Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 3 of 18
Found at i:318628 original size:21 final size:22
Alignment explanation
Indices: 318586--318642 Score: 98
Period size: 21 Copynumber: 2.6 Consensus size: 22
318576 TTTCTTTATC
318586 TCTCCCCCTTAATCAAAAAAATT
1 TCTCCCCCTTAATC-AAAAAATT
318609 TCTCCCCCTTAATC-AAAAATT
1 TCTCCCCCTTAATCAAAAAATT
318630 TCTCCCCCTTAAT
1 TCTCCCCCTTAAT
318643 AAAGCAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.59
23 14 0.41
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.33
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:320529 original size:13 final size:13
Alignment explanation
Indices: 320511--320547 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
320501 ATAAACCCTT
*
320511 TGTATCGATACAC
1 TGTATCGATACAA
320524 TGTATCGATACAA
1 TGTATCGATACAA
*
320537 TGCATCGATAC
1 TGTATCGATAC
320548 CGAGAATGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:326917 original size:13 final size:13
Alignment explanation
Indices: 326899--326923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
326889 ATTTTGCTTA
326899 GTATCGATACATT
1 GTATCGATACATT
326912 GTATCGATACAT
1 GTATCGATACAT
326924 AAACTAGCAG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:327041 original size:13 final size:13
Alignment explanation
Indices: 327023--327047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
327013 TCACTAGTCA
327023 TGTATCGATACAG
1 TGTATCGATACAG
327036 TGTATCGATACA
1 TGTATCGATACA
327048 TTGAGTCCAA
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:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:329008 original size:94 final size:94
Alignment explanation
Indices: 328846--329049 Score: 354
Period size: 94 Copynumber: 2.2 Consensus size: 94
328836 AATTGCCTGC
*
328846 ATGTATCGATACATTTAGATCAAAAACCTAGAATGTATAGATACAATGAGAAATGTAACAATACA
1 ATGTATCGATACATTTAGATCAAAAACCTAGAATGTATAGATACAATAAGAAATGTAACAATACA
* *
328911 ATTGTAAGCATGTATCAATAAAATTGCTT
66 ATTGTAAGCATATATCAATAAAATTACTT
* *
328940 ATGTATCGATACATTTAGATCAAAAACCTATAATGTATAGATACAATAAGAAATGTAACAATATA
1 ATGTATCGATACATTTAGATCAAAAACCTAGAATGTATAGATACAATAAGAAATGTAACAATACA
329005 ATTGTAAGCATATATCAATAAAATTACTT
66 ATTGTAAGCATATATCAATAAAATTACTT
*
329034 CTGTATCGATACATTT
1 ATGTATCGATACATTT
329050 CCTTTGCAGA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 104 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (94 bp):
ATGTATCGATACATTTAGATCAAAAACCTAGAATGTATAGATACAATAAGAAATGTAACAATACA
ATTGTAAGCATATATCAATAAAATTACTT
Found at i:329119 original size:20 final size:21
Alignment explanation
Indices: 329094--329147 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
329084 CATTTTAGGC
329094 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
* *
329114 ATGTATTGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
*
329135 TTGTATCGATACA
1 ATGTATCGATACA
329148 AATTTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:329145 original size:21 final size:21
Alignment explanation
Indices: 329074--329147 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
329064 AGGGTGGTTT
* *
329074 TGTATCGATACATTTTA-GGCA
1 TGTATCGATACA-TTTACTGTA
*
329095 TGTATCGATACATTCACT-TA
1 TGTATCGATACATTTACTGTA
* *
329115 TGTATTGATACATTTACTGTT
1 TGTATCGATACATTTACTGTA
329136 TGTATCGATACA
1 TGTATCGATACA
329148 AATTTTAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 20 0.45
21 24 0.55
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTACTGTA
Found at i:330075 original size:5 final size:5
Alignment explanation
Indices: 330065--330104 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
330055 GTATATAAAT
**
330065 TTTAA TTTAA TTTTAA TTTAA TTTAA TTTTT TTTAA TTTA
1 TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
330105 GTCCATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:330078 original size:11 final size:11
Alignment explanation
Indices: 330062--330104 Score: 63
Period size: 10 Copynumber: 4.1 Consensus size: 11
330052 TGAGTATATA
330062 AATTTTAATTT
1 AATTTTAATTT
330073 AATTTTAATTT
1 AATTTTAATTT
330084 AA-TTTAATTT
1 AATTTTAATTT
*
330094 -TTTTTAATTT
1 AATTTTAATTT
330104 A
1 A
330105 GTCCATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:330086 original size:16 final size:15
Alignment explanation
Indices: 330065--330104 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
330055 GTATATAAAT
330065 TTTAATTTAATTTTAA
1 TTTAATTTAATTTT-A
*
330081 TTTAATTTAATTTTT
1 TTTAATTTAATTTTA
330096 TTTAATTTA
1 TTTAATTTA
330105 GTCCATGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTAATTTAATTTTA
Found at i:330119 original size:19 final size:19
Alignment explanation
Indices: 330095--330141 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
330085 ATTTAATTTT
*
330095 TTTTAATTTAGTCC-ATGTA
1 TTTTAATTT-GTCCTATGAA
*
330114 TTTTAAATTGTCCTATGAA
1 TTTTAATTTGTCCTATGAA
330133 TTTTCAATT
1 TTTT-AATT
330142 CCAACAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 16 0.70
20 3 0.13
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTAATTTGTCCTATGAA
Found at i:338222 original size:42 final size:43
Alignment explanation
Indices: 338115--338222 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
338105 GATTGAACCG
* * * *
338115 ACAAGTCAACAAAGGATAAAAAGATTTACCTGGGACTAAGTCG
1 ACAAGTCAACAAAGGATAAAAAGATTGACCTGGAACGAAGTCA
* * * *
338158 ATAGGTAAACAAAGGATAAAAAGGTTGA-CTGAGAACGAA-TCA
1 ACAAGTCAACAAAGGATAAAAAGATTGACCTG-GAACGAAGTCA
338200 ACAAGTCAACAAAGGATAAAAAG
1 ACAAGTCAACAAAGGATAAAAAG
338223 TGAGATACTT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (43 bp):
ACAAGTCAACAAAGGATAAAAAGATTGACCTGGAACGAAGTCA
Found at i:338404 original size:44 final size:44
Alignment explanation
Indices: 338242--338863 Score: 156
Period size: 44 Copynumber: 14.2 Consensus size: 44
338232 TAATAAGGTT
* * * * **
338242 AAGTGTAACAAGTTTGACCAAGGCTAATCCATCACATTAAACG-
1 AAGTGAAAAAAGTTTGACCAGGGCTAAACCATCATGTTAAACGA
* * * *
338285 AGGATGAAAAGAGTTT-ATCCGGGGCTAAACCATCATGTTAAATGA
1 AAG-TGAAAAAAGTTTGA-CCAGGGCTAAACCATCATGTTAAACGA
** * * *
338330 AAGTGAAATGAGTTTGACCAAGG-TAGAACCATTATGTTAGACGA
1 AAGTGAAAAAAGTTTGACCAGGGCTA-AACCATCATGTTAAACGA
*
338374 GAA-TGAAAAAAGTTTGACTAGGGCTAAA-C--C-----AAACGA
1 -AAGTGAAAAAAGTTTGACCAGGGCTAAACCATCATGTTAAACGA
* * * * * ** *
338410 ATGTGAAAAGATTTTGACTAGGG-TAAAACCATCACGCCAAATGA
1 AAGTGAAAAAAGTTTGACCAGGGCT-AAACCATCATGTTAAACGA
** * * ** *
338454 AAACGAAAAGAGTTTGATCAGGG-TAAAACCATCACATCAAAC-A
1 AAGTGAAAAAAGTTTGACCAGGGCT-AAACCATCATGTTAAACGA
*** * * * *
338497 AAAACAAAAAGAATTTGACCATGG-TAAGACCATCATGTCAAAAGA
1 AAGTGAAAAA-AGTTTGACCAGGGCTAA-ACCATCATGTTAAACGA
** * *
338542 AAGCAAAAAAAAGTTTAACCAGGG-TAGAACCATCACGTTAAACGA
1 AAG-TGAAAAAAGTTTGACCAGGGCTA-AACCATCATGTTAAACGA
*** ** ** * *
338587 AAGTGAAAGGGGTTTAACTAGACCAGAAC-AATCACGTTCACGTCAAACGA
1 AAGTGAAAAAAG-TT---T-GACCAGGGCTAA--ACCATCATGTTAAACGA
* * * *
338637 AAGTGAAAAAAGTTTGACTA-GG-TAGAACCATCATGTCAGATGA
1 AAGTGAAAAAAGTTTGACCAGGGCTA-AACCATCATGTTAAACGA
* ** * * * * * *
338680 AAGTTAAAGGAGTTTGACTAGGGCAAAAACATTATGTCAAATGA
1 AAGTGAAAAAAGTTTGACCAGGGCTAAACCATCATGTTAAACGA
* ** * * ** *
338724 AAGAGAAAGGAGTTTGACCA-CGATAGAACCATCACATCAAACGA
1 AAGTGAAAAAAGTTTGACCAGGGCTA-AACCATCATGTTAAACGA
* * * * *
338768 AAAT-AAAAAGAGTTTGACCAGGGCAAAACCATGACGTTAAATGA
1 AAGTGAAAAA-AGTTTGACCAGGGCTAAACCATCATGTTAAACGA
* * * * *
338812 AAGTGAAAGAAGTTTAACTAGGG-TAGAACCATCATGTCAAATGA
1 AAGTGAAAAAAGTTTGACCAGGGCTA-AACCATCATGTTAAACGA
338856 AAGTGAAA
1 AAGTGAAA
338864 GGAGCTTGAT
Statistics
Matches: 428, Mismatches: 112, Indels: 77
0.69 0.18 0.12
Matches are distributed among these distances:
35 2 0.00
36 26 0.06
37 1 0.00
39 1 0.00
43 51 0.12
44 253 0.59
45 53 0.12
46 8 0.02
48 2 0.00
49 8 0.02
50 23 0.05
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (44 bp):
AAGTGAAAAAAGTTTGACCAGGGCTAAACCATCATGTTAAACGA
Found at i:338784 original size:88 final size:88
Alignment explanation
Indices: 338415--338845 Score: 317
Period size: 88 Copynumber: 4.8 Consensus size: 88
338405 AACGAATGTG
* * * * *
338415 AAAAGATTTTGACTAGGGTAAAACCATCACGCCAAATGAAA-ACGAAAAGAGTTTGATCAGGGTA
1 AAAAGAGTTTGACTAGGGCAAAACCATCACGTCAAATGAAAGA-GAAAAAAGTTTGACCAGGGTA
