Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 195 of 333
Found at i:63810401 original size:20 final size:20
Alignment explanation
Indices: 63810349--63810391 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
63810339 TGAAATGTCT
63810349 AATGTTGAAAAAGCTTGTGA
1 AATGTTGAAAAAGCTTGTGA
63810369 AATGTTGAAAAAGCTTGTGA
1 AATGTTGAAAAAGCTTGTGA
63810389 AAT
1 AAT
63810392 TATGCAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (20 bp):
AATGTTGAAAAAGCTTGTGA
Found at i:63811302 original size:19 final size:19
Alignment explanation
Indices: 63811278--63811324 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
63811268 AGATTAAAAT
63811278 TTCAGTTAATTTTGGATAA
1 TTCAGTTAATTTTGGATAA
* *
63811297 TTCAGTTGATTTTGGTTAA
1 TTCAGTTAATTTTGGATAA
*
63811316 TTCGGTTAA
1 TTCAGTTAA
63811325 ATGAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (19 bp):
TTCAGTTAATTTTGGATAA
Found at i:63812627 original size:34 final size:34
Alignment explanation
Indices: 63812580--63812648 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
63812570 GAGTAATTAG
* *
63812580 TTTTCATTTTTTAAGTTTGGTTATTCCTTATGCA
1 TTTTCATTGTTTAAGTTTGGTTATTCCTTACGCA
63812614 TTTTCATTGTTTAAGTTTGGTTATTCCTTACGCA
1 TTTTCATTGTTTAAGTTTGGTTATTCCTTACGCA
63812648 T
1 T
63812649 GAGTATTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (34 bp):
TTTTCATTGTTTAAGTTTGGTTATTCCTTACGCA
Found at i:63812657 original size:34 final size:34
Alignment explanation
Indices: 63812583--63812659 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
63812573 TAATTAGTTT
* * **
63812583 TCATTTTTTAAGTTTGGTTATTCCTTATGCATTT
1 TCATTGTTTAAGTTTGGTTATTCCTTACGCATAG
63812617 TCATTGTTTAAGTTTGGTTATTCCTTACGCATGAG
1 TCATTGTTTAAGTTTGGTTATTCCTTACGCAT-AG
63812652 T-ATTGTTT
1 TCATTGTTT
63812660 TACCAGTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.55
Consensus pattern (34 bp):
TCATTGTTTAAGTTTGGTTATTCCTTACGCATAG
Found at i:63818298 original size:27 final size:27
Alignment explanation
Indices: 63818266--63818443 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
63818256 ATATTGAGTC
* *
63818266 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
63818293 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
63818320 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
63818348 CGCACACTTAGTGCGGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
63818375 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
63818402 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
63818429 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63818444 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:63818426 original size:54 final size:55
Alignment explanation
Indices: 63818266--63818443 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
63818256 ATATTGAGTC
* * * * * * *
63818266 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
63818320 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCGGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* ***
63818375 CGCACACTTAGTGC-ATCATATTC-GTTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
63818429 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63818444 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 59 0.57
55 44 0.43
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:63826415 original size:27 final size:27
Alignment explanation
Indices: 63826385--63826562 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
63826375 ATATTGAGTC
*
63826385 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
63826412 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
* *
63826439 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*** ** *
63826467 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* ***
63826494 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * *
63826521 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
63826548 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63826563 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:63834924 original size:46 final size:46
Alignment explanation
Indices: 63834874--63835049 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
63834864 TGGTTGAGCA
63834874 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
63834920 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
63834965 CATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
63835013 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63835050 GTAGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 28 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:63835030 original size:93 final size:93
Alignment explanation
Indices: 63834871--63835042 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
63834861 GGATGGTTGA
* *
63834871 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
63834936 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
63834964 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
63835029 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
63835043 CTTATGGGTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63841779 original size:46 final size:46
Alignment explanation
Indices: 63841729--63841904 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
63841719 TGGTTGAGCA
*
63841729 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* *
63841775 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T--G
*
63841820 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCTAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* * *
63841868 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63841905 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 28 0.25
48 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
Found at i:63841885 original size:93 final size:93
Alignment explanation
Indices: 63841726--63841897 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
63841716 GGATGGTTGA
*
63841726 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
63841791 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
63841819 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCTAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
63841884 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
63841898 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63845394 original size:31 final size:32
Alignment explanation
Indices: 63845354--63845427 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
63845344 ACGTATAGGC
*
63845354 TTATTTTTATTACTT-TATTTCAATATCT-TTA
1 TTATATTTATTACTTGTATTTCAATAT-TGTTA
* * *
63845385 TTGTATTTATT-TTTGTGTTTCAATATTGTTA
1 TTATATTTATTACTTGTATTTCAATATTGTTA
63845416 TTATATTTATTA
1 TTATATTTATTA
63845428 TTATAATAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 3 0.09
31 32 0.91
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (32 bp):
TTATATTTATTACTTGTATTTCAATATTGTTA
Found at i:63845738 original size:18 final size:18
Alignment explanation
Indices: 63845695--63845730 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
63845685 AAGTATATCT
*
63845695 TTATGTAATATTAGTATTA
1 TTAT-TAATATTAATATTA
63845714 TTATTAATATTAATATT
1 TTATTAATATTAATATT
63845731 TTTTTTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTATTAATATTAATATTA
Found at i:63845787 original size:25 final size:22
Alignment explanation
Indices: 63845756--63845813 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
63845746 ATTATATGTG
63845756 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* *
63845780 TATTATATTATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
63845803 TATATATTATG
1 TATATATTATG
63845814 AACATGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.27
23 3 0.10
24 10 0.33
25 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:63845820 original size:22 final size:23
Alignment explanation
Indices: 63845756--63845820 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
63845746 ATTATATGTG
63845756 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
*
63845780 TATTATATTAT-ATATATGTTTT-A
1 TA-TATATTATGA-AAATGTTTTAA
*
63845803 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
63845821 ATTTTCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 5 0.14
24 10 0.28
25 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:63845836 original size:47 final size:46
Alignment explanation
Indices: 63845756--63845857 Score: 104
Period size: 47 Copynumber: 2.2 Consensus size: 46
63845746 ATTATATGTG
*
63845756 TATATATTATGTAAAATGTTTTAATATTATATTA-TATATATGTTTTA
1 TATATATTATGTAAAATGTTTTAATATTATATTAGT-TAAAT-TTTTA
* *
63845803 TATATATTATG-AACATGTATTTTCAATA-T-TATTAGTTAAATTTTTG
1 TATATATTATGTAAAATG--TTTT-AATATTATATTAGTTAAATTTTTA
63845849 TATATATTA
1 TATATATTA
63845858 CCCTATGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
46 18 0.38
47 20 0.42
48 6 0.12
49 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (46 bp):
TATATATTATGTAAAATGTTTTAATATTATATTAGTTAAATTTTTA
Found at i:63858183 original size:74 final size:72
Alignment explanation
Indices: 63858064--63858305 Score: 281
Period size: 76 Copynumber: 3.3 Consensus size: 72
63858054 CGATTTCTGT
* * * * * *
63858064 TTTTCAATTTATGTTT-TCAAAAATCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCATG
1 TTTTCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
63858128 CTGAGGTA
65 CTGAGGTA
63858136 TTTTCAATTATTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATT-TTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
63858201 GCTGAGGTA
64 GCTGAGGTA
* * * * *
63858210 TTGTCAATTTTTTATATGTTTCAAATATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTTGT-T-TG--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
