final size:43
Alignment explanation
Indices: 13667024--13667355 Score: 228
Period size: 43 Copynumber: 7.6 Consensus size: 43
13667014 AAATATTTTT
* *
13667024 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-G-AAAAGGCGCCGC
1 TAAAAGTCATGATTTATAGCGGCGTTTGTGGTAGAA-GCGCCGC
** * * *
13667065 TAAAAGTCATTCTTTATAGTGGCTTTTGTGGTAGAAGCGTCGC
1 TAAAAGTCATGATTTATAGCGGCGTTTGTGGTAGAAGCGCCGC
* * *
13667108 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAAGTGCCGC
1 TAAAAGTCATGATTTATAGCGGCGTTTGTGGTAGAAGCGCCGC
* * * *
13667151 TAAAGGTCATGATCTT-TAGCGGTGTTTGTGGTGGAAGTGCCGC
1 TAAAAGTCATGAT-TTATAGCGGCGTTTGTGGTAGAAGCGCCGC
* * * *
13667194 TAAAGGTCATGATCTT-TAGCGGCGTTTGTGGTGGAAGCACGGC
1 TAAAAGTCATGAT-TTATAGCGGCGTTTGTGGTAGAAGCGCCGC
* * * *** * *
13667237 TAAAGGTCATGATCTT-TAGCGGCATTTTTTCACATAAACGCCGC
1 TAAAAGTCATGAT-TTATAGCGGC-GTTTGTGGTAGAAGCGCCGC
* * * *
13667281 TAAAA-TTAGTGACGTTGTATATAACGGCGTTTTTGGTGGAAGCGCCGC
1 TAAAAGTCA-TGA---T-T-TATAGCGGCGTTTGTGGTAGAAGCGCCGC
* *
13667329 TAAATGTCATGATTTTTAGCGGCGTTT
1 TAAAAGTCATGATTTATAGCGGCGTTT
13667356 TTTCACATAA
Statistics
Matches: 234, Mismatches: 45, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
41 10 0.04
42 14 0.06
43 155 0.66
44 23 0.10
45 1 0.00
47 2 0.01
48 21 0.09
49 8 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TAAAAGTCATGATTTATAGCGGCGTTTGTGGTAGAAGCGCCGC
Found at i:13667179 original size:86 final size:86
Alignment explanation
Indices: 13667024--13667356 Score: 302
Period size: 86 Copynumber: 3.8 Consensus size: 86
13667014 AAATATTTTT
** *
13667024 TAAAAGTCATG-TTTTTAGCGGCGTTTGT-G-AAAAGGCGCCGCTAAAAGTCAT--TCTTTATAG
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAA-GCGCCGCTAAAGGTCATGATC-TT-TAG
* *
13667084 TGGCTTTTGTGGTAGAAGCGTCGC
63 CGGCTTTTGTGGTAGAAGCGCCGC
*
13667108 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAAGTGCCGCTAAAGGTCATGATCTTTAGCGG
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
* *
13667173 -TGTTTGTGGTGGAAGTGCCGC
66 CT-TTTGTGGTAGAAGCGCCGC
* * * *
13667194 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTGGAAGCACGGCTAAAGGTCATGATCTTTAGCGG
1 TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
* *** * *
13667259 CATTTTTTCACATAAACGCCGC
66 C-TTTTGTGGTAGAAGCGCCGC
* * * * *
13667281 TAAAA-TTAGTGACGTTGTATATAACGGCGTTTTTGGTGGAAGCGCCGCTAAATGTCATGATTTT
1 TAAAAGTCA-TGA--TT-T-T-TAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTT
13667345 TAGCGGCGTTTT
60 TAGCGGC-TTTT
13667357 TTCACATAAA
Statistics
Matches: 204, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
84 11 0.05
85 18 0.09
86 99 0.49
87 22 0.11
88 3 0.01
89 1 0.00
90 1 0.00
91 1 0.00
92 48 0.24
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (86 bp):
TAAAAGTCATGATTTTTAGCGGCGTTTGTGGTGGAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
CTTTTGTGGTAGAAGCGCCGC
Found at i:13667332 original size:92 final size:92
Alignment explanation
Indices: 13667213--13667400 Score: 268
Period size: 92 Copynumber: 2.0 Consensus size: 92
13667203 TGATCTTTAG
* *
13667213 CGGCGTTTGTGGTGGAAGCACGGCTAAAGGTCATGATCTTTAGCGGCATTTTTTCACATAAACGC
1 CGGCGTTTGTGGTGGAAGCACCGCTAAAGGTCATGATCTTTAGCGGCATTTTTTCACATAAACAC
* * *
13667278 CGCTAAAATTAGTGACGTTGTATATAA
66 CACTAAAATTAGCGACATTGTATATAA
* * * * *
13667305 CGGCGTTTTTGGTGGAAGCGCCGCTAAATGTCATGATTTTTAGCGGCGTTTTTTCACATAAACAC
1 CGGCGTTTGTGGTGGAAGCACCGCTAAAGGTCATGATCTTTAGCGGCATTTTTTCACATAAACAC
* *
13667370 CACTAAAATTAGCGACATTGTCTATAG
66 CACTAAAATTAGCGACATTGTATATAA
13667397 CGGC
1 CGGC
13667401 ACTTTTTGCG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (92 bp):
CGGCGTTTGTGGTGGAAGCACCGCTAAAGGTCATGATCTTTAGCGGCATTTTTTCACATAAACAC
CACTAAAATTAGCGACATTGTATATAA
Found at i:13668520 original size:46 final size:46
Alignment explanation
Indices: 13668444--13668579 Score: 150
Period size: 46 Copynumber: 3.0 Consensus size: 46
13668434 CTTACCCAAG
*
13668444 TTTCGAGCTCCTGCATATGTTG-CAGACTCGAGAATACATGAATAGA
1 TTTCGAGCTCCTGCATATGTTGTGA-ACTCGAGAATACATGAATAGA
* * ** *
13668490 -TTCTGAGCCCCTGCATATGTTGTGAACTCGAGAATACAAGTTTAGG
1 TTTC-GAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
* * * *
13668536 TTTCAATCTCCTACATATGTTGTGGACTCGAGAATACATGAATA
1 TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATA
13668580 TTAAGCCCTG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
45 3 0.04
46 66 0.90
47 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (46 bp):
TTTCGAGCTCCTGCATATGTTGTGAACTCGAGAATACATGAATAGA
Found at i:13674549 original size:82 final size:81
Alignment explanation
Indices: 13674383--13674595 Score: 266
Period size: 82 Copynumber: 2.6 Consensus size: 81
13674373 TTATTGTATG
* * * * *
13674383 AATTGCACATGCGTGCCCCTGTTTGTACTTCGCTACCCTGAATTGCACATATGTACCCTTGTTCG
1 AATTGCACATACGTGCCCCTATTCGTACTTCGCTACCCTGAATTGCACATACGTACCCCTGTTCG
*
13674448 TACTTCAGTACCCCTA
66 TACTTCACTACCCCTA
* * * * *
13674464 AATTGCACATATGTGCCCCTATTCATACTTCGGTACCCTTGAATTGCACATACGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGCTACCC-TGAATTGCACATACGTACCCCTGTTC
**
13674529 GTACTTTTCTACCCCTA
65 GTACTTCACTACCCCTA
* *
13674546 AATTGCACATACGTGCCCCTATTCGTACTTTGATACCTCTGAA-TGCACAT