* * *
338479 AAACCATCACATCAAACAAAAACA
65 GAACCATCACATCAAACGAAAATA
* * * * * * * * *
338503 AAAAGAATTTGACCATGGTAAGACCATCATGTCAAAAGAAAGCAAAAAAAAGTTTAACCAGGGTA
1 AAAAGAGTTTGACTAGGGCAAAACCATCACGTCAAATGAAAG-AGAAAAAAGTTTGACCAGGGTA
* * * *
338568 GAACCATCACGTTAAACGAAAGTG
65 GAACCATCACATCAAACGAAAATA
* * * ** * * * *
338592 AAAGGGGTTTAACTAGACCAGAACAATCACGTTCACGTCAAACGAAAGTGAAAAAAGTTTGACTA
1 AAAAGAGTTTGACTAGGGC--AA-AA-C-C-ATCACGTCAAATGAAAGAGAAAAAAGTTTGACCA
** * * * *
338657 -GGTAGAACCATCATGTCAGATGAAAGTT
60 GGGTAGAACCATCACATCAAACGAAAATA
* * * * ** * *
338685 AAAGGAGTTTGACTAGGGCAAAAACATTATGTCAAATGAAAGAGAAAGGAGTTTGACCACGATAG
1 AAAAGAGTTTGACTAGGGCAAAACCATCACGTCAAATGAAAGAGAAAAAAGTTTGACCAGGGTAG
338750 AACCATCACATCAAACGAAAATA
66 AACCATCACATCAAACGAAAATA
* * * * * * *
338773 AAAAGAGTTTGACCAGGGCAAAACCATGACGTTAAATGAAAGTGAAAGAAGTTTAACTAGGGTAG
1 AAAAGAGTTTGACTAGGGCAAAACCATCACGTCAAATGAAAGAGAAAAAAGTTTGACCAGGGTAG
338838 AACCATCA
66 AACCATCA
338846 TGTCAAATGA
Statistics
Matches: 262, Mismatches: 72, Indels: 18
0.74 0.20 0.05
Matches are distributed among these distances:
87 26 0.10
88 117 0.45
89 44 0.17
90 3 0.01
91 4 0.02
92 1 0.00
93 39 0.15
94 14 0.05
95 14 0.05
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (88 bp):
AAAAGAGTTTGACTAGGGCAAAACCATCACGTCAAATGAAAGAGAAAAAAGTTTGACCAGGGTAG
AACCATCACATCAAACGAAAATA
Found at i:338832 original size:132 final size:131
Alignment explanation
Indices: 338624--338872 Score: 311
Period size: 132 Copynumber: 1.9 Consensus size: 131
338614 ACAATCACGT
* * * * * * * *
338624 TCACGTCAAACGAAAGTGAAAAAAGTTTGACTAGGTAGAACCATCATGTCAGATGAAAGTTAAAG
1 TCACATCAAACGAAAATGAAAAAAGTTTGACCAGGCAAAACCATCACGTCAAATGAAAGTGAAAG
* * * *
338689 GAGTTTGACTAGGGCAAAAACATTATGTCAAATGAAAGAGAAAGGAGTTTGACCACGATAGAACC
66 AAGTTTAACTAGGGCAAAAACATCATGTCAAATGAAAGAGAAAGGAGCTTGACCACGATAGAACC
338754 A
131 A
* *
338755 TCACATCAAACGAAAAT-AAAAAGAGTTTGACCAGGGCAAAACCATGACGTTAAATGAAAGTGAA
1 TCACATCAAACGAAAATGAAAAA-AGTTTGACCA-GGCAAAACCATCACGTCAAATGAAAGTGAA
* * * *
338819 AGAAGTTTAACTAGGGTAGAACCATCATGTCAAATGAAAGTGAAAGGAGCTTGA
64 AGAAGTTTAACTAGGGCAAAAACATCATGTCAAATGAAAGAGAAAGGAGCTTGA
338873 TGTCAAACAA
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 5 0.05
131 24 0.24
132 69 0.70
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (131 bp):
TCACATCAAACGAAAATGAAAAAAGTTTGACCAGGCAAAACCATCACGTCAAATGAAAGTGAAAG
AAGTTTAACTAGGGCAAAAACATCATGTCAAATGAAAGAGAAAGGAGCTTGACCACGATAGAACC
A
Found at i:338864 original size:44 final size:44
Alignment explanation
Indices: 338422--338864 Score: 241
Period size: 44 Copynumber: 9.9 Consensus size: 44
338412 GTGAAAAGAT
* * **
338422 TTTGACTAGGGTAAAACCATCACGCCAAATGAAAACGAAA-AGAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGA-AG
* * ** ***
338466 TTTGA-TCAGGGTAAAACCATCACATCAAACAAAAACAAAAAGAA-
1 TTTGACT-AGGGTAGAACCATCACGTCAAA-TGAAAGTGAAAGAAG
* * * * ** *
338510 TTTGACCATGGTA-AGACCATCATGTCAAAAGAAAGCAAAAAAAAG
1 TTTGACTAGGGTAGA-ACCATCACGTCAAATGAAAG-TGAAAGAAG
* * * * **
338555 TTTAACCAGGGTAGAACCATCACGTTAAACGAAAGTGAAAGGGG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGAAG
* *** * *
338599 TTTAACTAGACCAGAACAATCACGTTCACGTCAAACGAAAGTGAAAAAAG
1 TTTGACTAGGGTAGAAC---CA---TCACGTCAAATGAAAGTGAAAGAAG
* * * *
338649 TTTGACTA-GGTAGAACCATCATGTCAGATGAAAGTTAAAGGAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGAAG
* * * * * * *
338692 TTTGACTAGGGCAAAAACATTATGTCAAATGAAAGAGAAAGGAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGAAG
* * * * * * *
338736 TTTGACCACGATAGAACCATCACATCAAACGAAAAT-AAAAAGAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGA-AG
* * * * *
338780 TTTGACCAGGGCAAAACCATGACGTTAAATGAAAGTGAAAGAAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGAAG
* *
338824 TTTAACTAGGGTAGAACCATCATGTCAAATGAAAGTGAAAG
1 TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAG
338865 GAGCTTGATG
Statistics
Matches: 302, Mismatches: 80, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
43 36 0.12
44 188 0.62
45 39 0.13
46 4 0.01
47 2 0.01
49 5 0.02
50 28 0.09
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (44 bp):
TTTGACTAGGGTAGAACCATCACGTCAAATGAAAGTGAAAGAAG
Found at i:339648 original size:92 final size:92
Alignment explanation
Indices: 339409--339650 Score: 244
Period size: 94 Copynumber: 2.6 Consensus size: 92
339399 TTTCTGGTCA
* * * **
339409 TGTGATGCATCAATACCATCTAATAGTTAAA-GGAAAGGGATATGATTAGCAATGAGTGGTCAGG
1 TGTGATGCATCAATACCATCTAGTGGTTAAATGG-AAGGGATATGATTAGGAATGAGCAGTCAGG
*
339473 ATGCCTTTGTCCCAAGGAAATCAAGTTT
65 ATGCCTTTGTCCCAAGGAAATCAAGCTT
* * **
339501 TGTGATGTATCAATGTATC-TCCTAGTGGTTGGAT-GAATGGGATATGATTAGGAATGAGCAGTC
1 TGTGATGCATCAA--TACCAT-CTAGTGGTTAAATGGAA-GGGATATGATTAGGAATGAGCAGTC
* *
339564 -GAGATATCC-TTG-CTCCAAGGAAATCAGGCTT
62 AG-GAT-GCCTTTGTC-CCAAGGAAATCAAGCTT
* *
339595 TGTGATGCATGAATACCATCTAGTGGTTAAATGGAGGGGATATGATTAGGAATGAG
1 TGTGATGCATCAATACCATCTAGTGGTTAAATGGAAGGGATATGATTAGGAATGAG
339651 TGGTTTGCAC
Statistics
Matches: 122, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
92 46 0.38
93 8 0.07
94 66 0.54
95 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (92 bp):
TGTGATGCATCAATACCATCTAGTGGTTAAATGGAAGGGATATGATTAGGAATGAGCAGTCAGGA
TGCCTTTGTCCCAAGGAAATCAAGCTT
Found at i:343981 original size:51 final size:51
Alignment explanation
Indices: 343913--344028 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
343903 AAATAATGGG
** * *
343913 GTTGGAGTATCATCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
* * * *
343964 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCTGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
344015 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
344029 TCAAAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
Found at i:344049 original size:79 final size:78
Alignment explanation
Indices: 343964--344181 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 78
343954 TAAAATCGGA
* * *
343964 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCTGAGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATT-TGGAGAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
*
344029 TCAAAAATAATGGG
65 TCAAAAATAACGGG
* * * ** *
344043 GTTGGAGTAGCCCCGATTAT-GAGAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATT-TGGAG-AATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
*
344107 CTCGAAAATAACGGG
64 CTCAAAAATAACGGG
* * * *
344122 GTTGGAGTATCCCTGA--TGAAAAATTGTTGTTTT-GAAAATAAAACCAGGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTTGGAGAATTGATGTTTTAG-AAATAAAACCAGGGTTGGAGTATCC
344182 TCGAGATGAA
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
75 1 0.01
76 32 0.28
77 1 0.01
78 3 0.03
79 78 0.68
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTTGGAGAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
CAAAAATAACGGG
Found at i:346373 original size:13 final size:13
Alignment explanation
Indices: 346355--346380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
346345 CTATTTATGA
346355 TGTATCGATACAC
1 TGTATCGATACAC
346368 TGTATCGATACAC
1 TGTATCGATACAC
346381 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:346442 original size:24 final size:24
Alignment explanation
Indices: 346409--346493 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
346399 ATGAATATTG
346409 ATGAACAGTGATTTTTAACGATAC
1 ATGAACAGTGATTTTTAACGATAC
* ** * *
346433 ATGAATAGTGATACGTGAAC-A-AT
1 ATGAACAGTGAT-TTTTAACGATAC
346456 ATGAACAGTGTGATTTTTAACGATAC
1 ATGAACA--GTGATTTTTAACGATAC
*
346482 ATGAATAGTGAT
1 ATGAACAGTGAT
346494 ACATGAAAGT
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
23 7 0.16
24 21 0.47
25 10 0.22
26 7 0.16
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (24 bp):
ATGAACAGTGATTTTTAACGATAC
Found at i:346474 original size:49 final size:47
Alignment explanation
Indices: 346394--346537 Score: 164
Period size: 37 Copynumber: 3.2 Consensus size: 47
346384 AATATGTATC
* *
346394 GATACATGAATATTGATGAACAGTGATTTTTAACGATACATGAATAGT
1 GATACATGAACAAT-ATGAACAGTGATTTTTAACGATACATGAATAGT
*
346442 GATACGTGAACAATATGAACAGTGTGATTTTTAACGATACATGAATAGT
1 GATACATGAACAATATGAACA--GTGATTTTTAACGATACATGAATAGT