* *
63858275 ACGCTAAGGTG
62 ACGCTGAGGTA
63858286 TTTTCAATTTCTGTTT-TCAA
1 TTTTCAATTT-TGTTTGTCAA
63858306 TTTCTGTCCT
Statistics
Matches: 147, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
72 18 0.12
73 6 0.04
74 57 0.39
75 3 0.02
76 59 0.40
77 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (72 bp):
TTTTCAATTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTA
Found at i:63858302 original size:13 final size:13
Alignment explanation
Indices: 63858284--63858312 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
63858274 CACGCTAAGG
63858284 TGTTTTCAATTTC
1 TGTTTTCAATTTC
63858297 TGTTTTCAATTTC
1 TGTTTTCAATTTC
63858310 TGT
1 TGT
63858313 CCTTCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTTTCAATTTC
Found at i:63858447 original size:89 final size:89
Alignment explanation
Indices: 63858236--63858447 Score: 304
Period size: 90 Copynumber: 2.4 Consensus size: 89
63858226 TGTTTCAAAT
* *
63858236 ATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTGTTTTCAATTTCTGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGTT
63858301 TTCAATTTCTGTCCTTCAAAAAAAA
66 TTCAATTTCTGTCCTTC-AAAAAAA
* * * *
63858326 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTATTTTCAATTGATGTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATT--TCTG
*
63858391 TTTTCAATTTAC-G-CTTTC-AAAAAA
64 TTTTCAATTT-CTGTCCTTCAAAAAAA
63858415 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63858448 TGGCTCGCGT
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
89 38 0.34
90 55 0.50
91 4 0.04
92 13 0.12
93 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (89 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGTT
TTCAATTTCTGTCCTTCAAAAAAA
Found at i:63858585 original size:73 final size:73
Alignment explanation
Indices: 63858500--63858645 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 73
63858490 TGTTTTTTTT
* * * * *
63858500 AAATCAACTCATATTGCGGGAGGCGAGTTGAGCCTCGGGGCAAGCTGAGGTATTTTCAATTGCTG
1 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTGCTG
63858565 TTTGTCAA
66 TTTGTCAA
* *
63858573 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTGCTG
*
63858638 TTTTTCAA
66 TTTGTCAA
63858646 TTTATGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (73 bp):
AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACAAGCTGAGGTATTTTCAATTGCTG
TTTGTCAA
Found at i:63858658 original size:13 final size:14
Alignment explanation
Indices: 63858625--63858655 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63858615 TGCTGAGGTA
*
63858625 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
63858639 TTTTCAATTTATGT
1 TTTTCAATTTATGT
63858653 TTT
1 TTT
63858656 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:63858748 original size:18 final size:18
Alignment explanation
Indices: 63858713--63858748 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63858703 CGCTGAGGTA
* *
63858713 TTTTCAATTTTTGTTTTT
1 TTTTCAATTTATGCTTTT
63858731 TTTTCAATTTATGCTTTT
1 TTTTCAATTTATGCTTTT
63858749 CAAATTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATGCTTTT
Found at i:63860675 original size:3 final size:3
Alignment explanation
Indices: 63860669--63860693 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63860659 ATTATTGATG
63860669 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
63860694 GTACTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:63861303 original size:25 final size:22
Alignment explanation
Indices: 63861272--63861373 Score: 75
Period size: 22 Copynumber: 4.4 Consensus size: 22
63861262 ATTATATGTG
63861272 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* *
63861296 TATTATATTATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
*
63861319 TATATATTATG-AACATGTATTTT
1 TATATATTATGTAA-ATGT-TTTA
*
63861342 TA-ATATTATTAGTTAAAT-TTTTG
1 TATATATTA-T-G-TAAATGTTTTA
63861365 TATATATTA
1 TATATATTA
63861374 CCCTATGTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.02
22 18 0.28
23 14 0.22
24 18 0.28
25 11 0.17
26 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:63863097 original size:30 final size:30
Alignment explanation
Indices: 63863061--63863122 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
63863051 TAAGGTGTTG
*
63863061 TTTTTTCATCTAATCTAATAGAGTTATCGT
1 TTTTTTCAGCTAATCTAATAGAGTTATCGT
*
63863091 TTTTTTCAGCTAATTTAATAGAGTTATCGT
1 TTTTTTCAGCTAATCTAATAGAGTTATCGT
63863121 TT
1 TT
63863123 AGGGAGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (30 bp):
TTTTTTCAGCTAATCTAATAGAGTTATCGT
Found at i:63869094 original size:560 final size:555
Alignment explanation
Indices: 63868040--63869155 Score: 2034
Period size: 560 Copynumber: 2.0 Consensus size: 555
63868030 TTTAAAAATC
*
63868040 ATAACTGTACCATCGGCGAAACATGTGGTTTTCAAAATTCAAACTGCGTTTTCCAAACTGAACCT
1 ATAACTGTACCATCGGCGAAACATGTGGTTTTCAAAATTCAAACTACGTTTTCCAAACTGAACCT
*
63868105 AACTAAGAGTTCCGCTGCAAAAATAAGCATTTTATTAATATAATTTAATCAACAGAATTAATAAG
66 AACTAAGAGTTCCACTGCAAAAATAAGCATTTTATTAATATAATTTAATCAACAGAATTAATAAG
* *
63868170 TAAGGAAGTTATTTTCATTTAAAAATCAAAATTTTTCTATCAAAGCTTTCGTTATTTCTACAATC
131 TAAAGAAGTTATTTTCATTTAAAAATCAAAATTGTTCTATCAAAGCTTTCGTTATTTCTACAATC
*
63868235 CTAACTAATTTATGGATTTTCAAAGGGAATCATGGTAACTTCTCGAGATCTAGCCATAATGTTTA
196 CTAACTAATTTATGGATTTTCAAAGGGAATCATGGTAACTTCTCGAGATCGAGCCATAATGTTTA
63868300 GGTCGGGTTTGGGGTGTTACAATCCTTGCAAATTTTTGCTTGTCGAGCCTCAATGTTGCAACATC
261 GGTCGGGTTTGGGGTGTTACAATCCTTGCAAATTTTTGCTTGTCGAGCCTCAATGTTGCAACATC
*
63868365 TAGGCATTAGTGTAACGACCTTGCCAACAACATTCACCTAGATCAATTTGGTTGCATCAGTGTCA
326 TAGGCATTAGTGTAACGACCTTGCCAACAACATTCACCCAGATCAATTTGGTTGCATCAGTGTCA
*
63868430 CGACTCTGGTCCCTAATGCCATGACTTTGGCTTCTTAGATAGCTAGGATCCCTTGACATTGGTGA
391 CGACTCTGGTCCCTAATGCCATGACTTTGGCTTCTTAGATAGCTAGGATCCCTCGACATTGGTGA
* *
63868495 CTGCCTTTGATGTCACGACTTCAGTAACACAATGTCGCGACTCCATGCTCTTAGTGTCACGATTC
456 CTGCCTTTGATGTCACGACTTCAGCAACACAATGTCGCGACTCCATGCTCTTAGTGTCACGACTC
63868560 CATCACCAGTTCACTTGCAGTGTGATAGTTCTTGA
521 CATCACCAGTTCACTTGCAGTGTGATAGTTCTTGA
63868595 ATAACTGTACCATCGGCGAAACATGTGGTTTTCAAAATTCAAACTACGTTTTCCAAACTGAACCT
1 ATAACTGTACCATCGGCGAAACATGTGGTTTTCAAAATTCAAACTACGTTTTCCAAACTGAACCT
*
63868660 AACTAAGAGTTCCACTGCAAAAATAAGCATTTTATTAGTATAATTTAATCAACAGAATTAACAAA
66 AACTAAGAGTTCCACTGCAAAAATAAGCATTTTATTAATATAATTTAATCAACAGAATT----AA
63868725 TTAAGTAAAGAAGTTATTTTCATTTAAAAATCAAAATTGTTCTATCAAAGCTTTCGTTATTTCTA
127 -TAAGTAAAGAAGTTATTTTCATTTAAAAATCAAAATTGTTCTATCAAAGCTTTCGTTATTTCTA
*
63868790 CAATCCTAACTAATTTATGGATTTTCAAAGGGAATCATGGTAACTTTTCGAGATCGAGCCATAAT
191 CAATCCTAACTAATTTATGGATTTTCAAAGGGAATCATGGTAACTTCTCGAGATCGAGCCATAAT
* *
63868855 GTTTAGGTCGGGTTTGGGTTGTTACAATCCTTGCAAATTTTTTCTTGTCGAGCCTCAATGTTGCA
256 GTTTAGGTCGGGTTTGGGGTGTTACAATCCTTGCAAATTTTTGCTTGTCGAGCCTCAATGTTGCA
63868920 ACATCTAGGCATTAGTGTAACGACCTTGCCAACAACATTCACCCAGATCAATTTGGTTGCATCAG
321 ACATCTAGGCATTAGTGTAACGACCTTGCCAACAACATTCACCCAGATCAATTTGGTTGCATCAG
* *
63868985 TGTCACGACTCTGGTCCCTAATGTCGTGACTTTGGCTTCTTAGATAGCTAGGATCCCTCGACATT
386 TGTCACGACTCTGGTCCCTAATGCCATGACTTTGGCTTCTTAGATAGCTAGGATCCCTCGACATT
*
63869050 GGTGACTGCCTTTGATGTCACGACTTTAGCAACACAATGTCGCGACTCCATGCTCTTAGTGTCAC
451 GGTGACTGCCTTTGATGTCACGACTTCAGCAACACAATGTCGCGACTCCATGCTCTTAGTGTCAC
*
63869115 GACTCCATCACCAGTTCACTTGTAGTGTGATAGTTCTTGA
516 GACTCCATCACCAGTTCACTTGCAGTGTGATAGTTCTTGA
63869155 A
1 A
63869156 ATTCAAACTC
Statistics
Matches: 539, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
555 121 0.22
559 2 0.00
560 416 0.77
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (555 bp):
ATAACTGTACCATCGGCGAAACATGTGGTTTTCAAAATTCAAACTACGTTTTCCAAACTGAACCT
AACTAAGAGTTCCACTGCAAAAATAAGCATTTTATTAATATAATTTAATCAACAGAATTAATAAG
TAAAGAAGTTATTTTCATTTAAAAATCAAAATTGTTCTATCAAAGCTTTCGTTATTTCTACAATC
CTAACTAATTTATGGATTTTCAAAGGGAATCATGGTAACTTCTCGAGATCGAGCCATAATGTTTA
GGTCGGGTTTGGGGTGTTACAATCCTTGCAAATTTTTGCTTGTCGAGCCTCAATGTTGCAACATC
TAGGCATTAGTGTAACGACCTTGCCAACAACATTCACCCAGATCAATTTGGTTGCATCAGTGTCA
CGACTCTGGTCCCTAATGCCATGACTTTGGCTTCTTAGATAGCTAGGATCCCTCGACATTGGTGA
CTGCCTTTGATGTCACGACTTCAGCAACACAATGTCGCGACTCCATGCTCTTAGTGTCACGACTC
CATCACCAGTTCACTTGCAGTGTGATAGTTCTTGA
Found at i:63874181 original size:19 final size:18
Alignment explanation
Indices: 63874154--63874193 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
63874144 AAAAAAGATA
63874154 AAATTATAA-TAATATATT
1 AAATTATAATTAATA-ATT
63874172 AAATTAATAATTAATAATT
1 AAATT-ATAATTAATAATT
63874191 AAA
1 AAA
63874194 AAATTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTATAATTAATAATT
Found at i:63874513 original size:8 final size:9
Alignment explanation
Indices: 63874482--63874512 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
63874472 GTGGTTGACG
63874482 AAAAATTTT
1 AAAAATTTT
63874491 AAAAATTTT
1 AAAAATTTT
63874500 AAAAATTTT
1 AAAAATTTT
63874509 AAAA
1 AAAA
63874513 TGTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAAATTTT
Found at i:63876366 original size:17 final size:19
Alignment explanation
Indices: 63876325--63876384 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 19
63876315 TTAAGGTTTT
*
63876325 TTTTTTACATTTTTTATATA
1 TTTTTTA-ATTTTTCATATA
63876345 TTTTTTAATTTTTCATA-A
1 TTTTTTAATTTTTCATATA
63876363 -TTTTTAATTTTT-ATATA
1 TTTTTTAATTTTTCATATA
63876380 CTTTT
1 -TTTT
63876385 GAGTTCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 3 0.08
17 13 0.36
18 1 0.03
19 12 0.33
20 7 0.19
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTAATTTTTCATATA
Found at i:63879110 original size:45 final size:45
Alignment explanation