1 AATTGCACATACGTGCCCCTATTCGTACTTCGCTACC-CTGAATTGCACAT
13674596 TTGTGCTCCC
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 39 0.35
82 73 0.65
83 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.34
Consensus pattern (81 bp):
AATTGCACATACGTGCCCCTATTCGTACTTCGCTACCCTGAATTGCACATACGTACCCCTGTTCG
TACTTCACTACCCCTA
Found at i:13674576 original size:41 final size:41
Alignment explanation
Indices: 13674383--13674575 Score: 219
Period size: 41 Copynumber: 4.7 Consensus size: 41
13674373 TTATTGTATG
* * *
13674383 AATTGCACATGCGTGCCCCTGTTTGTACTTCGCTA-CCCTG
1 AATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCCTA
* * *
13674423 AATTGCACATATGTACCCTTGTTCGTACTTCAG-TACCCCTA
1 AATTGCACATACGTGCCCCTGTTCGTACTTC-GCTACCCCTA
* * * * * *
13674464 AATTGCACATATGTGCCCCTATTCATACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCCTA
* **
13674505 AATTGCACATACGTGCCCCTGTTTGTACTTTTCTACCCCTA
1 AATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCCTA
*
13674546 AATTGCACATACGTGCCCCTATTCGTACTT
1 AATTGCACATACGTGCCCCTGTTCGTACTT
13674576 TGATACCTCT
Statistics
Matches: 127, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 29 0.23
41 98 0.77
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTCGTACTTCGCTACCCCTA
Found at i:13677019 original size:23 final size:23
Alignment explanation
Indices: 13676988--13677038 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
13676978 ACCTACTTTC
* * *
13676988 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
13677011 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
13677034 TTACA
1 TTACA
13677039 TTTCCGCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:13678637 original size:50 final size:50
Alignment explanation
Indices: 13678520--13678799 Score: 357
Period size: 50 Copynumber: 5.6 Consensus size: 50
13678510 GATAATTACA
* * ** * * * **
13678520 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
13678569 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
13678619 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCCCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13678668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13678718 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13678768 TGCCAACGCCATGTCCCAGTCATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
13678800 CTAGCTCATA
Statistics
Matches: 203, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
49 79 0.39
50 124 0.61
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13678672 original size:99 final size:100
Alignment explanation
Indices: 13678520--13678799 Score: 341
Period size: 99 Copynumber: 2.8 Consensus size: 100
13678510 GATAATTACA
* * * ** * * ** * * *
13678520 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCT-GTATTGCCAATGCCATATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCCCAGTGCCAACGCCATGTC
**
13678584 CCAGATATGGTCTTACATGGGAGTTCTCATATCGG
66 CCAGATATGGTCTTACATGGGACCTCTCATATCGG
* *
13678619 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCCCAGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCCCAGTGCCAACGCCATGTC
* *
13678683 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * *
13678718 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCCCAGTGCCAACGCCATGTC
13678783 CCAG-TCATGGTCTTACA
66 CCAGAT-ATGGTCTTACA
13678800 CTAGCTCATA
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
98 7 0.05
99 103 0.66
100 45 0.29
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCCCAGTGCCAACGCCATGTC
CCAGATATGGTCTTACATGGGACCTCTCATATCGG
Found at i:13678792 original size:149 final size:148
Alignment explanation
Indices: 13678520--13678798 Score: 387
Period size: 149 Copynumber: 1.9 Consensus size: 148
13678510 GATAATTACA
** * * * * *
13678520 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTATTGCCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGTGCCAACGCCATATCC
* ** * *
13678585 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTAC
66 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
13678650 GGGGACCTCTCATCCCAG
131 GGGGACCTCTCATCCCAG
* * * *
13678668 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-AGTGCCAACGCCATATC
* *
13678733 CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGTCATGGTCTTA
65 CCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTA
13678798 C
130 C
13678799 ACTAGCTCAT
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
148 40 0.36
149 72 0.64
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (148 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTAGTGCCAACGCCATATCC
CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
GGGGACCTCTCATCCCAG
Found at i:13681782 original size:23 final size:23
Alignment explanation
Indices: 13681751--13681801 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
13681741 ACCTATTTTC
*
13681751 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
13681774 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
13681797 TTACA
1 TTACA
13681802 ATAAGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:13689910 original size:138 final size:138
Alignment explanation
Indices: 13689758--13690309 Score: 863