346491 G----AT--AC---ATGAA-AGTGATTTTTAACGATACATGAATAGT
1 GATACATGAACAATATGAACAGTGATTTTTAACGATACATGAATAGT
346528 GATACATGAA
1 GATACATGAA
346538 AGTGATGTAT
Statistics
Matches: 84, Mismatches: 4, Indels: 21
0.77 0.04 0.19
Matches are distributed among these distances:
37 27 0.32
39 1 0.01
40 5 0.06
41 2 0.02
43 3 0.04
45 1 0.01
47 7 0.08
48 11 0.13
49 27 0.32
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (47 bp):
GATACATGAACAATATGAACAGTGATTTTTAACGATACATGAATAGT
Found at i:346496 original size:14 final size:14
Alignment explanation
Indices: 346477--346543 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
346467 GATTTTTAAC
346477 GATACATGAATAGT
1 GATACATGAATAGT
346491 GATACATGAA-AGT
1 GATACATGAATAGT
** **
346504 GAT---T-TTTAAC
1 GATACATGAATAGT
346514 GATACATGAATAGT
1 GATACATGAATAGT
346528 GATACATGAA-AGT
1 GATACATGAATAGT
346541 GAT
1 GAT
346544 GTATCGATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
10 5 0.12
13 13 0.32
14 22 0.55
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (14 bp):
GATACATGAATAGT
Found at i:346672 original size:53 final size:53
Alignment explanation
Indices: 346608--346744 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
346598 CTACTTCCAA
346608 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * *
346661 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
346714 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
346745 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:346777 original size:20 final size:20
Alignment explanation
Indices: 346714--346784 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
346704 GCCAATGTCC
**
346714 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
346734 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
346754 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
*
346774 TGTATTGATAC
1 TGTATCGATAC
346785 TTTTCAGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 37 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:346850 original size:21 final size:21
Alignment explanation
Indices: 346824--346864 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
346814 GTCAACCTTG
346824 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
346845 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
346865 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:348082 original size:13 final size:13
Alignment explanation
Indices: 348064--348089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
348054 ACAAAGATCG
348064 ATGTATCGATACA
1 ATGTATCGATACA
348077 ATGTATCGATACA
1 ATGTATCGATACA
348090 TTGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:348165 original size:19 final size:19
Alignment explanation
Indices: 348141--348226 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
348131 AGCGATACAT
348141 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
348160 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
348173 TGTATCGATA-AAACACTTA
1 TGTATCGATACAAA-ACTTA
** *
348192 TGTATCGATACAGTTACTATT
1 TGTATCGATACA-AAACT-TA
348213 TGTATCGATACAAA
1 TGTATCGATACAAA
348227 TTGTTTGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 19
0.68 0.07 0.25
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 21 0.40
20 4 0.08
21 13 0.25
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:348174 original size:32 final size:32
Alignment explanation
Indices: 348128--348203 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
348118 GCAGTAGCTT
*
348128 TGTAGCGATACATTGTATCGATACAAA-ACTTA
1 TGTATCGATACATTGTATCGATA-AAACACTTA
348160 TGTATCGATACATTGTATCGATAAAACACTTA
1 TGTATCGATACATTGTATCGATAAAACACTTA
348192 TGTATCGATACA
1 TGTATCGATACA
348204 GTTACTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 3 0.07
32 39 0.93
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATAAAACACTTA
Found at i:354943 original size:10 final size:10
Alignment explanation
Indices: 354928--354975 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
354918 TTTAGCTTTA
354928 TTTTTTTCTT
1 TTTTTTTCTT
*
354938 TTTTTTTCTC
1 TTTTTTTCTT
354948 TTTTTTTCTT
1 TTTTTTTCTT
*
354958 TTTCTTCTCTT
1 TTT-TTTTCTT
354969 TTTTTTT
1 TTTTTTT
354976 TCACTTACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:354953 original size:20 final size:19
Alignment explanation
Indices: 354928--354973 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
354918 TTTAGCTTTA
*
354928 TTTTTTTCTTTTTTTTTCTC
1 TTTTTTTC-TTTTTCTTCTC
354948 TTTTTTTCTTTTTCTTCTC
1 TTTTTTTCTTTTTCTTCTC
354967 TTTTTTT
1 TTTTTTT
354974 TTTCACTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTTCTC
Found at i:355703 original size:34 final size:35
Alignment explanation
Indices: 355665--355731 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
355655 CCTTAAAACA
355665 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
355699 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
355732 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:356208 original size:13 final size:13
Alignment explanation
Indices: 356190--356215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
356180 CAATTTTTTG
356190 TGTATCGATACAT
1 TGTATCGATACAT
356203 TGTATCGATACAT
1 TGTATCGATACAT
356216 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:356230 original size:32 final size:33
Alignment explanation
Indices: 356170--356233 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
356160 TACAAGCCAA
** *
356170 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
356203 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
356234 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:356954 original size:21 final size:21
Alignment explanation
Indices: 356911--356957 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
356901 TAATTCACGC
* *
356911 ATTCTCCCCCGTTTATTAATA
1 ATTCTCCCCCGTTAATCAATA
356932 ATTCTCCCCC-TTAATCAAGTA
1 ATTCTCCCCCGTTAATCAA-TA
356953 ATTCT
1 ATTCT
356958 TATCAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTCTCCCCCGTTAATCAATA
Found at i:357384 original size:30 final size:31
Alignment explanation
Indices: 357328--357395 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
357318 TTCATGCAAC
* * *
357328 TAATACCAAAAGTTTATGCAAGCTCTCCCTCT
1 TAATA-CAAAAGTTTATACAAACTCTCCCCCT
357360 TAATACAAAA-TTTATACAAACTCTCCCCCT
1 TAATACAAAAGTTTATACAAACTCTCCCCCT
357390 TAATAC
1 TAATAC
357396 GTTGTCACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 23 0.70
31 5 0.15
32 5 0.15
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (31 bp):
TAATACAAAAGTTTATACAAACTCTCCCCCT
Found at i:358225 original size:13 final size:13
Alignment explanation
Indices: 358207--358231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
358197 ACTGAAGTAA
358207 TGTATCGATACAT
1 TGTATCGATACAT
358220 TGTATCGATACA
1 TGTATCGATACA
358232 ATCTGGAAAA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:358832 original size:23 final size:24
Alignment explanation
Indices: 358787--358833 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
358777 CAAAGAATTG
*
358787 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
358811 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
358834 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:361395 original size:34 final size:35
Alignment explanation
Indices: 361357--361423 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
361347 CCTTACAACA
361357 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
361391 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
361424 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:361900 original size:13 final size:13
Alignment explanation
Indices: 361882--361907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
361872 CAATTTTTTG
361882 TGTATCGATACAT
1 TGTATCGATACAT
361895 TGTATCGATACAT
1 TGTATCGATACAT
361908 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:361922 original size:32 final size:33
Alignment explanation
Indices: 361862--361925 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
361852 TACAAGCCAA
** *
361862 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