Indices: 63879018--63879110 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
63879008 TATTTTGCTG
* * * **
63879018 TGTACCCACAGCCATAGGCAAATTCCATCTACAGTGTTTTTGTTA
1 TGTACCCACAACCATAAGCAAATTCCATCCACAGTGTTTTTACTA
*
63879063 TGTACCCACAACCATAAGCAAATTCCATCCGC-GATGTTTTTACTA
1 TGTACCCACAACCATAAGCAAATTCCATCCACAG-TGTTTTTACTA
63879108 TGT
1 TGT
63879111 GTCCATAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (45 bp):
TGTACCCACAACCATAAGCAAATTCCATCCACAGTGTTTTTACTA
Found at i:63881469 original size:45 final size:45
Alignment explanation
Indices: 63881405--63881494 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
63881395 TTTTTAAAGA
63881405 ATAATTTATTTTAATTTTTTAATAAAATAAAACCAACTGAATTTT
1 ATAATTTATTTTAATTTTTTAATAAAATAAAACCAACTGAATTTT
* *
63881450 ATAATTTATTTTAATTTTTTAATAAAATAAAATCAACTGAGTTTT
1 ATAATTTATTTTAATTTTTTAATAAAATAAAACCAACTGAATTTT
63881495 TTTACATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (45 bp):
ATAATTTATTTTAATTTTTTAATAAAATAAAACCAACTGAATTTT
Found at i:63882125 original size:28 final size:28
Alignment explanation
Indices: 63882026--63882125 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 28
63882016 TTAAAATTTG
* *
63882026 AATTTTTTTAATTTGGTTATTAAATTTAA
1 AATTTTTTTAATTTGTTTA-TAATTTTAA
*
63882055 ATTTTGTTAATTATTATTT-TTT-TAATTTTAA
1 AATTT-TT--TTA--ATTTGTTTATAATTTTAA
* * *
63882086 AAATGTTATAATTTGTTTATAATTTTAA
1 AATTTTTTTAATTTGTTTATAATTTTAA
63882114 AATTTTTTTAAT
1 AATTTTTTTAAT
63882126 ATTTTCTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
26 4 0.07
27 3 0.06
28 20 0.37
29 4 0.07
30 4 0.07
31 10 0.19
32 3 0.06
33 2 0.04
34 4 0.07
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (28 bp):
AATTTTTTTAATTTGTTTATAATTTTAA
Found at i:63920688 original size:20 final size:21
Alignment explanation
Indices: 63920663--63920703 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
63920653 CTAAACTGAT
63920663 AACTTATG-AAATTTTA-AAAA
1 AACTTA-GAAAATTTTACAAAA
63920683 AACTTAGAAAATTTTACAAAA
1 AACTTAGAAAATTTTACAAAA
63920704 TACAGGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 14 0.74
21 4 0.21
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (21 bp):
AACTTAGAAAATTTTACAAAA
Found at i:63923366 original size:14 final size:14
Alignment explanation
Indices: 63923347--63923380 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
63923337 ATTGTAGTTT
63923347 GAAATATATGATTC
1 GAAATATATGATTC
63923361 GAAATATATGATTC
1 GAAATATATGATTC
63923375 GAAATA
1 GAAATA
63923381 AAGACCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (14 bp):
GAAATATATGATTC
Found at i:63925998 original size:41 final size:40
Alignment explanation
Indices: 63925941--63926121 Score: 166
Period size: 41 Copynumber: 4.4 Consensus size: 40
63925931 ACCGTTGCTC
** **
63925941 ACATAAAATTTGCTAGGCATAAAGCCTGGTATAATACACCG
1 ACATAAAACCTGCTAGGCA-AAAGCCTGAAATAATACACCG
* * * *
63925982 ACATAGAGCCTGCTAGGCAATAGCTCTGAAATAATACACTG
1 ACATAAAACCTGCTAGGCAAAAGC-CTGAAATAATACACCG
*
63926023 GCATAAAACCTGCTAGGCAATAAGCCTGAAATAATACACC-
1 ACATAAAACCTGCTAGGCAA-AAGCCTGAAATAATACACCG
* * * * * *
63926063 AGCATAAAGCTTGCTATGCAATAAGCCTGATATAATTCATCG
1 A-CATAAAACCTGCTAGGCAA-AAGCCTGAAATAATACACCG
*
63926105 GCATAAAACCTGCTAGG
1 ACATAAAACCTGCTAGG
63926122 TATAAAGGCA
Statistics
Matches: 112, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
40 4 0.04
41 105 0.94
42 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (40 bp):
ACATAAAACCTGCTAGGCAAAAGCCTGAAATAATACACCG
Found at i:63926084 original size:82 final size:82
Alignment explanation
Indices: 63925942--63926128 Score: 220
Period size: 82 Copynumber: 2.3 Consensus size: 82
63925932 CCGTTGCTCA
** ** *
63925942 CATAAAATTTGCTAGGCATAAAGCCTGGTATAATACACCGACATAGAGCCTGCTAGGCAAT-AGC
1 CATAAAACCTGCTAGGCATAAAGCCTGAAATAATACACCGACATAAAGCCTGCTAGGCAATAAGC
63926006 TCTGAAATAATACA-CTGG
66 -CTGAAATAATACATC-GG
* *
63926024 CATAAAACCTGCTAGGCA-ATAAGCCTGAAATAATACACC-AGCATAAAGCTTGCTATGCAATAA
1 CATAAAACCTGCTAGGCATA-AAGCCTGAAATAATACACCGA-CATAAAGCCTGCTAGGCAATAA
* *
63926087 GCCTGATATAATTCATCGG
64 GCCTGAAATAATACATCGG
*
63926106 CATAAAACCTGCTAGGTATAAAG
1 CATAAAACCTGCTAGGCATAAAG
63926129 GCAGAATATC
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
81 2 0.02
82 83 0.92
83 5 0.06
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (82 bp):
CATAAAACCTGCTAGGCATAAAGCCTGAAATAATACACCGACATAAAGCCTGCTAGGCAATAAGC
CTGAAATAATACATCGG
Found at i:63927801 original size:27 final size:27
Alignment explanation
Indices: 63927763--63927816 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
63927753 TCTATTCAAG
63927763 ATTACTTATTATATTAGGGATCGATGC
1 ATTACTTATTATATTAGGGATCGATGC
63927790 ATTACTTATTATATTAGGGATCGATGC
1 ATTACTTATTATATTAGGGATCGATGC
63927817 CCCTGATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTACTTATTATATTAGGGATCGATGC
Found at i:63953892 original size:20 final size:20
Alignment explanation
Indices: 63953864--63953907 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
63953854 ACCAAACTTG
*
63953864 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
63953884 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
63953904 CAAC
1 CAAC
63953908 TTAAACTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:63954112 original size:42 final size:42
Alignment explanation
Indices: 63953993--63954114 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
63953983 TACCATACCA
* * * * **
63953993 ATGCCATATCCTAGATATTGTTTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
63954035 ATGCCAATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATCG
*
63954078 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
63954115 ACTAACCCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:63959703 original size:28 final size:28
Alignment explanation
Indices: 63959648--63959735 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
63959638 AGCATGGCTG
* * *
63959648 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGGGGCAGAGCCA
* *
63959674 CCAGATACAGATAATTGGGGCAGGGCCA
1 CCAGAAACAGATAATTGGGGCAGAGCCA
* *
63959702 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGGGGCAGAGCCA
63959730 CCAGAA
1 CCAGAA
63959736 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.08
27 6 0.12
28 41 0.80
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (28 bp):
CCAGAAACAGATAATTGGGGCAGAGCCA
Found at i:63959898 original size:26 final size:25
Alignment explanation
Indices: 63959842--63959900 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
63959832 ATCAACCTTA
*
63959842 AGGGTATAATGGTCATTTTACACCT
1 AGGGTATAATGGTAATTTTACACCT
* *
63959867 AGGGGTATAATGGTAATTTTCATACTT
1 A-GGGTATAATGGTAATTTT-ACACCT
63959894 AGGGTAT
1 AGGGTAT
63959901 TTTAGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 23 0.79
27 5 0.17
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (25 bp):
AGGGTATAATGGTAATTTTACACCT
Found at i:63961013 original size:18 final size:19
Alignment explanation
Indices: 63960968--63961022 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
63960958 CTATAGAGGG
63960968 AAAGAAGAAGAAGAGAAAAT
1 AAAGAAG-AGAAGAGAAAAT
* *
63960988 AGATGAAGAGAGGAGAAAA-
1 A-AAGAAGAGAAGAGAAAAT
*
63961007 AAAGAAGAGAAAAGAA
1 AAAGAAGAGAAGAGAA
63961023 TTGTCAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.41
19 1 0.03
20 11 0.38
21 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (19 bp):
AAAGAAGAGAAGAGAAAAT
Found at i:63962043 original size:16 final size:16
Alignment explanation
Indices: 63962022--63962054 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63962012 AAATCTATGC
*
63962022 AATAATAATAATAATA
1 AATAATAATAACAATA
63962038 AATAATAATAACAATA
1 AATAATAATAACAATA
63962054 A
1 A
63962055 CATCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATAATAACAATA
Found at i:63970063 original size:56 final size:56
Alignment explanation
Indices: 63970003--63970137 Score: 216
Period size: 56 Copynumber: 2.4 Consensus size: 56
63969993 TCCTAGATAG
* **
63970003 GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAAAATCACATATCAATGCCAACATATTAAACGT
* *
63970059 GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCTAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAAAATCACATATCAATGCCAACATATTAAACGT
*
63970115 GGTCTTACTCGTACACATATATC
1 GGTCTTACTCGCACACATATATC
63970138 GATGCCATGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAAAATCACATATCAATGCCAACATATTAAACGT
Found at i:63975927 original size:30 final size:30
Alignment explanation
Indices: 63975875--63975937 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
63975865 TATGATATGG
* *
63975875 TATCTTGGATTTCTTTACCTTGGATATTTT
1 TATCTTGGATTCCTCTACCTTGGATATTTT
** *
63975905 TATCTTGGATTCCTCTGTCTTGGATTTTTT
1 TATCTTGGATTCCTCTACCTTGGATATTTT
63975935 TAT
1 TAT
63975938 TCTGGTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTCCTCTACCTTGGATATTTT
Found at i:63991863 original size:28 final size:28
Alignment explanation
Indices: 63991823--63991878 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
63991813 TACATGGGAG
* *
63991823 TCAGAATAAACCATGAGAAACTAATATC
1 TCAGAAGAAACCATGAGAAACCAATATC
63991851 TCAGAAGAAACCATGAGAAACCAATATC
1 TCAGAAGAAACCATGAGAAACCAATATC
63991879 CAAACATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (28 bp):
TCAGAAGAAACCATGAGAAACCAATATC
Found at i:63992100 original size:23 final size:23
Alignment explanation
Indices: 63992074--63992120 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
63992064 AAATTTTATG
63992074 AGTAAGGTGTCCAATTGGAAAAT
1 AGTAAGGTGTCCAATTGGAAAAT
63992097 AGTAAGGTGTCCAATTGGAAAAT
1 AGTAAGGTGTCCAATTGGAAAAT