Period size: 138 Copynumber: 4.0 Consensus size: 138
13689748 ACATAGATAA
* * * * *
13689758 AATTAATATATGAATTTGGTTCATATAAATTATTAATTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * *
13689823 TAAATAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
13689888 AAGAATTT
131 AAGAATAT
* * * *
13689896 AATTGATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* *
13689961 T-AACAGTTATAATAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTAGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
13690025 AAGAATAT
131 AAGAATAT
* * * *
13690033 AATTAATATATGAATTTAATTCATACAAAATATTATTTGTGTATATGTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* * *
13690098 TAAATAGTTATATTAATTAATTTCGGACAAAAGATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
13690163 AAGAATAT
131 AAGAATAT
* *
13690171 AATTAATATATGAATTTGATTCATAGAAAATATTAATTGTGTATATGTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
* *
13690236 TAAACAGTTATATTAATTAATTTCTGTCAAAATATAAATGACATGGAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
13690301 AAGAATAT
131 AAGAATAT
13690309 A
1 A
13690310 TTTTCCTTTT
Statistics
Matches: 379, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
137 124 0.33
138 255 0.67
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATGTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:13690062 original size:71 final size:71
Alignment explanation
Indices: 13689987--13690203 Score: 166
Period size: 71 Copynumber: 3.1 Consensus size: 71
13689977 TAATTTCGGT
13689987 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTAA
1 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTAA
13690052 TTCATA
66 TTCATA
*** * * * * * * *
13690058 CAAAATATTATTTG---TGTATATGTTACCAAATT-TATTA-ATATAA-ATAGTT-ATAT-T-AA
1 CAAAATA-TAAAAGACATGGA-A-ATTA--ATATTCTTTTAGAAAGAATATAATTAATATATGAA
**
13690114 -TTAATTTCGGA
61 TTTAA-TTCATA
* * *
13690125 CAAAAGATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTAA
13690190 TTCATA
66 TTCATA
*
13690196 GAAAATAT
1 CAAAATAT
13690204 TAATTGTGTA
Statistics
Matches: 101, Mismatches: 29, Indels: 32
0.62 0.18 0.20
Matches are distributed among these distances:
65 4 0.04
66 10 0.10
67 19 0.19
68 7 0.07
69 14 0.14
70 7 0.07
71 26 0.26
72 10 0.10
73 4 0.04
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (71 bp):
CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTAA
TTCATA
Found at i:13692386 original size:26 final size:26
Alignment explanation
Indices: 13692357--13692408 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13692347 AGAAAGCATA
13692357 GAAATAAAAAACAAATTTCCTATCTT
1 GAAATAAAAAACAAATTTCCTATCTT
13692383 GAAATAAAAAACAAATTTCCTATCTT
1 GAAATAAAAAACAAATTTCCTATCTT
13692409 ACCCCCACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (26 bp):
GAAATAAAAAACAAATTTCCTATCTT
Found at i:13713036 original size:50 final size:51
Alignment explanation
Indices: 13712982--13713088 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 51
13712972 AAGGTGGAAG
13712982 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTTCC-CAAAA-T-TATAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATG-TCCACAAAAGTGT-TAT
* * ** *
13713032 CAGTGGTAGTATATCTGCAATTCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
13713083 CAGTGG
1 CAGTGG
13713089 TGGCTTGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 3 0.06
50 35 0.71
51 10 0.20
52 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
CAGTGGCAGCATATCTGCAAACCAGTGGTGGCATGTCCACAAAAGTGTTAT
Found at i:13716762 original size:27 final size:27
Alignment explanation
Indices: 13716731--13716943 Score: 270
Period size: 27 Copynumber: 7.9 Consensus size: 27
13716721 CCCTAAAATA
*
13716731 GGTAAAATGACTGAAATACCCTTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
* *
13716758 GGTAAAATGA-TCAAAATACCCCTTTAG
1 GGTAAAATGACT-GAAATACCCCTATAG
*
13716785 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCTATAG
*
13716812 GGTAAAATGACCGAAATACTCCC-ATAG
1 GGTAAAATGACTGAAATAC-CCCTATAG
* * *
13716839 GGTAGAATGACCGAAATACCCTTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
13716866 GGTAAAATGACT-AGAATACCCCTATAG
1 GGTAAAATGACTGA-AATACCCCTATAG
**
13716893 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
**
13716920 GGTAAAATGACTGTTATACCCCTA
1 GGTAAAATGACTGAAATACCCCTA
13716944 AAAGATGAAA
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.02
27 154 0.94
28 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCTATAG
Found at i:13718378 original size:51 final size:49
Alignment explanation
Indices: 13718256--13718433 Score: 196
Period size: 51 Copynumber: 3.5 Consensus size: 49
13718246 GATGGTCATG
* *
13718256 TGTGTAGTACTATGTGTAGGTTACTACGTGTACCGGAATG-ATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGTAT-GGTCGCA
* * * * * *
13718306 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCGAATAGTTTCGATCGCG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GTAT-GGTCGCA
* * *
13718357 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT-ATGGTCGCA
13718408 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
13718434 TGTGAATTGG
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 4 0.04