361895 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
361926 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:363161 original size:30 final size:30
Alignment explanation
Indices: 363125--363186 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
363115 CCATAGAGAT
363125 AATTTTCAAAATTCATCAAGAAATTATTTA
1 AATTTTCAAAATTCATCAAGAAATTATTTA
363155 AATTTTCAAAATTCATCAAGAAATTATTTA
1 AATTTTCAAAATTCATCAAGAAATTATTTA
363185 AA
1 AA
363187 GACAAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (30 bp):
AATTTTCAAAATTCATCAAGAAATTATTTA
Found at i:369587 original size:34 final size:34
Alignment explanation
Indices: 369512--369779 Score: 346
Period size: 34 Copynumber: 7.9 Consensus size: 34
369502 TGATTGAAAA
* * *
369512 GTTCTATCTTAGCCTTTGAAAATAATAGAGAGGAG
1 GTTCTATCTTAGCCTTTGAAAA-GATAGGGAAGAG
369547 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
1 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
*
369581 GTTCTATCTTAGCCTATGAAAAGATAAGGAGAA-AG
1 GTTCTATCTTAGCCTTTGAAAAGAT-AGG-GAAGAG
*
369616 G-TCTATCTTAGCCTTTGAAAAGATAGGGAAGAT
1 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
* *
369649 GTTCTATCTTAGTCTGTGAAAAGATAGGG-AGAAG
1 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAG-AG
*
369683 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAAAG
1 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
* * * *
369717 GTTTTATCTTAGCCTGTGAAAAGATAAGGAAAAG
1 GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
*
369751 ATTCTATCTTAG-CTTGTGAAAAGATAGGG
1 GTTCTATCTTAGCCTT-TGAAAAGATAGGG
369780 TTGTAGGGTT
Statistics
Matches: 207, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.01
33 9 0.04
34 163 0.79
35 29 0.14
36 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (34 bp):
GTTCTATCTTAGCCTTTGAAAAGATAGGGAAGAG
Found at i:372034 original size:20 final size:21
Alignment explanation
Indices: 371995--372035 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
371985 ACAGCCCATG
371995 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
372016 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
372036 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:381589 original size:13 final size:13
Alignment explanation
Indices: 381571--381596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
381561 CAATTTTTTG
381571 TGTATCGATACAT
1 TGTATCGATACAT
381584 TGTATCGATACAT
1 TGTATCGATACAT
381597 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:381661 original size:21 final size:20
Alignment explanation
Indices: 381635--381711 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
381625 CTGCCAAGAA
381635 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
381656 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
381676 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
381696 CATGTATCGATACATT
1 -ATGTATCGATACATT
381712 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:381681 original size:20 final size:20
Alignment explanation
Indices: 381656--381728 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
381646 CATCTTTTTT
381656 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
381676 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
381697 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
381717 ATGTATCGATAC
1 ATGTATCGATAC
381729 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:381695 original size:41 final size:41
Alignment explanation
Indices: 381635--381728 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
381625 CTGCCAAGAA
*
381635 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
381676 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
381717 ATGTATCGATAC
1 ATGTATCGATAC
381729 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:382389 original size:34 final size:32
Alignment explanation
Indices: 382349--382443 Score: 165
Period size: 31 Copynumber: 2.9 Consensus size: 32
382339 CCCGTTTATT
382349 AAAAAATCTCCCCCTTAATCAAGTAATTCAAAAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTC--AAA
382383 AAAAAATCTCCCCCTTAATCAAGTAATTC-AA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCAAA
382414 AAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCA
382444 TATCAAAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 31 0.52
34 29 0.48
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.25
Consensus pattern (32 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCAAA
Found at i:384254 original size:13 final size:13
Alignment explanation
Indices: 384236--384276 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
384226 ATAATCACCC
*
384236 TGTATCGATACAG
1 TGTATCGATACAA
*
384249 TGTATCGACACAA
1 TGTATCGATACAA
384262 TGTATCGATACAA
1 TGTATCGATACAA
384275 TG
1 TG
384277 AAAAATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:386365 original size:15 final size:15
Alignment explanation
Indices: 386345--386375 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
386335 ATTTCGTTTG
*
386345 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
386360 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
386375 G
1 G
386376 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:390454 original size:13 final size:13
Alignment explanation
Indices: 390436--390461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
390426 CAATTTTTTG
390436 TGTATCGATACAT
1 TGTATCGATACAT
390449 TGTATCGATACAT
1 TGTATCGATACAT
390462 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:390546 original size:20 final size:20
Alignment explanation
Indices: 390521--390572 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
390511 CATCTTTTTT
390521 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
390541 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
390561 ATGTATCGATAC
1 ATGTATCGATAC
390573 TTTGAATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:393379 original size:21 final size:21
Alignment explanation
Indices: 393339--393379 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
393329 ATTCATAAAT
*
393339 TTGATTTTCATCATATTTATG
1 TTGATTTTCATCATAATTATG
**
393360 TTGATTTTCATTGTAATTAT
1 TTGATTTTCATCATAATTAT
393380 TTGTGTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (21 bp):
TTGATTTTCATCATAATTATG
Found at i:393600 original size:21 final size:20
Alignment explanation
Indices: 393567--393609 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
393557 TATGTGAGAT
393567 ATGTTTCACGCATGTTTAAAC
1 ATGTTTCACGCAT-TTTAAAC
* * *
393588 ATGTTTTAGGCATTTTCAAC
1 ATGTTTCACGCATTTTAAAC
393608 AT
1 AT
393610 TTTAAGGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTTTCACGCATTTTAAAC
Found at i:394683 original size:153 final size:154
Alignment explanation
Indices: 394427--394752 Score: 353
Period size: 153 Copynumber: 2.1 Consensus size: 154
394417 CGTATTTTTG
* * * * * * *
394427 TAATTTTTCCTAGAATCGAGTCTTAGGTAGTTACCAAGATGCTTTTATGCCAAAAGTGTGTATTT
1 TAATTTTTCTTAAAATCGAGTCCTAGGTAGTCACCAAGATGCTTTTATGCCAAAAGTATGCATAT
394492 AAAATAGGTTCATCCTTTTATAATCTTTTTGTCATTTAGGGTCATTAAG-ATACTTTCACAACGA
66 AAAATAGGTTCATCCTTTTATAATCTTTTTGTCATTTAGGGTCA-TAAGAATACTTTCACAACGA
394556 AGGTATACCCTAAGGGCATTTTA-C
130 AGGTATACCCTAAGGGCATTTTAGC
*
394580 TAATTTTTCTTAAAGAT-GAGTCCTAGGTAGTCACCAA-ATGCTTTTATGCCAAAGGTATGCATA
1 TAATTTTTCTTAAA-ATCGAGTCCTAGGTAGTCACCAAGATGCTTTTATGCCAAAAGTATGCATA
** * ** * ** **
394643 TAGGATAGGTTCAT-CTTTT-TTATCATTTTCATGTTTTTTAGGGTTATCGGAATACTTTCACGT
65 TAAAATAGGTTCATCCTTTTATAATC-TTTT--TGTCATTTAGGGTCATAAGAATACTTTCACAA
* **
394706 CGAAGGTATACCCTGAGGTTATTTTAGC
127 CGAAGGTATACCCTAAGGGCATTTTAGC
*
394734 -AATTTTT-TTAAAACCGAGT
1 TAATTTTTCTTAAAATCGAGT
394753 TTGATGTTGT
Statistics
Matches: 144, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
150 4 0.03
151 10 0.07
152 45 0.31
153 82 0.57
154 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (154 bp):
TAATTTTTCTTAAAATCGAGTCCTAGGTAGTCACCAAGATGCTTTTATGCCAAAAGTATGCATAT
AAAATAGGTTCATCCTTTTATAATCTTTTTGTCATTTAGGGTCATAAGAATACTTTCACAACGAA
GGTATACCCTAAGGGCATTTTAGC
Found at i:403894 original size:13 final size:13
Alignment explanation
Indices: 403876--403901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
403866 CAATTTTTTG