63992120 A
1 A
63992121 AGGACCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (23 bp):
AGTAAGGTGTCCAATTGGAAAAT
Found at i:63999178 original size:27 final size:27
Alignment explanation
Indices: 63999140--63999248 Score: 109
Period size: 27 Copynumber: 4.0 Consensus size: 27
63999130 AAGCATCCTT
*
63999140 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
63999167 GTGGCTCTGCCACATACTTCAT-T--TCTG
1 GTGGCTCTGCCACA-A-TT-ATCTGATCTG
*
63999194 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
* * *
63999222 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
63999248 G
1 G
63999249 CAGCCATACT
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
24 2 0.03
25 3 0.04
26 6 0.09
27 38 0.54
28 16 0.23
29 3 0.04
30 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:64007539 original size:38 final size:38
Alignment explanation
Indices: 64007515--64007591 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
64007505 CAAATTGAAG
* *
64007515 TGATTGATTAAAAACTAAAATTAACTAATTAAATAAAC
1 TGATTGATTAAAAACTAAAATTAACCAATCAAATAAAC
* *
64007553 TGATTGATTAAAAACTAAAATTAACTAATTAAATAAAC
1 TGATTGATTAAAAACTAAAATTAACCAATCAAATAAAC
64007591 T
1 T
64007592 AAAGAACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (38 bp):
TGATTGATTAAAAACTAAAATTAACCAATCAAATAAAC
Found at i:64011212 original size:23 final size:23
Alignment explanation
Indices: 64011169--64011212 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
64011159 GTAATGCTTA
*
64011169 TCAAATCAAACATAAATAATAAT
1 TCAAATCAAAAATAAATAATAAT
*
64011192 TCAAAT-AAAAATTAATGAATA
1 TCAAATCAAAAATAAAT-AATA
64011213 GGGTTCCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
TCAAATCAAAAATAAATAATAAT
Found at i:64011448 original size:36 final size:36
Alignment explanation
Indices: 64011408--64011478 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
64011398 ATTTTCATTT
*
64011408 GAGCACATTTAGTAGGACCAGTAGATATTGCTCGTG
1 GAGCACATTTAGTAGAACCAGTAGATATTGCTCGTG
* *
64011444 GAGCACTTTTAGTAGAATCAGTAGATATTGCTCGT
1 GAGCACATTTAGTAGAACCAGTAGATATTGCTCGT
64011479 ACTTCAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (36 bp):
GAGCACATTTAGTAGAACCAGTAGATATTGCTCGTG
Found at i:64011550 original size:36 final size:36
Alignment explanation
Indices: 64011303--64011716 Score: 308
Period size: 37 Copynumber: 11.4 Consensus size: 36
64011293 GAAAATCTTA
* * *
64011303 TTCAGTATAATCAGTGGATATTGCTCGTTTGAACAACT
1 TTCAGTAGAATCAGTAGATATTGCTCG-TTGAGC-ACT
* *
64011341 ATTC-GACAAAATCAGTAGATATTGCTCGTTTGAGCAC-
1 -TTCAG-TAGAATCAGTAGATATTGCTCG-TTGAGCACT
* * * *
64011378 TTCAGTAGAATAAGTAGACAATT-TTCATTTGAGCACAT
1 TTCAGTAGAATCAGTAGA-TATTGCTC-GTTGAGCAC-T
* * *
64011416 TT-AGTAGGACCAGTAGATATTGCTCGTGGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTGAGCACT
*
64011451 TTTAGTAGAATCAGTAGATATTGCTCG-T----AC-
1 TTCAGTAGAATCAGTAGATATTGCTCGTTGAGCACT
* * * * ** *
64011481 TTCAATAGAATCAATAAACATTGCTTATTTGAGCACA
1 TTCAGTAGAATCAGTAGATATTGC-TCGTTGAGCACT
* * *
64011518 TTCAGTAGGATCAGTAGATACTGCTTGTTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTGAGCACT
* * *
64011554 TTCAGTAGAATTAGTAGATATTGCTTGTTTAAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCG-TTGAGCACT
* * * * *
64011591 TTCACTAGAATAAGTAGACATGGCTCATTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTCGTTGAGCACT
* * * *
64011627 TTTAGAAGCATCAGTAGATATTGCTCATTTGAGCACT
1 TTCAGTAGAATCAGTAGATATTGCTC-GTTGAGCACT
* *
64011664 TTCAATAGAATCAGTAGATATTGCTCGTTTGACCACT
1 TTCAGTAGAATCAGTAGATATTGCTCG-TTGAGCACT
*
64011701 TTCAGTAGAATTAGTA
1 TTCAGTAGAATCAGTA
64011717 TTCCATTTTT
Statistics
Matches: 294, Mismatches: 63, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
30 19 0.06
31 3 0.01
32 1 0.00
35 3 0.01
36 117 0.40
37 118 0.40
38 5 0.02
39 28 0.10
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (36 bp):
TTCAGTAGAATCAGTAGATATTGCTCGTTGAGCACT
Found at i:64011589 original size:73 final size:72
Alignment explanation
Indices: 64011354--64011716 Score: 258
Period size: 73 Copynumber: 5.1 Consensus size: 72
64011344 CGACAAAATC
** * * * ** *
64011354 AGTAGATATTGCTCGTTTGAGCAC-TTCAGTAGAATAAGTAGACAATTTTCATTTGAGCACATTT
1 AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGA-TATGCTC-GTTGAGCAC-TTT
* **
64011418 -AGTAGGACC
63 CAGTAGAATT
** * * *
64011427 AGTAGATATTGC-TCGTGGAGCACTTTTAGTAGAATCAGTAGATATTGCTCG-T----AC-TTCA
1 AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGATA-TGCTCGTTGAGCACTTTCA
* *
64011485 ATAGAATC
65 GTAGAATT
* * * * * * *
64011493 AATAAACATTGCTTATTTGAGCACATTCAGTAGGATCAGTAGATACTGCTTGTTGAGCACTTTCA
1 AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGATA-TGCTCGTTGAGCACTTTCA
64011558 GTAGAATT
65 GTAGAATT
* * * * * * *
64011566 AGTAGATATTGCTTGTTTAAGCACTTTCACTAGAATAAGTAGACATGGCTCATTGAGCACTTTTA
1 AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGATAT-GCTCGTTGAGCACTTTCA
* * *
64011631 GAAGCATC
65 GTAGAATT
* *
64011639 AGTAGATATTGCTCATTTGAGCACTTTCAATAGAATCAGTAGATATTGCTCGTTTGACCACTTTC
1 AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGATA-TGCTCG-TTGAGCACTTTC
64011704 AGTAGAATT
64 AGTAGAATT
64011713 AGTA
1 AGTA
64011717 TTCCATTTTT
Statistics
Matches: 223, Mismatches: 54, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
65 2 0.01
66 15 0.07
67 33 0.15
68 1 0.00
71 1 0.00
72 11 0.05
73 139 0.62
74 21 0.09
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
AGTAGATATTGCTTATTTGAGCACTTTCAATAGAATCAGTAGATATGCTCGTTGAGCACTTTCAG
TAGAATT
Found at i:64013703 original size:27 final size:27
Alignment explanation
Indices: 64013672--64013849 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
64013662 TAAATTGTAC
64013672 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
64013699 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
64013725 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64013753 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64013781 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64013808 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64013835 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64013850 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64013840 original size:82 final size:81
Alignment explanation
Indices: 64013669--64013849 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
64013659 GATTAAATTG
*
64013669 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
64013734 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
64013750 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
64013813 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
64013832 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64013850 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64038229 original size:27 final size:27
Alignment explanation
Indices: 64038198--64038375 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
64038188 TAAATTGTAC
64038198 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
64038225 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
64038251 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64038279 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64038307 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64038334 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64038361 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64038376 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64038366 original size:82 final size:81
Alignment explanation
Indices: 64038195--64038375 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
64038185 GATTAAATTG
*
64038195 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
64038260 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
64038276 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
64038339 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
64038358 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64038376 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64044069 original size:17 final size:17
Alignment explanation
Indices: 64044047--64044080 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64044037 TAGAACTTAA
64044047 TTATAAATCATTTGAGT
1 TTATAAATCATTTGAGT
64044064 TTATAAATCATTTGAGT
1 TTATAAATCATTTGAGT
64044081 CCTAATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TTATAAATCATTTGAGT
Found at i:64044441 original size:16 final size:17
Alignment explanation
Indices: 64044414--64044448 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
64044404 AATAATCAGG
*
64044414 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
64044431 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
64044447 TT
1 TT
64044449 TAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:64048381 original size:55 final size:53
Alignment explanation
Indices: 64048237--64048453 Score: 177
Period size: 55 Copynumber: 4.0 Consensus size: 53
64048227 TAACGTGGTA
* * * * *
64048237 TCCTTTTGAAGCTTACCATTGCAATGTCTTGACATGGTCTTACATGGTATCCTT
1 TCCTTATGAA-CTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* * *
64048291 TCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTTTTACATGGGA-CCTT
1 TCCTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* * ***
64048343 TGCCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTT
1 T-CCTTAT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* * ** * * *
64048399 GCCTTA-GAAACCTTACCAATTAACATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TCCTTATG-AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
64048454 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 25, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