50 32 0.30
51 71 0.66
52 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGTATGGTCGCA
Found at i:13718437 original size:26 final size:26
Alignment explanation
Indices: 13718357--13718437 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
13718347 TTCGATCGCG
13718357 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
13718383 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
13718408 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
13718434 TGTG
1 TGTG
13718438 AATTGGACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:13723883 original size:42 final size:42
Alignment explanation
Indices: 13723818--13723973 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
13723808 AAATCGTACA
*
13723818 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
13723860 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
13723902 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
13723946 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
13723974 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:13731210 original size:42 final size:42
Alignment explanation
Indices: 13731145--13731300 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
13731135 AAATCGTACA
*
13731145 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
13731187 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
13731229 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
13731273 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
13731301 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:13734790 original size:51 final size:52
Alignment explanation
Indices: 13734664--13734897 Score: 275
Period size: 51 Copynumber: 4.6 Consensus size: 52
13734654 AAAGTGATGG
* * * * * * *
13734664 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* * *
13734714 TCGCATGTGTAGTTCTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
*
13734765 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
* * * * *
13734816 TCACATGTGTAGTACTA--TGCAGGCTACTACGTGTATCGGATGGTAAT-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
13734865 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
13734898 TGAACCGAAC
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
49 41 0.25
50 37 0.23
51 82 0.51
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (52 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATCGA
Found at i:13734878 original size:100 final size:99
Alignment explanation
Indices: 13734660--13734897 Score: 282
Period size: 100 Copynumber: 2.4 Consensus size: 99
13734650 AGTGAAAGTG
* * * * *
13734660 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGATCACATGTGTA
* *
13734725 GTTCTATGTGCAGGCTACTATGCGTACCGGATAGT
66 GTACTA-GTGCAGGCTACTACGCGTACCGGATAGT
* * * * *
13734760 TTCGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGTTTCGATCACATGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGATCACATGT
* * *
13734824 GTAGTACTA-TGCAGGCTACTACGTGTATCGGATGGT
63 GTAGTACTAGTGCAGGCTACTACGCGTACCGGATAGT
13734860 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
13734898 TGAACCGAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 61 0.52
101 39 0.33
102 17 0.15
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (99 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGATCACATGTGTA
GTACTAGTGCAGGCTACTACGCGTACCGGATAGT
Found at i:13734957 original size:45 final size:45
Alignment explanation
Indices: 13734901--13734995 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
13734891 TACTATGTGA
* *
13734901 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGATTCT
* * * *
13734946 ACCGGACATCATTGATTAATAAGTTCGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGATTCT
13734991 ACCGA
1 ACCGA
13734996 GTATCAGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGATTCT
Found at i:13742465 original size:29 final size:29
Alignment explanation
Indices: 13742388--13742622 Score: 240
Period size: 29 Copynumber: 8.0 Consensus size: 29
13742378 ACGGCGTATC
* *
13742388 GACGAGCATCGATTAATGTAAAA-GGATGGT
1 GACGACCATCGAAT-ATG-AAAAGGGATGGT
* * *
13742418 GACGACCACCGATTAATGAAAAGGGTTGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
** *
13742448 TTCGACCATTGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
13742477 AACGACCATCGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
13742506 GACGACCATCAAATATGAAAAGGGATAGT
1 GACGACCATCGAATATGAAAAGGGATGGT
** ** *
13742535 TTCGACTGTC-AGCTATGAAAAGGGATGGT
1 GACGACCATCGA-ATATGAAAAGGGATGGT
*
13742564 GACGACCATCAAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
13742593 GACAACCATCGATTAATGAAAAGGGATGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
13742623 TTCAACCATC
Statistics
Matches: 172, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 124 0.72
30 47 0.27
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.21
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:13742553 original size:87 final size:88
Alignment explanation
Indices: 13742461--13742625 Score: 269
Period size: 87 Copynumber: 1.9 Consensus size: 88
13742451 GACCATTGAA
* *
13742461 TATGAAAAGGGATGGTAACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAAAT-ATGAA
1 TATGAAAAGGGATGGTAACGACCATCAAATATGAAAAGGGATGGTGACAACCATCAAATAATGAA
13742525 AAGGGATAGTTTCGACTGTCAGC
66 AAGGGATAGTTTCGACTGTCAGC
* * *
13742548 TATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGGATGGTGACAACCATCGATTAATGAA
1 TATGAAAAGGGATGGTAACGACCATCAAATATGAAAAGGGATGGTGACAACCATCAAATAATGAA
*
13742613 AAGGGATGGTTTC
66 AAGGGATAGTTTC
13742626 AACCATCGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 54 0.76
88 17 0.24
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (88 bp):
TATGAAAAGGGATGGTAACGACCATCAAATATGAAAAGGGATGGTGACAACCATCAAATAATGAA
AAGGGATAGTTTCGACTGTCAGC
Found at i:13744060 original size:42 final size:42
Alignment explanation
Indices: 13743999--13744084 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
13743989 GTCCATATGA
* *
13743999 CCTAAGACACAGGCTTGTGTCTCAGTTGTGTGAGACACACGG
1 CCTAAGACACAGGCGTGTGTCTCAGTCGTGTGAGACACACGG
*
13744041 CCTAAGACACGGGCGTGTGTCTCAGTCGTGTGAGACACACGG
1 CCTAAGACACAGGCGTGTGTCTCAGTCGTGTGAGACACACGG
13744083 CC
1 CC
13744085 ATGCGACACG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.21
Consensus pattern (42 bp):
CCTAAGACACAGGCGTGTGTCTCAGTCGTGTGAGACACACGG
Found at i:13745670 original size:22 final size:22
Alignment explanation
Indices: 13745624--13745670 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13745614 CTAAGAGTCG
* *
13745624 TAAACAGGATAGCTATCAGCTA
1 TAAACAGAATAGCTATCAGCCA
13745646 TAAACAGAATAGCTA-CAAGCCA
1 TAAACAGAATAGCTATC-AGCCA
13745668 TAA
1 TAA
13745671 GTTCAGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTATCAGCCA
Found at i:13745727 original size:32 final size:33
Alignment explanation
Indices: 13745682--13745870 Score: 151
Period size: 32 Copynumber: 5.9 Consensus size: 33
13745672 TTCAGTAATG
*
13745682 TGATCAGCACAAAGCCATCAGTAACGGTAG-CA
1 TGATCGGCACAAAGCCATCAGTAACGGTAGACA
* * * * * *
13745714 TGATCGCCTCAAAGCCATCTGTAGCAGT-GATA
1 TGATCGGCACAAAGCCATCAGTAACGGTAGACA
* * * *
13745746 TGATCGGCACATAGCCCTTAGTAACGGT-GATA
1 TGATCGGCACAAAGCCATCAGTAACGGTAGACA
* *
13745778 TGATCGGCACATAGCCATC-GATAATGGTA-ACA
1 TGATCGGCACAAAGCCATCAG-TAACGGTAGACA
*
13745810 TGATCGGCACAAAGCCATCAATAACGGT--ACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTAGAC-A
* *
13745842 TGA-CTGGTACAAAGCCATCAATAACGGTA
1 TGATC-GGCACAAAGCCATCAGTAACGGTA
13745871 CTAGGACCAA
Statistics
Matches: 127, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
31 5 0.04
32 122 0.96
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (33 bp):
TGATCGGCACAAAGCCATCAGTAACGGTAGACA
Found at i:13745844 original size:64 final size:64
Alignment explanation
Indices: 13745682--13745870 Score: 179
Period size: 64 Copynumber: 3.0 Consensus size: 64
13745672 TTCAGTAATG
* * * * * * *
13745682 TGATCAGCACAAAGCCATCAGTAACGGTAGC-ATGATCGCCTCAAAGCCATCTG-TAGCAGTGAT
1 TGATCGGCACAAAGCCATCAGTAACGGTA-CTATGATCGGCACAAAGCCATC-GATAACGGTAAC
13745745 A
64 A
* * * * *
13745746 TGATCGGCACATAGCCCTTAGTAACGGTGA-TATGATCGGCACATAGCCATCGATAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTATGATCGGCACAAAGCCATCGATAACGGTAACA
* * *
13745810 TGATCGGCACAAAGCCATCAATAACGGTACTATGA-CTGGTACAAAGCCATCAATAACGGTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTATGATC-GGCACAAAGCCATCGATAACGGTA
13745871 CTAGGACCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
63 3 0.03
64 96 0.96
65 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTATGATCGGCACAAAGCCATCGATAACGGTAACA
Found at i:13745871 original size:32 final size:32
Alignment explanation
Indices: 13745818--13745893 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
13745808 CATGATCGGC
* ***
13745818 ACAAAGCCATCAATAACGGTACTATGACTGGT
1 ACAAAGCCATCAATAACGGTACTAGGACCAAT
13745850 ACAAAGCCATCAATAACGGTACTAGGACCAAT
1 ACAAAGCCATCAATAACGGTACTAGGACCAAT
13745882 ACAAAGCCATCA
1 ACAAAGCCATCA
13745894 GTAGCATCGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (32 bp):
ACAAAGCCATCAATAACGGTACTAGGACCAAT
Found at i:13760183 original size:15 final size:15
Alignment explanation
Indices: 13760163--13760242 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 15
13760153 AGTAAACTCC
13760163 AAAAAGAAGAAAAAG
1 AAAAAGAAGAAAAAG
13760178 AAAAAGAACTCGAAAAAGAG
1 AAAAAGAA---G-AAAA-AG
*
13760198 ATTGAAAAAGAAGAAAAAT
1 A---A-AAAGAAGAAAAAG
*
13760217 AAAAAGAGGAAAAAG
1 AAAAAGAAGAAAAAG
13760232 AAAAAG-AGAAA
1 AAAAAGAAGAAA
13760243 GAAATTGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
14 4 0.08
15 25 0.48
16 1 0.02
18 1 0.02
19 6 0.12
20 7 0.13
21 1 0.02
23 1 0.02
24 6 0.12
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAAAGAAGAAAAAG
Found at i:13760195 original size:27 final size:26
Alignment explanation
Indices: 13760157--13760238 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 26
13760147 AGTTGTAGTA
13760157 AACTCCAAAAAGAAGAAAAAGAAAAAG
1 AACT-CAAAAAGAAGAAAAAGAAAAAG
13760184 AACTCGAAAAAGAGATTGAAAAAGAAGAAA-
1 AACTC-AAAAAGA-A--GAAAAAGAA-AAAG
*
13760214 AA-T-AAAAAGAGGAAAAAGAAAAAG
1 AACTCAAAAAGAAGAAAAAGAAAAAG
13760238 A
1 A
13760239 GAAAGAAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
23 3 0.06
24 10 0.21
26 1 0.02
27 18 0.38