403876 TGTATCGATACAT
1 TGTATCGATACAT
403889 TGTATCGATACAT
1 TGTATCGATACAT
403902 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:405373 original size:13 final size:13
Alignment explanation
Indices: 405355--405393 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
405345 ATAATCACCC
*
405355 TGTATCGATACAG
1 TGTATCGATACAA
405368 TGTATCGATACAA
1 TGTATCGATACAA
405381 TGTATCGATACAA
1 TGTATCGATACAA
405394 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:405404 original size:20 final size:20
Alignment explanation
Indices: 405379--405417 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
405369 GTATCGATAC
405379 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
405399 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
405418 TTTCCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:409334 original size:21 final size:21
Alignment explanation
Indices: 409305--409349 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
409295 AAGTTTTCAT
*
409305 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
409325 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
409347 TTT
1 TTT
409350 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:411583 original size:13 final size:13
Alignment explanation
Indices: 411565--411590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
411555 CAATTTTTTG
411565 TGTATCGATACAT
1 TGTATCGATACAT
411578 TGTATCGATACAT
1 TGTATCGATACAT
411591 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:413325 original size:33 final size:33
Alignment explanation
Indices: 413283--413347 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
413273 TGACTAGCTG
413283 TAGAAAGAATGGCATAGTTATTAAAAGTATATT
1 TAGAAAGAATGGCATAGTTATTAAAAGTATATT
*
413316 TAGAAAGAATGGCTTAGTTATTAAAAGTATAT
1 TAGAAAGAATGGCATAGTTATTAAAAGTATAT
413348 GGAAATTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (33 bp):
TAGAAAGAATGGCATAGTTATTAAAAGTATATT
Found at i:413973 original size:60 final size:61
Alignment explanation
Indices: 413870--413991 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 61
413860 TACAACCATA
* * * *
413870 GAGGGTGATTGTATTAAGTATGCCCGAAAATATCATAAATGCCA-AGATTTTTTCCATATG
1 GAGGGTAATTGTATTAAATATGCCCGAAAACATCATAAATGCCATAGACTTTTTCCATATG
* *
413930 GAGGGTAATTGTATTAAATATG-CCG-AAACATCATAATCGTGCCATAGCCTTTTTCCATATG
1 GAGGGTAATTGTATTAAATATGCCCGAAAACATCATAA--ATGCCATAGACTTTTTCCATATG
413991 G
1 G
413992 GGCATGGATG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
58 10 0.19
59 3 0.06
60 25 0.47
61 15 0.28
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (61 bp):
GAGGGTAATTGTATTAAATATGCCCGAAAACATCATAAATGCCATAGACTTTTTCCATATG
Found at i:419365 original size:71 final size:70
Alignment explanation
Indices: 419207--419402 Score: 216
Period size: 71 Copynumber: 2.7 Consensus size: 70
419197 TTTGTTTCGG
* *
419207 CTATTGTTGGAAATTATAACCACTTATT-CTCCATCATGTTTTTCTTTCTCAGCTCATTATCAGT
1 CTATTGTTGGAAATTATAACCACTTATTCCT-TATCATGTTCTTC-TT-T-AGCTCATTATCAGT
*
419271 TTATTTCAA
62 TCATTTCAA
* *
419280 CTATTTTTGGGAAATTATAACCA-TATATTCCTTATCATGTTCTTCTTTAGCTCATTATTAGTTC
1 CTATTGTT-GGAAATTATAACCACT-TATTCCTTATCATGTTCTTCTTTAGCTCATTATCAGTTC
*
419344 ATTTTAA
64 ATTTCAA
* * * * *
419351 CTATTGTTAAGAAATTACAACCACTTATTCCTTATAATGTCCATCTTTAGCT
1 CTATTGTT-GGAAATTATAACCACTTATTCCTTATCATGTTCTTCTTTAGCT
419403 TGTTATCTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
71 63 0.59
72 2 0.02
73 10 0.09
74 29 0.27
75 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (70 bp):
CTATTGTTGGAAATTATAACCACTTATTCCTTATCATGTTCTTCTTTAGCTCATTATCAGTTCAT
TTCAA
Found at i:420325 original size:94 final size:95
Alignment explanation
Indices: 420096--420330 Score: 233
Period size: 98 Copynumber: 2.5 Consensus size: 95
420086 TTTCATCTTG
* * *
420096 GTCACCCTTTGTTGACTTATATTGTTTCATCTCGATCAACTTATTCGTTCATATGGTTTCATCCT
1 GTCACCCTTTGTTGACTCATATGGTTTCATCTCGATCAA-TTATTCGTTCATATGATTTCATCCT
** *
420161 AGCTAACTCCTTTTTGACTTAGGTTCTTTCCTA
65 AGCTAACTCCTTTTTGA--TAGGTTCCATCCAA
* * * ** * * *
420194 GTCATCTTTTGTTGACTCGTATGGTTTTGTCTTGATCAATT-TGTCAGTTCATATGATTTCCTCT
1 GTCACCCTTTGTTGACTCATATGGTTTCATCTCGATCAATTAT-TC-GTTCATATGATTTCATCC
* * **
420258 TGGCTAATTTTTTTTTGA-A-GTTCCATCCAA
64 TAGCTAACTCCTTTTTGATAGGTTCCATCCAA
*
420288 GTCACCCTTTATTGACTCATATGGTTTCATCTCGATCAATTAT
1 GTCACCCTTTGTTGACTCATATGGTTTCATCTCGATCAATTAT
420331 CTTAAATCGT
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
94 42 0.39
95 2 0.02
96 1 0.01
97 4 0.04
98 60 0.55
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (95 bp):
GTCACCCTTTGTTGACTCATATGGTTTCATCTCGATCAATTATTCGTTCATATGATTTCATCCTA
GCTAACTCCTTTTTGATAGGTTCCATCCAA
Found at i:420560 original size:98 final size:98
Alignment explanation
Indices: 420405--420645 Score: 392
Period size: 98 Copynumber: 2.4 Consensus size: 98
420395 TTCATCTTGA
* * *
420405 TCAATTTGTTGGTTCATATGGTTTCATCCCAACTAACTCTTTTTAGACTTGGATTCTATCTTGGT
1 TCAACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTTAGACTTGGATTCTATCTTGGT
420470 TACCCTTTGTTGACTTGTTTGGTTTTGTCATAG
66 TACCCTTTGTTGACTTGTTTGGTTTTGTCATAG
420503 TCAACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTTAGACTTGGATTCTATCTTGGT
1 TCAACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTTAGACTTGGATTCTATCTTGGT
* *
420568 TTCCCTTTGTTGACTTGTTTGGTTTTGTCCTAG
66 TACCCTTTGTTGACTTGTTTGGTTTTGTCATAG
* * * *
420601 TCAACTTGTTGGTTCATATGATTTTCATCCTGGCCAACTCATTTT
1 TCAACTTGTTGGTTCATATG-GTTTCATCCTAGCTAACTCTTTTT
420646 CGATTTAGGT
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 113 0.85
99 20 0.15
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.48
Consensus pattern (98 bp):
TCAACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTTAGACTTGGATTCTATCTTGGT
TACCCTTTGTTGACTTGTTTGGTTTTGTCATAG
Found at i:422157 original size:6 final size:6
Alignment explanation
Indices: 422146--422205 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
422136 ATGATTATTG
*
422146 ATTTTA ATTTTA ATTTT- ATTTTA ATTTTA GATTTTTT ATTTT- ATTTT-
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA -A-TTTTA ATTTTA ATTTTA
*
422193 ATTTTA TTTTTA A
1 ATTTTA ATTTTA A
422206 ACTAGTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 15 0.32
6 26 0.55
7 2 0.04
8 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (6 bp):
ATTTTA
Found at i:422168 original size:5 final size:5
Alignment explanation
Indices: 422146--422202 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
422136 ATGATTATTG
**
422146 ATTTT AATTTT AATTTT ATTTT AATTTT AGATT -TTTT ATTTT ATTTT
1 ATTTT -ATTTT -ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
422193 ATTTT ATTTT
1 ATTTT ATTTT
422203 TAAACTAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
4 2 0.04
5 27 0.60
6 16 0.36
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:422192 original size:30 final size:31
Alignment explanation
Indices: 422147--422204 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
422137 TGATTATTGA
422147 TTTTAATTTTAATTTTATTTTAATTTTAGAT
1 TTTTAATTTTAATTTTATTTTAATTTTAGAT
* *
422178 TTTTTATTTT-ATTTTATTTTATTTTTA
1 TTTTAATTTTAATTTTATTTTAATTTTA
422205 AACTAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (31 bp):
TTTTAATTTTAATTTTATTTTAATTTTAGAT
Found at i:422677 original size:20 final size:20
Alignment explanation
Indices: 422636--422689 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
422626 TTCTATAATT
422636 TGTATCGATACAATAACAGAA
1 TGTATCGATAC-ATAACAGAA
**
422657 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAACAGAA
422677 TGTATCGATACAT
1 TGTATCGATACAT
422690 GTTTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAACAGAA
Found at i:422874 original size:51 final size:51
Alignment explanation
Indices: 422745--422880 Score: 159
Period size: 51 Copynumber: 2.6 Consensus size: 51
422735 TTTGTAAAGA
* * *
422745 AAATGTATTAATACATTTTTCATTGTATTGATACATTCTGGGTTTTTAACCC
1 AAATGTATTGATACATTTTT-ATTGTATAGATACATGCTGGGTTTTTAACCC
* * * *
422797 AAATGT-TCGATACATTATTCATTGTATCGATACATGCTGGG-TTTTGACCC
1 AAATGTATTGATACATT-TTTATTGTATAGATACATGCTGGGTTTTTAACCC
*
422847 AAATGTATTGATACATTCTTTAATGTATAGATAC
1 AAATGTATTGATACATT-TTTATTGTATAGATAC