52 5 0.04
53 40 0.30
54 17 0.13
55 66 0.50
56 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
TCCTTATGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
Found at i:64055060 original size:16 final size:16
Alignment explanation
Indices: 64055041--64055071 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64055031 CTTCTTCACT
64055041 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
64055057 TACTTACTTACTTAA
1 TACTCACTTACTTAA
64055072 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:64055077 original size:20 final size:20
Alignment explanation
Indices: 64055038--64055077 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
64055028 AAACTTCTTC
* *
64055038 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
64055058 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
64055078 TTATAAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:64055451 original size:55 final size:53
Alignment explanation
Indices: 64055301--64055510 Score: 226
Period size: 55 Copynumber: 3.9 Consensus size: 53
64055291 TTACGTGGTA
* * *
64055301 TCCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TCCTTATG-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* * *
64055355 TCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTT
1 TCCTTATGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* ***
64055407 TCCCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTT
1 T-CCTTAT-G-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
* * *
64055463 GCCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGG
1 TCCTTATG-AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGG
64055511 TATCGTTAAA
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.04
53 44 0.34
54 15 0.11
55 63 0.48
56 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (53 bp):
TCCTTATGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
Found at i:64066919 original size:25 final size:25
Alignment explanation
Indices: 64066889--64066939 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
64066879 GAAAGAGATG
64066889 AACTTTTCATGCATTTTCATGTTTT
1 AACTTTTCATGCATTTTCATGTTTT
64066914 AACTTTTCATGCATTTTCATGTTTT
1 AACTTTTCATGCATTTTCATGTTTT
64066939 A
1 A
64066940 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.55
Consensus pattern (25 bp):
AACTTTTCATGCATTTTCATGTTTT
Found at i:64069941 original size:46 final size:46
Alignment explanation
Indices: 64069888--64070103 Score: 224
Period size: 46 Copynumber: 4.6 Consensus size: 46
64069878 ATTGTTGGCT
* *
64069888 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-GATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGA-GACGAGAGCC
* *
64069934 AGTGTAAGACCATGTCTGGGACATCGCATCAG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TGAGACGAGAGCC
64069982 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-GAGACG-AGAGCC
* * * * * * * *
64070028 AGTGTAAGACATGTTTGGGACATGTATTGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGACGAGAGCC
64070074 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
64070104 AACACCTTAC
Statistics
Matches: 143, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.01
46 69 0.48
47 45 0.31
48 25 0.17
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGACGAGAGCC
Found at i:64070103 original size:94 final size:94
Alignment explanation
Indices: 64069885--64070103 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 94
64069875 GTTATTGTTG
* *
64069885 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGACGAGAGCCAGTGTAAGACCATGTC
*
64069950 TGGGACATCGCATCAGCATTGAGACGAGA
66 TGGGACATCGCATCAGCATCGAGACGAGA
*
64069979 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATGACG-AGAGCCAGTGTAAGACCATG
* * ** * *
64070041 TTTGGGACAT-GTATTGGC-TACGAGATGATA
64 TCTGGGACATCGCATCAGCAT-CGAGACGAGA
64070071 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC
64070104 AACACCTTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
91 2 0.02
92 22 0.20
93 27 0.25
94 55 0.50
95 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGACGAGAGCCAGTGTAAGACCATGTC
TGGGACATCGCATCAGCATCGAGACGAGA
Found at i:64072266 original size:28 final size:29
Alignment explanation
Indices: 64072234--64072295 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
64072224 TACCTGTATC
* * *
64072234 TGGCCCATTAAGCCC-CATCATATTCATA
1 TGGCCCAGTAAGCCCAAATCACATTCATA
* *
64072262 TGGCCCAGTAGGCCCAAATCACATTTATA
1 TGGCCCAGTAAGCCCAAATCACATTCATA
64072291 TGGCC
1 TGGCC
64072296 TGTTAGACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCAGTAAGCCCAAATCACATTCATA
Found at i:64072561 original size:8 final size:8
Alignment explanation
Indices: 64072530--64072564 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
64072520 GTAGCTAAAC
*
64072530 TTTCAGCT
1 TTTCGGCT
*
64072538 TTTCGGCG
1 TTTCGGCT
64072546 TTTCGGCT
1 TTTCGGCT
64072554 TTTCGGCT
1 TTTCGGCT
64072562 TTT
1 TTT
64072565 TGGCATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:64073699 original size:16 final size:16
Alignment explanation
Indices: 64073680--64073712 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64073670 CGAGAATTCA
64073680 GGATTTCAG-GATTTTT
1 GGATTTC-GTGATTTTT
64073696 GGATTTCGTGATTTTT
1 GGATTTCGTGATTTTT
64073712 G
1 G
64073713 AGGCGTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (16 bp):
GGATTTCGTGATTTTT
Found at i:64085765 original size:40 final size:40
Alignment explanation
Indices: 64085671--64085815 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
64085661 TACTCGAATG
*
64085671 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * * *
64085712 ACATCCGGACTAAGAT-TCGAAGGCATCTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
64085752 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
64085792 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
64085816 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.68
41 26 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:64087711 original size:13 final size:13
Alignment explanation
Indices: 64087672--64087711 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
64087662 AAAGTAATCG
64087672 CACACGGGCGTGT
1 CACACGGGCGTGT
* *
64087685 AACATGGGCGTGT
1 CACACGGGCGTGT
64087698 CACACGGGCGTGT
1 CACACGGGCGTGT
64087711 C
1 C
64087712 CCTGCCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:64098272 original size:21 final size:20
Alignment explanation
Indices: 64098242--64098280 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64098232 TTGAGTTGGT
*
64098242 CACACGGGCGTGTTGCCCTTC
1 CACACAGGCGTG-TGCCCTTC
64098263 CACACAGGCGTGTGCCCT
1 CACACAGGCGTGTGCCCT
64098281 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTC
Found at i:64101481 original size:46 final size:46
Alignment explanation
Indices: 64101421--64101784 Score: 457
Period size: 46 Copynumber: 7.9 Consensus size: 46
64101411 TTTGACATGA
* * * * * *
64101421 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGT
* *
64101467 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTT-ATATCACGT
* * *
64101513 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGT
* * *
64101559 TGTCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTT-ATATCACGT
* * * *
64101605 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGT
*
64101651 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTT-ATATCACGT
* * *
64101697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGT
* *
64101743 TTCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCA
64101785 AAGAGCACAC
Statistics
Matches: 278, Mismatches: 34, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
45 22 0.08
46 247 0.89
47 9 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTATATCACGT
Found at i:64101578 original size:92 final size:92
Alignment explanation
Indices: 64101421--64101771 Score: 594
Period size: 92 Copynumber: 3.8 Consensus size: 92
64101411 TTTGACATGA
* * * * ** * *
64101421 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
64101486 CATGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCTTTTCATGTCACGT
*
64101513 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
64101578 CATGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCTTTTCATGTCACGT
*
64101605 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
64101670 CATGGTCTTATTCTTTTCATATCACGT
66 CATGGTCTTATTCTTTTCATGTCACGT
*
64101697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTTCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
64101762 CATGGTCTTA
66 CATGGTCTTA
64101772 CCATTTCATA
Statistics
Matches: 245, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 245 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCTTTTCATGTCACGT
Found at i:64101679 original size:138 final size:137
Alignment explanation
Indices: 64101421--64101784 Score: 505
Period size: 138 Copynumber: 2.6 Consensus size: 137
64101411 TTTGACATGA
* * * * *
64101421 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTT-TTGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGTTGCCATGGTATCTTTCAA
* * *
64101485 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTA-CCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
64101550 ATATCAGGT
129 ATATCACGT
* *
64101559 TGTCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATCTTTCAAC
* * ** *
64101624 CATGGTTTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCA
66 CATGGTCTTAC-CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
64101689 TATCACGT
130 TATCACGT
* * * * *
64101697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTTCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATCTTTCAAC
64101762 CATGGTCTTACCATTTCATATCA
66 CATGGTCTTACCATTTCATATCA
64101785 AAGAGCACAC
Statistics
Matches: 200, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
137 16 0.08
138 184 0.92
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (137 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
ATCACGT
Found at i:64105037 original size:27 final size:26
Alignment explanation
Indices: 64104997--64105101 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 26
64104987 AGGAAGCGTC
*
64104997 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
64105024 CTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
64105051 CTGGTGGTTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
64105079 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
64105102 ATTCTGGCAG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 47 0.73
28 15 0.23
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:64105107 original size:54 final size:54
Alignment explanation
Indices: 64104997--64105108 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
64104987 AGGAAGCGTC
* *
64104997 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATACATCTATT
* * * * *
64105051 CTGGTGGTTTTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATACATCTATT
64105105 CTGG
1 CTGG
64105109 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATACATCTATT
Found at i:64112912 original size:13 final size:13
Alignment explanation
Indices: 64112894--64112922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64112884 TTTACTTTAA
64112894 TTAGTTAATTAGT
1 TTAGTTAATTAGT
64112907 TTAGTTAATTAGT
1 TTAGTTAATTAGT
64112920 TTA
1 TTA
64112923 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:64118322 original size:12 final size:12
Alignment explanation
Indices: 64118305--64118353 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
64118295 AATCCTCTTA
64118305 TCTTTTTATTTT
1 TCTTTTTATTTT
*
64118317 TCTTTTTTTCTTTT
1 TC--TTTTTATTTT
64118331 TCTTTTTATTTT
1 TCTTTTTATTTT
* *
64118343 TATTTTCATTT
1 TCTTTTTATTT
64118354 CAATTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 20 0.65
14 11 0.35
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTATTTT
Found at i:64118330 original size:14 final size:14
Alignment explanation
Indices: 64118307--64118337 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
64118297 TCCTCTTATC
64118307 TTTTTATTTTTCTT
1 TTTTTATTTTTCTT
*
64118321 TTTTTCTTTTTCTT
1 TTTTTATTTTTCTT
64118335 TTT
1 TTT
64118338 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTCTT
Found at i:64118330 original size:20 final size:20
Alignment explanation
Indices: 64118305--64118343 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64118295 AATCCTCTTA
*
64118305 TCTTTTTATTTTTCTTTTTT
1 TCTTTTTATTTTTATTTTTT
*
64118325 TCTTTTTCTTTTTATTTTT
1 TCTTTTTATTTTTATTTTT
64118344 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (20 bp):
TCTTTTTATTTTTATTTTTT
Found at i:64121261 original size:13 final size:13
Alignment explanation
Indices: 64121243--64121271 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64121233 TTTACTTTAA
64121243 TTAGTTAATTAGT
1 TTAGTTAATTAGT
64121256 TTAGTTAATTAGT
1 TTAGTTAATTAGT
64121269 TTA
1 TTA
64121272 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:64124611 original size:40 final size:40
Alignment explanation
Indices: 64124581--64124749 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
64124571 GGACTAAGAT
* *
64124581 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
64124621 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
64124661 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
64124701 CCGAAGGCATT-GTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
64124739 CCGAAGGCATT
1 CCGAAGGCATT
64124750 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 22 0.18
39 12 0.10
40 85 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:64124665 original size:80 final size:79
Alignment explanation
Indices: 64124528--64124751 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
64124518 TTGAATGCTG
* * * * * * *
64124528 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
64124592 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
64124608 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
64124673 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
64124688 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
64124752 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 22 0.18
79 14 0.11
80 83 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:64157916 original size:40 final size:40
Alignment explanation
Indices: 64157727--64157952 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
64157717 TTGAATGATG
* * * *
64157727 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64157767 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64157807 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64157847 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64157887 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
64157928 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64157953 AATGAGGAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64157970 original size:80 final size:79
Alignment explanation
Indices: 64157782--64157985 Score: 193
Period size: 80 Copynumber: 2.6 Consensus size: 79
64157772 ACTAAGATCT
** *
64157782 GAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA
1 GAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGATACTA
*
64157845 ATTCCGGGCTAAGTCCC
63 ATACCGGGCTAAGTCCC
** * *
64157862 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-A
1 GAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAGA-TACTAA
* *
64157925 TAACCGGGCTATGTCCT
64 T-ACCGGGCTAAGTCCC
* * *
64157942 GAAGGCATTTGAATGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 GAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
64157986 TACGTGATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
79 20 0.19
80 84 0.79
81 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATA
CCGGGCTAAGTCCC
Found at i:64157971 original size:120 final size:120
Alignment explanation
Indices: 64157727--64157952 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 120
64157717 TTGAATGATG
* *
64157727 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
64157792 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
64157847 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
64157910 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCTGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGATCC-GAAGGCATTTG
64157953 AATGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
119 5 0.05
120 78 0.85
121 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:64161926 original size:13 final size:13
Alignment explanation
Indices: 64161908--64161932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64161898 CATATTATAT
64161908 GTGTGAAAATTTC
1 GTGTGAAAATTTC
64161921 GTGTGAAAATTT
1 GTGTGAAAATTT
64161933 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:64174159 original size:47 final size:48
Alignment explanation
Indices: 64174086--64174267 Score: 162
Period size: 47 Copynumber: 3.9 Consensus size: 48
64174076 AGGGTGAGGT
* * * *
64174086 GTCGATACCATGTCCTAGGCACGGTCTTATACTGGCTCAT-ATCTT-AA
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-ATCATCTTGAA
* *
64174133 GTCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTTGTA
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTGAA
* * * * *
64174181 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAG
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTAT-CATCTTGAA
* * *
64174227 GCCGTTG-CATGT-CTCAGACATGGTCTTACACTGGCTCTCAT
1 GTCGATGCCATGTCCT-AGACATGGTCTTACACTGGCTATCAT
64174268 AATGTGGCTG
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 37 0.33
47 66 0.58
48 8 0.07
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (48 bp):
GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTGAA
Found at i:64174236 original size:46 final size:48
Alignment explanation
Indices: 64174135--64174304 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 48
64174125 TATCTTAAGT
* * *
64174135 CGATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCATCTTGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTATCATCTCGTAGC
*
64174183 CGATGCATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTATCATCTCGTA-GC
* * * * *
64174229 CGTTGCATGTCTCAGACATGGTCTTACACTGGC-TCTCATAAT-GTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTATCAT-CTCGTAGC
* *
64174276 TGATGCATGTCTCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
64174305 AGCTCACACA
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 47 0.45
47 50 0.48
48 6 0.06
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTATCATCTCGTAGC
Found at i:64174283 original size:47 final size:45
Alignment explanation
Indices: 64174135--64174309 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
64174125 TATCTTAAGT
* * * *
64174135 CGATGCCATGTC-CTAGACATGGTCTTACACTGACTATCATCTTGTAGC
1 CGATG-CATGTCTC-AGACAT-GTCTTACACTGGCTCTCAT-ATGTGGC
* * * *
64174183 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGC
1 CGATGCATGTCTCAGACATGTCTTACACTGGCTCT-CATAT-GTGGC
*
64174229 CGTTGCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCATGTCTCAGACAT-GTCTTACACTGGCTCTCAT-ATGTGGC
* *
64174276 TGATGCATGTCTCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCTCAGACATGTCTTACACTGGCTC
64174310 ACACACGAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 49 0.45