28 1 0.02
29 1 0.02
30 11 0.23
31 3 0.06
ACGTcount: A:0.70, C:0.06, G:0.18, T:0.06
Consensus pattern (26 bp):
AACTCAAAAAGAAGAAAAAGAAAAAG
Found at i:13765509 original size:16 final size:16
Alignment explanation
Indices: 13765488--13765540 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
13765478 GTATTGTTAT
13765488 ATTTGAAGTAAAAAAA
1 ATTTGAAGTAAAAAAA
*
13765504 ATTTG-AGATTAAAAAA
1 ATTTGAAG-TAAAAAAA
**
13765520 ATACGAAGTATAAAAAA
1 ATTTGAAGTA-AAAAAA
13765537 ATTT
1 ATTT
13765541 TCGTGTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 2 0.07
16 16 0.57
17 10 0.36
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (16 bp):
ATTTGAAGTAAAAAAA
Found at i:13765564 original size:36 final size:32
Alignment explanation
Indices: 13765491--13765564 Score: 76
Period size: 36 Copynumber: 2.2 Consensus size: 32
13765481 TTGTTATATT
*
13765491 TGAAGTAAAAAAAATTTGAGATTAAAAAAATA
1 TGAAGTAAAAAAAATTTGAGATTAAAAAAAGA
* * *
13765523 CGAAGTATAAAAAAATTTTCGTGTATTAAAAAAAGG
1 TGAAGTA-AAAAAAA-TTT-GAG-ATTAAAAAAAGA
13765559 TGAAGT
1 TGAAGT
13765565 CTTGGAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 6 0.18
33 7 0.21
34 3 0.09
35 2 0.06
36 15 0.45
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (32 bp):
TGAAGTAAAAAAAATTTGAGATTAAAAAAAGA
Found at i:13770747 original size:29 final size:29
Alignment explanation
Indices: 13770705--13770991 Score: 268
Period size: 29 Copynumber: 9.8 Consensus size: 29
13770695 TATTGACGAG
* * * *
13770705 CATCGATTAATGAAAACGGATGGTAACGAC
1 CATCGAAT-ATGAAAAGGGATGGTGATGAC
* * * *
13770735 CATCAAATATGAAAAGGAACGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTGATGAC
* * * **
13770764 CATCGATTAATGAAAAAGAATGGTTTTGAC
1 CATCGAAT-ATGAAAAGGGATGGTGATGAC
* * *
13770794 CATCAAATATGCAAAGGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTGATGAC
* *
13770823 CCTCGAATATGAAAAGGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATGGTGATGAC
* * * ** *
13770852 CATCAAATATGAAAATGGATAGTTTTGAG
1 CATCGAATATGAAAAGGGATGGTGATGAC
* *
13770881 TATCGACTATGAAAAGGGATGGTGATGAC
1 CATCGAATATGAAAAGGGATGGTGATGAC
* *
13770910 CATCAAATAAGAAAAGGGATGGTGATGAC
1 CATCGAATATGAAAAGGGATGGTGATGAC
* **
13770939 CATCGATTAATGAAAAGGGATGGTTTTGAC
1 CATCGAAT-ATGAAAAGGGATGGTGATGAC
13770969 CATCGAATATGAAAAGGGATGGT
1 CATCGAATATGAAAAGGGATGGT
13770992 TTCAACCATC
Statistics
Matches: 205, Mismatches: 50, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
29 152 0.74
30 53 0.26
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTGATGAC
Found at i:13771000 original size:59 final size:59
Alignment explanation
Indices: 13770705--13771002 Score: 314
Period size: 59 Copynumber: 5.1 Consensus size: 59
13770695 TATTGACGAG
* * * * * *
13770705 CATCGATTAATGAAAACGGATGGTAACGACCATCAAATATGAAAAGGAACGGTGACGAC
1 CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGTCGAC
* * ** * *
13770764 CATCGATTAATGAAAAAGAATGGTTTTGACCATCAAATATGCAAAGGGATGGTGACGAC
1 CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGTCGAC
* * * * * * * *
13770823 CCTCGAAT-ATGAAAAGGGATGGTGACGACCATCAAATATGAAAATGGATAGTTTTGAG
1 CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGTCGAC
* * *
13770881 TATCGACT-ATGAAAAGGGATGGTGATGACCATCAAATAAGAAAAGGGATGGTGAT-GAC
1 CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTG-TCGAC
** * * *
13770939 CATCGATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTTTCAAC
1 CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGTCGAC
13770998 CATCG
1 CATCG
13771003 TTTACCACAG
Statistics
Matches: 197, Mismatches: 39, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
58 92 0.47
59 105 0.53
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (59 bp):
CATCGATTAATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATGGTGTCGAC
Found at i:13773883 original size:25 final size:26
Alignment explanation
Indices: 13773848--13773917 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
13773838 CTTACGAGCT
13773848 GTAATCGGTAAGCTCATACAG-GTTGA
1 GTAAT-GGTAAGCTCATACAGAGTTGA
*
13773874 GTAATGGTAAGCTCATGC-GAGTTGA
1 GTAATGGTAAGCTCATACAGAGTTGA
* *
13773899 ATAATGGTGAGCTCATACA
1 GTAATGGTAAGCTCATACA
13773918 AGTCGGTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.84
26 5 0.13
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (26 bp):
GTAATGGTAAGCTCATACAGAGTTGA
Found at i:13777033 original size:39 final size:39
Alignment explanation
Indices: 13776983--13777057 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
13776973 AGTTTGAGTT
*
13776983 TTAATTATGTCTTCA-TTTGAACATCACTAATATGTGACA
1 TTAAGTATGTC-TCAGTTTGAACATCACTAATATGTGACA
* *
13777022 TTAAGTATGTCTGAGTTTGAACATCATTAATATGTG
1 TTAAGTATGTCTCAGTTTGAACATCACTAATATGTG
13777058 TTTCAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (39 bp):
TTAAGTATGTCTCAGTTTGAACATCACTAATATGTGACA
Found at i:13787361 original size:22 final size:23
Alignment explanation
Indices: 13787313--13787361 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
13787303 TATTGGTATG
13787313 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
13787336 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
13787357 ATTAA
1 ATTAA