422881 TGTAGGCAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
50 14 0.20
51 49 0.69
52 8 0.11
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (51 bp):
AAATGTATTGATACATTTTTATTGTATAGATACATGCTGGGTTTTTAACCC
Found at i:428881 original size:51 final size:51
Alignment explanation
Indices: 428811--428945 Score: 180
Period size: 51 Copynumber: 2.6 Consensus size: 51
428801 TTTTACTGTT
* * * * *
428811 TGTATCCATACAGTATTCATTGTATCGATACATTATGGGTTTTTACCTAGA
1 TGTATCAATACATTATTCATTGTATCGATACATTATAGGTTCTTACCCAGA
* *
428862 TGTATCAATACATTCTTCATTGTATCGATACATTCTAGGTTCTTACCCAGA
1 TGTATCAATACATTATTCATTGTATCGATACATTATAGGTTCTTACCCAGA
* * *
428913 TGTATCGATACATTAATCAATGTATCGATACAT
1 TGTATCAATACATTATTCATTGTATCGATACAT
428946 GCAGGTAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (51 bp):
TGTATCAATACATTATTCATTGTATCGATACATTATAGGTTCTTACCCAGA
Found at i:435723 original size:49 final size:49
Alignment explanation
Indices: 435648--435829 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
435638 ATTTGCCTGC
* * *
435648 ATGTATCGATACATTGAAGAACGTATCGATACATCTAGGTAAACCCAGA
1 ATGTATCAATACAATGAAGAATGTATCGATACATCTAGGTAAACCCAGA
** * *
435697 ATGTATCGGTACAATGAAGAATGTATCAATACATCTAGGTAAACCTAGA
1 ATGTATCAATACAATGAAGAATGTATCGATACATCTAGGTAAACCCAGA
* *
435746 ATGTATCAATACAATGAAGAATGTATCGGTACATCTGGGTAAATACCCAGA
1 ATGTATCAATACAATGAAGAATGTATCGATACATCTAGGT-AA-ACCCAGA
*
435797 ATGTATCAATACAATGAATAATGTATCGATACA
1 ATGTATCAATACAATGAAGAATGTATCGATACA
435830 AACAGTAACA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
49 79 0.67
50 2 0.02
51 37 0.31
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (49 bp):
ATGTATCAATACAATGAAGAATGTATCGATACATCTAGGTAAACCCAGA
Found at i:436581 original size:61 final size:61
Alignment explanation
Indices: 436467--436593 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 61
436457 AAAGATGATG
* * * * *
436467 AAGATGAGAAGAGTGATAACGATGCCAATATGCTAACTCAGGGCTAGCAATATTGGGCTTC
1 AAGATGAGAAGAGTGATAAAGATGCCAATATGCTAACTCAAGGCCAGCAATATTAGGCTTA
* * * * *
436528 AAGATGAGAAG-GATGATAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTAGGCTTA
1 AAGATGAGAAGAG-TGATAAAGATGCCAATATGCTAACTCAAGGCCAGCAATATTAGGCTTA
436589 AAGAT
1 AAGAT
436594 ACGAAGAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 54 0.98
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (61 bp):
AAGATGAGAAGAGTGATAAAGATGCCAATATGCTAACTCAAGGCCAGCAATATTAGGCTTA
Found at i:436788 original size:101 final size:97
Alignment explanation
Indices: 436654--436989 Score: 349
Period size: 101 Copynumber: 3.4 Consensus size: 97
436644 ATGAGAAGAA
* * *
436654 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTAGGAATATTAAAGATTCCAATATACTG
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA--AATATTAAAG-TGCCAATATGCTG
*
436719 ATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGG
* ** * * * *
436755 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATTGAAGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAATATTAAAGTGCCAATATGCTGATT
* * *
436820 CAAGGCCAACGACATTAGACTTAAAGACGGTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGA---T-AAGG
**
436856 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGGTAAAGGTGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAA--TATTAAA-GTGCCAATATGCTG
*
436921 ATTCAAGGCCAGCGATATTGGTCTT----A-AAGG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGATAAGG
* * * *
436951 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA
436990 GAAAGAGATG
Statistics
Matches: 197, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
95 39 0.20
98 35 0.18
99 8 0.04
100 1 0.01
101 78 0.40
103 3 0.02
104 33 0.17
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (97 bp):
TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAATATTAAAGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATAAGG
Found at i:436916 original size:202 final size:196
Alignment explanation
Indices: 436544--436989 Score: 524
Period size: 202 Copynumber: 2.2 Consensus size: 196
436534 AGAAGGATGA
* * * *
436544 TAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAAAGATACGAAGAATGTCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTAAAGATACGAAG-ATGCCAAT
* * * * *
436609 GTGCTGATTCACGGCCAATAACATTAGACTTGAAGATGAGAAGAATGCCAATATGCTGATTCAAG
64 GTGCTAATTCAAGGCCAACAACATTAGACTTAAAGAGGAGAAGAATGCCAATATGCTGATTCAAG
* * *
436674 GCCAGCAACATTGGGCTTAGGAATATTAAAGATTCCAATATACTGATTCAAGGCCAGCGATATCG
129 GCCAGCAACATTGGACTTAGG-ATAGTAAAGATGCCAATATACTGATTCAAGGCCAGCGATATCG
436739 GACT
193 GACT
* *
436743 TAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGAT-TGAAG-TG
1 T----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATACGAAGATG
* *
436806 CCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAAGACGGTA-AAG-GTGCCAATATGCTG
59 CCAATGTGCTAATTCAAGGCCAACAACATTAGACTTAAAGA-GG-AGAAGAATGCCAATATGCTG
* * *
436869 ATTCAAGGCCAGCAACATTGGACTTAAAGG-TGGTAAAGGTGCCAATATGCTGATTCAAGGCCAG
122 ATTCAAGGCCAGCAACATTGGACTT--AGGATAGTAAAGATGCCAATATACTGATTCAAGGCCAG
* *
436933 CGATATTGGTCT
185 CGATATCGGACT
*
436945 TAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTTA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTA
436990 GAAAGAGATG
Statistics
Matches: 212, Mismatches: 23, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
196 38 0.18
197 2 0.01
198 1 0.00
199 1 0.00
202 114 0.54
203 5 0.02
204 10 0.05
205 41 0.19
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (196 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATACGAAGATGCCAATGT
GCTAATTCAAGGCCAACAACATTAGACTTAAAGAGGAGAAGAATGCCAATATGCTGATTCAAGGC
CAGCAACATTGGACTTAGGATAGTAAAGATGCCAATATACTGATTCAAGGCCAGCGATATCGGAC
T
Found at i:436932 original size:52 final size:51
Alignment explanation
Indices: 436539--436949 Score: 377
Period size: 52 Copynumber: 8.0 Consensus size: 51
436529 AGATGAGAAG
* *
436539 GATGATAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTAAA
1 GATG-TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAA
*** * * * * *** * *
436591 GATACGAAGAATGTCAATGTGCTGATTCACGGCCAATAACATTAGACTTGAA
1 GATGTAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * *
436643 GATG-AGAAGAATGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTAGGAA
1 GATGTA-AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA
* * * * * *
436697 TAT-TAAAGATTCCAATATACTGATTCAAGGCCAGCGATATCGGACTTAAA
1 GATGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* *
436747 GATG--AAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAA
1 GATGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * * *
436796 GAT-TGAA-GTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTAAA
1 GATGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* *
436845 GACGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAA
1 GA-TGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * *
436897 GGTGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAA
1 GAT-GTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
436949 G
1 G
436950 GTGCCAATGT
Statistics
Matches: 291, Mismatches: 55, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
49 81 0.28
50 6 0.02
51 7 0.02
52 189 0.65
53 3 0.01
54 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (51 bp):
GATGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
Found at i:436968 original size:43 final size:43
Alignment explanation
Indices: 436902--436989 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
436892 TTAAAGGTGG
* * *
436902 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCT
1 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCT
*
436945 TAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGGCT
1 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCT
436988 TA
1 TA
436990 GAAAGAGATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCT
Found at i:437069 original size:33 final size:32
Alignment explanation
Indices: 436998--437098 Score: 127
Period size: 32 Copynumber: 3.2 Consensus size: 32
436988 TAGAAAGAGA
* *
436998 TGCCACCAACTTGTGT-AGGCTTTTGAAAGGGT
1 TGCCACCAGCTTGTGTGA-GCTTTTGAAAAGGT
437030 TGCCACCAGCTTGTGTGAGCTTTTGAAGAAGGT
1 TGCCACCAGCTTGTGTGAGCTTTTGAA-AAGGT
* *