47 49 0.45
48 8 0.07
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCTCAGACATGTCTTACACTGGCTCTCATATGTGGC
Found at i:64177430 original size:29 final size:29
Alignment explanation
Indices: 64177377--64177532 Score: 185
Period size: 29 Copynumber: 5.4 Consensus size: 29
64177367 ATTTCCCACT
*
64177377 AGGCCCAATCTCA--TTTATATGGCCCATC
1 AGGCCCAAT-TCACGTTCATATGGCCCATC
*
64177405 CGGCCCAATTCACGTTCATATGGCCCATC
1 AGGCCCAATTCACGTTCATATGGCCCATC
*
64177434 AGACCCAATTCACGTTCATATGGCCCATC
1 AGGCCCAATTCACGTTCATATGGCCCATC
* * *
64177463 AGGCCCAATTCACATTCATATGACCCATT
1 AGGCCCAATTCACGTTCATATGGCCCATC
*
64177492 AGGCCCAATCTCA--TTTATATGGCCCATC
1 AGGCCCAAT-TCACGTTCATATGGCCCATC
* *
64177520 TGGCCCAAATCAC
1 AGGCCCAATTCAC
64177533 ATTATATTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.05
28 27 0.24
29 75 0.68
30 3 0.03
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (29 bp):
AGGCCCAATTCACGTTCATATGGCCCATC
Found at i:64177457 original size:58 final size:57
Alignment explanation
Indices: 64177380--64177539 Score: 207
Period size: 58 Copynumber: 2.8 Consensus size: 57
64177370 TCCCACTAGG
* * * *
64177380 CCCAATCTCATTTATATGGCCCATCCGGCCCAATTCACGTTCATATGGCCCATCAGA
1 CCCAATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATATGACCCATCAGA
* *
64177437 CCCAAT-TCACGTTCATATGGCCCATCAGGCCCAATTCACATTCATATGACCCATTAGG
1 CCCAATCTCA--TTCATATGGCCCATCAGGCCCAATTCACATTCATATGACCCATCAGA
* * *
64177495 CCCAATCTCATTTATATGGCCCATCTGGCCCAAATCACATT-ATAT
1 CCCAATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATAT
64177540 TCATGCCTAC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
56 7 0.08
57 34 0.37
58 47 0.52
59 3 0.03
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (57 bp):
CCCAATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATATGACCCATCAGA
Found at i:64177793 original size:16 final size:16
Alignment explanation
Indices: 64177751--64177793 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
64177741 GTAGCCAAAC
64177751 TTTTGGCTTTTCGGCA
1 TTTTGGCTTTTCGGCA
**
64177767 TTTTGATTTTTCGGCA
1 TTTTGGCTTTTCGGCA
64177783 TTTTGGCTTTT
1 TTTTGGCTTTT
64177794 GTCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.14, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:64178447 original size:17 final size:19
Alignment explanation
Indices: 64178425--64178467 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
64178415 ATGGAAATAT
64178425 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
64178442 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
64178461 AATCTTA
1 AATCTTA
64178468 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:64178478 original size:22 final size:19
Alignment explanation
Indices: 64178433--64178469 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
64178423 ATAATCTTCA
64178433 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64178452 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
64178470 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:64178495 original size:22 final size:22
Alignment explanation
Indices: 64178433--64178478 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
64178423 ATAATCTTCA
64178433 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
64178452 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
64178474 ATGAT
1 ATGAT
64178479 TTTGTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.62
22 9 0.38
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:64178783 original size:17 final size:17
Alignment explanation
Indices: 64178757--64178793 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64178747 CATGTTTCCC
*
64178757 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
64178775 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
64178792 TA
1 TA
64178794 GTATTATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:64188319 original size:39 final size:40
Alignment explanation
Indices: 64188150--64188318 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
64188140 GGACTAAGAT
* * *
64188150 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
64188190 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
64188230 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
64188270 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
64188309 CCGAAGGCAT
1 CCGAAGGCAT
64188319 GTGAACGAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:64188339 original size:79 final size:80
Alignment explanation
Indices: 64188150--64188354 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 80
64188140 GGACTAAGAT
* * * * *
64188150 CCGAAGGCCTTTGTGCGA-GATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATT
1 CCGAAGGCATTCGTGCGAGGA-GCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* *
64188214 AAAGCCGGGTTAAGTC
65 AAAACCGGGCTAAGTC
** * * * *
64188230 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
*
64188294 AAACCGGGCTATGTC
66 AAACCGGGCTAAGTC
* *
64188309 CCGAAGGCA-T-GTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGAAGGCATTCGTG--CGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
64188355 TACGCGAATT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
77 3 0.03
78 15 0.15
79 44 0.43
80 40 0.39
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
AAACCGGGCTAAGTC
Found at i:64196100 original size:40 final size:40
Alignment explanation
Indices: 64196046--64196211 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
64196036 ACTAAGATCT
* * *
64196046 GAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * *
64196086 GAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCC
** *
64196126 GAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCC
1 GAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * * *
64196166 GAAGGCA-TGGTGTGAGTTACTAAA-CCGGGCTATGTCCC
1 GAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCC
64196204 GAAGGCAT
1 GAAGGCAT
64196212 GTGAACGAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
38 19 0.17
39 13 0.12
40 77 0.71
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:64215489 original size:40 final size:41
Alignment explanation
Indices: 64215433--64215644 Score: 274
Period size: 40 Copynumber: 5.3 Consensus size: 41
64215423 CATTTGAATG
* *
64215433 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
64215473 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
64215513 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
64215553 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
64215593 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTAG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
64215633 ATATCC-GGCTAA
1 ATATCCGGGCTAA
64215645 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.05
40 135 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:64215640 original size:80 final size:80
Alignment explanation
Indices: 64215433--64215625 Score: 350
Period size: 80 Copynumber: 2.4 Consensus size: 80
64215423 CATTTGAATG
64215433 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
64215498 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
*
64215513 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
64215578 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
* *
64215593 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
64215626 TGTAGTTATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:64223805 original size:40 final size:41
Alignment explanation
Indices: 64223749--64223960 Score: 265
Period size: 40 Copynumber: 5.3 Consensus size: 41
64223739 CATTTGAATG
* *
64223749 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
64223789 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
64223829 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
64223869 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
64223909 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTAG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
64223949 ATATCC-GGCTAA
1 ATATCCGGGCTAA
64223961 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
39 8 0.05
40 133 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:64223954 original size:80 final size:79
Alignment explanation
Indices: 64223749--64223960 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 79
64223739 CATTTGAATG
64223749 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGACCCGAAGGCA
*
64223814 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGAT
*
64223829 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGACCCGAAGGCA
64223894 TTTGTGCGAGTTGAT
65 TTTGTGCGAGTTGAT
* * * *
64223909 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGT-AGTTATATCCGGCTAA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGA-TTTTATCCGGCTAA
64223961 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 7 0.06
80 116 0.94
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGAT
Found at i:64226339 original size:28 final size:28
Alignment explanation
Indices: 64226286--64226340 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
64226276 GTTTCAGTTA
* * *
64226286 GGGCCGTAGCCTATTATAGTATCAGTAT
1 GGGCCGTAGCCCATTATAATAACAGTAT
64226314 GGGCCGTAGCCCATT-TCAATAACAGTA
1 GGGCCGTAGCCCATTAT-AATAACAGTA
64226341 ACAGTATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (28 bp):
GGGCCGTAGCCCATTATAATAACAGTAT
Found at i:64229604 original size:56 final size:56
Alignment explanation
Indices: 64229539--64229665 Score: 191
Period size: 56 Copynumber: 2.3 Consensus size: 56
64229529 CATGGCATCG
* * *** *
64229539 ATATATGTGTGCGAGCAAGGCCACGTTTTATGTGTTGGCATCGATATGTGACTTCT