13787362 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:13804066 original size:20 final size:21
Alignment explanation
Indices: 13804025--13804066 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
13804015 AATATTTATA
*
13804025 TATTAATATAAGTTTTAAAAT
1 TATTAATATAAGTTTCAAAAT
13804046 TATTAAT-TAAG-TTCAATAAT
1 TATTAATATAAGTTTCAA-AAT
13804066 T
1 T
13804067 GAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 8 0.42
21 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATTAATATAAGTTTCAAAAT
Found at i:13808039 original size:131 final size:132
Alignment explanation
Indices: 13807800--13808189 Score: 566
Period size: 131 Copynumber: 3.0 Consensus size: 132
13807790 TACTGCAACT
* * * ** * *
13807800 TCAGGGAGATAAGGCTGGTGGTTTAAATCTGTTTCCCTACTACCTCCGGAAGATAAGACTCGCCG
1 TCAGGGAGATAAGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
* *
13807865 TCTTTGATCTGCTCTACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
13807930 AC
131 AC
* * * * *
13807932 TCAGGGAGATAAGACTGGTGGCTTAAATTTGCTT-CCTACTATCTTGGGAAGATAGGATTCATCG
1 TCAGGGAGATAAGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
* * * **
13807996 TCTTCGATCTACTCCACTACTGCTTAAGGAGGTAGGATCTACAATCTTCAACCTACTCCACTACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
*
13808061 GC
131 AC
* *
13808063 TCAGGGAGATAGGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAATATTCACCG
1 TCAGGGAGATAAGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
*
13808128 TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
13808190 GCAAACTCAG
Statistics
Matches: 225, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 113 0.50
132 112 0.50
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
TCAGGGAGATAAGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
AC
Found at i:13808460 original size:89 final size:89
Alignment explanation
Indices: 13808232--13808460 Score: 278
Period size: 89 Copynumber: 2.6 Consensus size: 89
13808222 ATTTGCTTCA
* * * * * * *
13808232 CTGCCAGTATAGGAAGACAAGATCTACTATTTTCAGTCTACTCTGCTGCAACCTTAGGGAGGCAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGTAACCTCAGGGAGGCAA
* * ** *
13808297 GGCTAGTGTCTTTGCTCTGTTTTG
66 GGCTAGTGTCTTCGATCTACTTGG
* * * * *
13808321 CTGTCAATACAGGAAGATAAGATCTGCTATCTTCAGTCTACTTCGATGTAAGCTCAGGGAGGCAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGTAACCTCAGGGAGGCAA
*
13808386 GGCTGGTGTCTTCGATCTACTTGG
66 GGCTAGTGTCTTCGATCTACTTGG
* *
13808410 CTGCCAATACAGGAAGACAAGATCTGTTATCTTCAGTCTGCTCCGCTGTAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGTAA
13808461 ATTCAGAGAT
Statistics
Matches: 116, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (89 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGTAACCTCAGGGAGGCAA
GGCTAGTGTCTTCGATCTACTTGG
Found at i:13808482 original size:89 final size:89
Alignment explanation
Indices: 13808232--13808487 Score: 224
Period size: 89 Copynumber: 2.9 Consensus size: 89
13808222 ATTTGCTTCA
* * * * * * * * * * *
13808232 CTGCCAGTATAGGAAGACAAGATCTACTATTTTCAGTCTACTCTGCTGCAACCTTAGGGAGGCAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGATGTAAACTCAGAGAGACAA
* * * * ** *
13808297 GGCTAGTGTCTTTGCTCTGTTTTG
66 GGCTGGTGGCTTCGATCTACTTGG
* * * * * *
13808321 CTGTCAATACAGGAAGATAAGATCTGCTATCTTCAGTCTACTTCGATGTAAGCTCAGGGAGGCAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGATGTAAACTCAGAGAGACAA
*
13808386 GGCTGGTGTCTTCGATCTACTTGG
66 GGCTGGTGGCTTCGATCTACTTGG
* * * * * *
13808410 CTGCCAATACAGGAAGACAAGATCTGTTATCTTCAGTCTGCTCCGCTGTAAATTCAGAGATATAA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGATGTAAACTCAGAGAGACAA
*
13808475 GGTTGGTGGCTTC
66 GGCTGGTGGCTTC
13808488 AATAGGCTCC
Statistics
Matches: 135, Mismatches: 32, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 135 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (89 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGATGTAAACTCAGAGAGACAA
GGCTGGTGGCTTCGATCTACTTGG
Found at i:13808686 original size:143 final size:143
Alignment explanation
Indices: 13808437--13808791 Score: 399
Period size: 143 Copynumber: 2.5 Consensus size: 143
13808427 CAAGATCTGT
* * * * ** *
13808437 TATCTTCAGTCTGCTCCGCTGTAAATTCAGAGATATAAGGT-TGGTGGCTTCAATAGGCTCCATT
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAA-GTCTAGTGGCTTCAATCTGCTCCACT
** * * * ** *
13808501 ATAACTTCAGAAAGATAAGACCTACCATAATTTGTAGCTTTAATCTGCTCCACTACAATGCTAGG
65 GCAACTTAAGAAAGATAAAACCTACCATAATTTGTAGCTTTAATATGCTCCACTACAACACCAGG
13808566 GAAATAAGATTCGA
130 GAAATAAGATTCGA
* * *
13808580 TGTCTTCAGCCTGCTCCGCTGTAACTTTAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
* * * **
13808645 CAACTTTAAG-AAGATAAAATCTGCCATAATTTGTAGCTTTAATATGTTCCACTGGAACACCAGG
66 CAAC-TTAAGAAAGATAAAACCTACCATAATTTGTAGCTTTAATATGCTCCACTACAACACCAGG
*
13808709 GAAATAAGATTCGC
130 GAAATAAGATTCGA
* * * * ** *
13808723 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTG
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
13808788 CAAC
66 CAAC
13808792 CTCGGGGAGA
Statistics
Matches: 176, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
142 2 0.01
143 170 0.97
144 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (143 bp):
TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
CAACTTAAGAAAGATAAAACCTACCATAATTTGTAGCTTTAATATGCTCCACTACAACACCAGGG
AAATAAGATTCGA
Found at i:13808788 original size:44 final size:44
Alignment explanation
Indices: 13808732--13809028 Score: 211
Period size: 44 Copynumber: 6.7 Consensus size: 44
13808722 CTATCTTCAG
13808732 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
* * * * **
13808776 TCTGCTCCACTGCAACCTCGGGGAGATAGGA-TTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAA
* * * * * * * *
13808820 TCTTCTCCATTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAA
* * * * ** * * *** *
13808865 TTTACCCCACTGCAATTTTGGGGGGTTAAGACTTGCTTTGTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAA
*
13808910 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
* * * * * * **
13808954 TTTGCTCTACTGAAACTTTAGGGAGATAGGA-TTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAA
* *
13808998 TCTGCTCTACTGCAACTTTAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
13809029 TTTACCATCT
Statistics
Matches: 191, Mismatches: 58, Indels: 8
0.74 0.23 0.03
Matches are distributed among these distances:
43 4 0.02
44 125 0.65
45 62 0.32
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
Found at i:13808846 original size:88 final size:88
Alignment explanation
Indices: 13808732--13809028 Score: 326
Period size: 88 Copynumber: 3.4 Consensus size: 88
13808722 CTATCTTCAG
* * *
13808732 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
13808797 GGAGATAGGATTATTGGCTTTAA
66 GGAGATAGGATTATTGGCTTTAA
* * * * * * * * * * *
13808820 TCTTCTCCATTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTTTACCCCACTGCAATTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATTTGCTCCACTGCAACTTTG
* * * * * *
13808885 GGGGGTTAAGACTTGCTTTG-TTTAG
65 GGGAGATAGGA-TT-ATTGGCTTTAA
* * * *
13808910 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCTACTGAAACTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
13808975 GGAGATAGGATTATTGGCTTTAA
66 GGAGATAGGATTATTGGCTTTAA
* *
13808998 TCTGCTCTACTGCAACTTTAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
13809029 TTTACCATCT
Statistics
Matches: 161, Mismatches: 44, Indels: 8
0.76 0.21 0.04
Matches are distributed among these distances:
87 3 0.02
88 65 0.40
89 54 0.34
90 36 0.22
91 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
GGAGATAGGATTATTGGCTTTAA
Found at i:13809390 original size:24 final size:24
Alignment explanation
Indices: 13809358--13809413 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13809348 CAGATTGCCC
13809358 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
13809382 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
13809406 CCATTGTA
1 CCACTGTA
13809414 CTTTTGGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:13811365 original size:12 final size:11
Alignment explanation
Indices: 13811354--13811396 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13811344 GGCCTCTCCT
13811354 TTTTCTTTTCC
1 TTTTCTTTTCC
13811365 TTTTCTTTTTCC
1 TTTTC-TTTTCC
* * *
13811377 CTCTCTTTTTC
1 TTTTCTTTTCC
13811388 TTTTCTTTT
1 TTTTCTTTT
13811397 TCCATCATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:13811414 original size:23 final size:23
Alignment explanation
Indices: 13811357--13811402 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13811347 CTCTCCTTTT
* *
13811357 TCTTTTCCTTTTCTTTTTCCCTC
1 TCTTTTTCTTTTCTTTTTCCATC
13811380 TCTTTTTCTTTTCTTTTTCCATC
1 TCTTTTTCTTTTCTTTTTCCATC
13811403 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (23 bp):
TCTTTTTCTTTTCTTTTTCCATC
Found at i:13811441 original size:9 final size:8
Alignment explanation
Indices: 13811428--13811452 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13811418 TTTTTGAAAG
13811428 ATTTTTTT
1 ATTTTTTT
13811436 ATTTTTTT
1 ATTTTTTT
13811444 ATTTTTTT
1 ATTTTTTT
13811452 A
1 A
13811453 AAACTCATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:13814445 original size:19 final size:20
Alignment explanation
Indices: 13814421--13814467 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13814411 TGGTGGACTA
* *
13814421 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
13814440 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
13814460 -AATGCAAA
1 TAATGCAAA
13814468 AAAGAGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:13816275 original size:15 final size:16
Alignment explanation
Indices: 13816257--13816289 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13816247 AAATGTAAAC
13816257 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
13816272 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
13816288 AA
1 AA
13816290 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:13817158 original size:23 final size:22
Alignment explanation
Indices: 13817115--13817172 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13817105 AAAAGGTATC
* *
13817115 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13817136 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13817159 TGCATATCATATCT
1 TACAAATCATATCT
13817173 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.