437063 TGCCACCAGCTTGTGTGGGC-TTT-AAAAGGG
1 TGCCACCAGCTTGTGTGAGCTTTTGAAAAGGT
437093 TGCCAC
1 TGCCAC
437099 AGAGTTATGG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
30 10 0.16
31 2 0.03
32 27 0.43
33 24 0.38
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (32 bp):
TGCCACCAGCTTGTGTGAGCTTTTGAAAAGGT
Found at i:437130 original size:34 final size:33
Alignment explanation
Indices: 437086--438098 Score: 785
Period size: 32 Copynumber: 32.4 Consensus size: 33
437076 TGTGGGCTTT
* * *
437086 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437119 AAAAAAGGTGCCACGGAGTTATGGACTTAAAAAG
1 -AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437153 -AAAAGGTGCCATGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437185 -AAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437217 -AAAAGTTGCCACGGAGTTGTGGACTT---A--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437244 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437277 -GAAAGGTGCCACGGAGTTTTGGACTT---A--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
**
437304 AAAAA-GTGCCACAAAGTTGTGGACTTAAAAGAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAG-G
* * *
437337 AAAAAGGTGCCACAGAGTTATAGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
437370 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
437402 -AAAAGGTGCCATGGTGTTCTGGACTT---A--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437429 AAAAAGGTGCCAGGGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* * *
437463 AAAAAGGTGTCATGAAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
**
437490 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
** ** *
437524 AAAAAGGTGCCATAGAGTCATGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
437557 AAAAA-GTGCCACAAAGTTGTGGACTTAAACGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437589 AAAAA-GTGCCACGAAGTTGTGGACTTAAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGG
*
437622 AAAAAGGTGCCCCGGAGTTGTGGAC-T-----G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * *
437649 AAAAAACTGCCACTGAGTTATGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* *
437683 AAAAATGTGCCACAGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437715 -----GGTGCCACTGAGTTGTGGACTTAAAATGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* * * *
437744 AAAAAGGTTCCACGGAGTCGTAGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
437777 -AAAAGGTGTTACGGAGTTGTAGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
437809 -AAAAGGTGCCACAGAGTTGTGGACTT---A--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437836 AAAAATGTACCACGGAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437863 AAAAATGTACCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* * * *
437897 AAAAAGGTACCGCAGAGTTGTGGACATAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437929 -----GGTGCCACGAAGTTGTGGACTTGAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * * *
437957 --GAGGGTGCCACGAAGTCGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
437988 AAAAA-GTGCCACAGAGTTGTGGGCTTTGAAAA--
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
438020 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* **
438053 AACAAGGTGCTGCGGAGTTGTGGAC--AATGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAA--AAGG
438086 AAAAAGGATGCCA
1 AAAAAGG-TGCCA
438099 TTAAGTCGTG
Statistics
Matches: 808, Mismatches: 105, Indels: 132
0.77 0.10 0.13
Matches are distributed among these distances:
27 134 0.17
28 75 0.09
29 5 0.01
30 1 0.00
31 33 0.04
32 278 0.34
33 75 0.09
34 207 0.26
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:437163 original size:96 final size:94
Alignment explanation
Indices: 437084--437713 Score: 266
Period size: 93 Copynumber: 6.7 Consensus size: 94
437074 TGTGTGGGCT
437084 TTAAAAGG-G-TGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAGTTATGGACTT
1 TTAAAAGGAGATGCCACAGAGTTATGGACTTAAAAGG--AAAAGGTGCCACGGAGTTATGGACTT
**
437147 AAAAAGAAAAGG-TGCCATGGAGTTATGGAC
64 AAAAAGAAAAGGTTGCCATCCAGTTATGGAC
* * * *
437177 TTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAGTTGCCACGGAGTTGTGGACT
1 TTAAAAGG---AGATGCCACAGAGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGACT
* *
437242 TAAAAAG----GG-TGCCA-CGGAGTTGTGGAC
63 TAAAAAGAAAAGGTTGCCATC-CAGTTATGGAC
* * * ** *
437269 TTAAAAGGGAAAGGTGCCACGGAGTTTTGGACTT--AA--AAAA-GTGCCACAAAGTTGTGGACT
1 TTAAAA-GG--AGATGCCACAGAGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGACT
* *
437329 TAAAAGAGAAAAAGG-TGCCA-CAGAGTTATAGAC
63 TAAAA-AG-AAAAGGTTGCCATC-CAGTTATGGAC
* * * * * *
437362 TTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGTGTTCTGGACT
1 TTAAAAGG---AGATGCCACAGAGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGACT
*** *
437427 T---AA-AAAAGG-TGCCAGGGAGTTGTGGAC
63 TAAAAAGAAAAGGTTGCCATCCAGTTATGGAC
* * * * ** *
437454 TTAAAAGGGAAAAAGGTGTCA-TGAAGTTGTGGACTT---A--AAAAGGTGCCATAGAGTTGTGG
1 TTAAAA-GG----AGATGCCACAG-AGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGG
* ** *
437513 ACTTAAAAGGGAAAAAGG-TGCCATAGAGTCATGGAC
60 ACTTAAAA-AG-AAAAGGTTGCCATCCAGTTATGGAC
* * * * * * * *
437549 TTAAAAAGAAAAAGTGCCACAAAGTTGTGGACTTAAACGGAAAAAGTGCCACGAAGTTGTGGACT
1 TT-AAAAG-GAGA-TGCCACAGAGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGACT
*
437614 TAAAAAGGAAAAAGG-TGCC--CCGGAGTTGTGGAC
63 TAAAAA-G-AAAAGGTTGCCATCC--AGTTATGGAC
* * * * *
437647 TGAAAA--A-ACTGCCACTGAGTTATGGACTTAAAAGGGAAAAATGTGCCACAGAGTTGTGGACT
1 TTAAAAGGAGA-TGCCACAGAGTTATGGACTTAAAA-GG-AAAAGGTGCCACGGAGTTATGGACT
437709 TAAAA
63 TAAAA
437714 GGGTGCCACT
Statistics
Matches: 436, Mismatches: 58, Indels: 84
0.75 0.10 0.15
Matches are distributed among these distances:
87 22 0.05
88 6 0.01
89 23 0.05
90 2 0.00
91 1 0.00
92 76 0.17
93 97 0.22
94 26 0.06
95 53 0.12
96 34 0.08
97 9 0.02
98 87 0.20
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (94 bp):
TTAAAAGGAGATGCCACAGAGTTATGGACTTAAAAGGAAAAGGTGCCACGGAGTTATGGACTTAA
AAAGAAAAGGTTGCCATCCAGTTATGGAC
Found at i:437334 original size:25 final size:26
Alignment explanation
Indices: 437217--437333 Score: 81
Period size: 28 Copynumber: 4.1 Consensus size: 26
437207 ACTTAAAAGG
**
437217 AAAAGTTGCCACGGAGTTGTGGACTTA
1 AAAAG-TGCCACAAAGTTGTGGACTTA
**
437244 AAAAGGGTGCCACGGAGTTGTGGACTTAAA
1 AAAA--GTGCCACAAAGTTGTGGACTT--A
** *
437274 AGGGAAAGGTGCCACGGAGTTTTGGACTTAA
1 A---AAA-GTGCCACAAAGTTGTGGACTT-A
437305 AAAAGTGCCACAAAGTTGTGGACTTA
1 AAAAGTGCCACAAAGTTGTGGACTTA
437331 AAA
1 AAA
437334 GAGAAAAAGG
Statistics
Matches: 79, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.05
27 22 0.28
28 23 0.29
29 1 0.01
30 2 0.03
31 3 0.04
32 21 0.27
33 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (26 bp):
AAAAGTGCCACAAAGTTGTGGACTTA
Found at i:437508 original size:27 final size:27
Alignment explanation
Indices: 437463--437520 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
437453 CTTAAAAGGG
*
437463 AAAAAGGTGTCATGAAGTTGTGGACTT
1 AAAAAGGTGCCATGAAGTTGTGGACTT
437490 AAAAAGGTGCCAT-AGAGTTGTGGACTT
1 AAAAAGGTGCCATGA-AGTTGTGGACTT
437517 AAAA
1 AAAA
437521 GGGAAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.26
Consensus pattern (27 bp):
AAAAAGGTGCCATGAAGTTGTGGACTT
Found at i:437579 original size:187 final size:185
Alignment explanation
Indices: 437120--438052 Score: 788
Period size: 187 Copynumber: 5.0 Consensus size: 185
437110 CTTAAAAGGA
* * *
437120 AAAAAGGTGCCACGGAGTTATGGACTTAAAA-AG-AAAAGGTGCCATGGAGTTATGGACTT-AAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCATAGAGTTATGGACTTAAAA
* *
437182 AGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAGTTGCCACGGAGTTGTGGACTTAAAA
66 AGAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
437247 AGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGGAGTTTTGGACTT
130 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGAAGTTGTGGACTT
* * * *
437303 AAAAAAGTGCCACAAAGTTGTGGACTTAAAAGAGAAAAAGGTGCCACAGAGTTATAGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCATAGAGTTATGGACTTAAAA
* * * * *
437368 GGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGTGTTCTGGACTTAAAAA
66 AGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
* * *