1 ATATATGTGTGCGAGCAAGACCACATTTTACACGTTGGCATCGATATGTGACTTCA
*
64229595 ATATATGTGTGCGAGTAAGACCACATTTTACACGTTGGCATCGATATGTGACTTCA
1 ATATATGTGTGCGAGCAAGACCACATTTTACACGTTGGCATCGATATGTGACTTCA
64229651 ATATATGTGTGCGAG
1 ATATATGTGTGCGAG
64229666 ATATATGTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGCAAGACCACATTTTACACGTTGGCATCGATATGTGACTTCA
Found at i:64231076 original size:18 final size:17
Alignment explanation
Indices: 64231044--64231082 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
64231034 AGATGGACTG
*
64231044 ATATGATATATATATGT
1 ATATGATAGATATATGT
64231061 ATATGATAAGATATATGT
1 ATATGAT-AGATATATGT
64231079 ATAT
1 ATAT
64231083 TGTAACACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (17 bp):
ATATGATAGATATATGT
Found at i:64232556 original size:39 final size:39
Alignment explanation
Indices: 64232435--64232696 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
64232425 GCTCCTCGTT
* *
64232435 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
64232475 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
64232515 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
64232554 CAAATGCCTTCGGGCTTAGCCCGGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64232593 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
64232632 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
64232673 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
64232697 CATCATTCAA
Statistics
Matches: 200, Mismatches: 15, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
39 129 0.64
40 60 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:64240575 original size:39 final size:39
Alignment explanation
Indices: 64240458--64240667 Score: 316
Period size: 39 Copynumber: 5.3 Consensus size: 39
64240448 GCTCCTCGTT
* *
64240458 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
64240498 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
64240538 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
64240577 CAAATGCCTTCGGGCTTAGCCCGGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64240616 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64240655 CAAATGCCTTCGG
1 CAAATGCCTTCGG
64240668 ATCTTAGTCC
Statistics
Matches: 160, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 112 0.70
40 46 0.29
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:64240703 original size:78 final size:78
Alignment explanation
Indices: 64240458--64240719 Score: 306
Period size: 78 Copynumber: 3.3 Consensus size: 78
64240448 GCTCCTCGTT
* * *
64240458 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
64240521 GGATTTAGTAAC-TCGCA
63 GGATTT-GT-ACTTCGCA
*
64240538 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCC-GG
*
64240602 ATTAGTA-TCTCGCA
65 ATTTGTACT-TCGCA
*
64240616 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGG
*
64240680 ATATTGTCACTTAGCA
65 AT-TTGT-ACTTCGCA
*
64240696 C-AA-GCCTTCGGGAATTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64240720 CATCATTCAA
Statistics
Matches: 162, Mismatches: 10, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
77 1 0.01
78 83 0.51
79 56 0.35
80 21 0.13
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGA
TTTGTACTTCGCA
Found at i:64244774 original size:14 final size:13
Alignment explanation
Indices: 64244751--64244781 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
64244741 AGAATTGGAA
64244751 AGTTAGTTGCAAG
1 AGTTAGTTGCAAG
64244764 AGTTAAGTTGCAAG
1 AGTT-AGTTGCAAG
64244778 AGTT
1 AGTT
64244782 GGCAGATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (13 bp):
AGTTAGTTGCAAG
Found at i:64251771 original size:24 final size:24
Alignment explanation
Indices: 64251729--64251777 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
64251719 AGAAGCTACA
*
64251729 ATGTAGGTTGTGGACAAAGCCACC
1 ATGTAAGTTGTGGACAAAGCCACC
**
64251753 ATGTAAGTTGTGGGTAAAGCCACC
1 ATGTAAGTTGTGGACAAAGCCACC
64251777 A
1 A
64251778 ATTCTTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (24 bp):
ATGTAAGTTGTGGACAAAGCCACC
Found at i:64258870 original size:24 final size:24
Alignment explanation
Indices: 64258818--64258985 Score: 216
Period size: 25 Copynumber: 7.0 Consensus size: 24
64258808 ACTTTATCAT
*
64258818 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
64258843 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* *
64258867 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTA
*
64258892 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
64258917 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
64258940 ATAACTGGGGCATAAGCGC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64258963 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
64258986 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
23 41 0.32
24 33 0.26
25 55 0.43
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:64258870 original size:49 final size:48
Alignment explanation
Indices: 64258817--64258985 Score: 218
Period size: 49 Copynumber: 3.5 Consensus size: 48
64258807 TACTTTATCA
* *
64258817 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
64258866 TATAACTGGGGCATAAGCCCTTCATCATAACTGGGGCATAAGCCCTTTAT
1 TATAACTGGGGCATAAGCCCTT-TTAATAACTGGGGCATAAGCCCTTT-T
* *
64258916 CATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCGC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
64258962 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
64258986 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
46 20 0.19
47 5 0.05
48 26 0.24
49 36 0.34
50 20 0.19
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:64258947 original size:23 final size:23
Alignment explanation
Indices: 64258839--64258984 Score: 211
Period size: 23 Copynumber: 6.1 Consensus size: 23
64258829 CCTAGCCTCT
*
64258839 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
64258862 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
64258886 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
64258911 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
64258936 TTTAATAACTGGGGCATAAGCGC
1 TTTAATAACTGGGGCATAAGCCC
64258959 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64258982 TTT
1 TTT
64258985 TGCACTTCCT
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
23 46 0.41
24 21 0.19
25 45 0.40
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:64259059 original size:20 final size:20
Alignment explanation
Indices: 64259031--64259101 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
64259021 GCATTTATGA
* *
64259031 ACATCTCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
64259051 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
64259071 ACATGTCATGCGCATATCAT
1 ACATATCATGTGCATATCAT
64259091 ACATATCATGT
1 ACATATCATGT
64259102 TTATCAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:64260563 original size:27 final size:27
Alignment explanation
Indices: 64260440--64260646 Score: 148
Period size: 27 Copynumber: 7.6 Consensus size: 27
64260430 CATCCTACAA
* * * *
64260440 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
64260467 GGGTATTTCAGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
64260494 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-CCAG
* * **
64260523 AGGTATTTTTGTAATTTTGTAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
**
64260550 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
**
64260576 AGGGTATTCCGGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
64260604 TGGTATTTTGGTAATTTTAAAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
64260631 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
64260647 CTATCTTACA
Statistics
Matches: 141, Mismatches: 33, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.01
27 110 0.78
28 17 0.12
29 13 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:64260663 original size:81 final size:81
Alignment explanation
Indices: 64260524--64260674 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
64260514 GAAAGTCAAA
* ** * ** *
64260524 GGTATTTTTGTAATTTTGTAAACCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTCCGGT
1 GGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTCCAGT
64260589 AATTTTACAAACCAGT
66 AATTTTACAAACCAGT
* ** *
64260605 GGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTCTATCTTACAGA-GGTATTTCAG
1 GGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGGTAATTCTA-CAAACAGAGGGTATTCCAG
64260669 TAATTT
65 TAATTT
64260675 CATAATCGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 54 0.93
82 4 0.07
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTAAAAACCAGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTCCAGT
AATTTTACAAACCAGT
Found at i:64260740 original size:27 final size:27
Alignment explanation
Indices: 64260678--64260876 Score: 220
Period size: 27 Copynumber: 7.3 Consensus size: 27
64260668 GTAATTTCAT
* * * *
64260678 AATCGAGGGTAAAACGATAATTTTTTTA
1 AATCGAGGGTAAAATGGTAA-TTCTATA
* *
64260706 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
** *
64260733 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
64260760 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
64260787 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
64260814 AATCGATGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
64260841 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
64260868 AATCGAGGG
1 AATCGAGGG
64260877 CATTTCAGTA
Statistics
Matches: 145, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
27 128 0.88
28 17 0.12
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Done.