437433 AGGTGCCAGGGAGTTGTGGACTTAAAAGGGAAAAAGGTGTCATGAAGTTGTGGACTT
131 AGGTGCCACGGAGTTGTGGACTTAAAAGGG--AAAGGTGCCACGAAGTTGTGGACTT
* * *
437490 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATAGAGTCATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCATAGAGTTATGGACTTAAAA
** * * *
437555 AGAAAAAGTGCCACAAAGTTGTGGACTTAAACGGAAAAAGTGCCACGAAGTTGTGGACTTAAAAA
66 AGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT----A
* * * *
437620 GGAAAAAGGTGCCCCGGAGTTGTGGAC-TGAAA---AAA-CTGCCACTG-AGTTATGGACTT
127 --AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCAC-GAAGTTGTGGACTT
* *
437676 AAAAGGGAAAAATGTGCCACAGAGTTGTGGACTT-AAA-AG-----GGTGCCACT-GAGTTGTGG
1 -------AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCA-TAGAGTTATGG
* * * * * ** *
437733 ACTTAAAATGGAAAAAGGTTCCACGGAGTCGTAGACTTAAAAAGAAAAGGTGTTACGGAGTTGTA
58 ACTTAAAA-AGAAAAA-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTG
* * * *
437798 GACTTAAAAGGAAAAGGTGCCACAGAGTTGTGGACTT-AAA---AAATGTACCACGGAGTTGTGG
121 GACTT--AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGAAGTTGTGG
437859 ACTT
182 ACTT
* * * * * ** * *
437863 AAAAATGTACCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTACCGCAGAGTTGTGGACAT-AAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCATAGAGTTATGGACTTAAAA
* * * * * * *
437927 AG----GGTGCCACGAAGTTGTGGACTTGAAAGG-GAGGGTGCCACGAAGTCGTGGACTTAAAAA
66 AGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTT---AA
* * * ** *
437987 GAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAA-AAAAAGGTGCCACGGAGTTGTGGACTT
128 -AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAGGTGCCACGAAGTTGTGGACTT
438047 AAAAAG
1 AAAAAG
438053 AACAAGGTGC
Statistics
Matches: 615, Mismatches: 94, Indels: 81
0.78 0.12 0.10
Matches are distributed among these distances:
179 41 0.07
180 52 0.08
181 3 0.00
182 4 0.01
183 27 0.04
184 31 0.05
185 105 0.17
186 80 0.13
187 174 0.28
188 41 0.07
191 2 0.00
192 7 0.01
193 48 0.08
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (185 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAGAAAAAGGTGCCATAGAGTTATGGACTTAAAA
AGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAA
AGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAGGTGCCACGAAGTTGTGGACTT
Found at i:437673 original size:61 final size:61
Alignment explanation
Indices: 437490--437867 Score: 323
Period size: 61 Copynumber: 6.0 Consensus size: 61
437480 TTGTGGACTT
* ** **
437490 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATAGAGTCATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTT---A---AAAAA-GTGCCACGGAGTTGTGGACTTAAAA
437555 A-G
59 AGG
* *
437557 AAAAA-GTGCCACAAAGTTGTGGACTTAAACGGAAAAAGTGCCACGAAGTTGTGGACTTAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTT--A---AAAAAGTGCCACGGAGTTGTGGACTTAAAAAG
437621 G
61 G
* * * * * * *
437622 AAAAAGGTGCCCCGGAGTTGTGGACTGAAAAAACTGCCACTGAGTTATGGACTTAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGG
* ** * *
437683 AAAAATGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACTGAGTTGTGGACTTAAAATGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGG
* * * * ** *
437744 AAAAAGGTTCCACGGAGTCGTAGACTTAAAAAGAAAAGGTGTTACGGAGTTGTAGACTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTT---AA-AAAA-GTGCCACGGAGTTGTGGACTTAAAAAG
437808 G
61 G
*
437809 -AAAAGGTGCCACAGAGTTGTGGACTTAAAAAATGTACCACGGAGTTGTGGACTTAAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAA-GTGCCACGGAGTTGTGGACTTAAAAA
437868 TGTACCACGG
Statistics
Matches: 256, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
60 21 0.08
61 108 0.42
64 46 0.18
65 23 0.09
66 53 0.21
67 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (61 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGG
Found at i:437721 original size:27 final size:27
Alignment explanation
Indices: 437689--437985 Score: 135
Period size: 27 Copynumber: 9.9 Consensus size: 27
437679 AGGGAAAAAT
*
437689 GTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
*
437716 GTGCCACTGAGTTGTGGACTTAAAATGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA--G-----G
* * *
437750 GTTCCACGGAGTCGTAGACTTAAAAAGAAAAG
1 GTGCCACGGAGTTGTGGACTT-AAAAG----G
** *
437782 GTGTTACGGAGTTGTAGACTTAAAAGGAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA-G----G
* **
437814 GTGCCACAGAGTTGTGGACTTAAAAAAT
1 GTGCCACGGAGTTGTGGACTT-AAAAGG
* **
437842 GTACCACGGAGTTGTGGACTTAAAAAT
1 GTGCCACGGAGTTGTGGACTTAAAAGG
*
437869 GTACCACGGAGTTGTGGACTTAAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGACTTAAAA--G-----G
* * * *
437903 GTACCGCAGAGTTGTGGACATAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
*
437930 GTGCCACGAAGTTGTGGACTTGAAAGGGAGG
1 GTGCCACGGAGTTGTGGACTT-AAA---AGG
* *
437961 GTGCCACGAAGTCGTGGACTTAAAA
1 GTGCCACGGAGTTGTGGACTTAAAA
437986 AGAAAAAGTG
Statistics
Matches: 221, Mismatches: 28, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
27 73 0.33
28 22 0.10
29 1 0.00
30 3 0.01
31 27 0.12
32 46 0.21
33 5 0.02
34 40 0.18
35 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:437937 original size:61 final size:61
Alignment explanation
Indices: 437836--437958 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
437826 TGTGGACTTA
* * * * *
437836 AAAAATGTACCACGGAGTTGTGGACTTAAAAATGTACCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTACCACAGAGTTGTGGACATAAAAAGGTACCACGAAGTTGTGGACTTAAAAGGG
* * * *
437897 AAAAAGGTACCGCAGAGTTGTGGACATAAAAGGGTGCCACGAAGTTGTGGACTTGAAAGGG
1 AAAAAGGTACCACAGAGTTGTGGACATAAAAAGGTACCACGAAGTTGTGGACTTAAAAGGG
437958 A
1 A
437959 GGGTGCCACG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (61 bp):
AAAAAGGTACCACAGAGTTGTGGACATAAAAAGGTACCACGAAGTTGTGGACTTAAAAGGG
Found at i:439418 original size:18 final size:18
Alignment explanation
Indices: 439395--439439 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
439385 TTTTGCCCTC
439395 TTTTTTTTTGT-TTTTTG
1 TTTTTTTTTGTCTTTTTG
439412 TTGTTTTTTTGTCGTTTTTG
1 TT-TTTTTTTGTC-TTTTTG
439432 TTTTTTTT
1 TTTTTTTT
439440 CTTCTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 9 0.36
19 6 0.24
20 8 0.32
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTGTCTTTTTG
Found at i:439418 original size:20 final size:20
Alignment explanation
Indices: 439363--439439 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
439353 TGTTTTTCAC
439363 TTTTTGTTGTTCTTTTTTT-T
1 TTTTTGTTGTT-TTTTTTTGT
* *
439383 TATTTTGCCCTCTTTTTTTTTGT
1 T-TTTTG--TTGTTTTTTTTTGT
*
439406 TTTTTGTTGTTTTTTTGTCG-
1 TTTTTGTTGTTTTTTT-TTGT
439426 TTTTTGTT-TTTTTT
1 TTTTTGTTGTTTTTT
439440 CTTCTTTATC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.13
20 17 0.36
21 7 0.15
22 12 0.26
23 5 0.11
ACGTcount: A:0.01, C:0.08, G:0.12, T:0.79
Consensus pattern (20 bp):
TTTTTGTTGTTTTTTTTTGT
Found at i:445171 original size:7 final size:8
Alignment explanation
Indices: 445152--445176 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
445142 TGGAAGGCAA
445152 AAAAAATC
1 AAAAAATC
445160 AAAAAATC
1 AAAAAATC
445168 AAAAAATC
1 AAAAAATC
445176 A
1 A
445177 CATTTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:445322 original size:32 final size:32
Alignment explanation
Indices: 445281--445353 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
445271 AGAAACAGAA
* *
445281 AATGTATCGATACATAAGTGTTGTATTGATAT
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
445313 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
445345 AATGTATCG
1 AATGTATCG
445354 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:445339 original size:19 final size:18
Alignment explanation
Indices: 445283--445345 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
445273 AAACAGAAAA
445283 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
445302 TGTATTGAT--ATAA---
1 TGTATCGATACATAAGTT
445315 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
445334 TGTATCGATACA
1 TGTATCGATACA
445346 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
15 4 0.11
17 4 0.11
19 20 0.56
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:445395 original size:13 final size:13
Alignment explanation
Indices: 445377--445402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
445367 GCCAAGGAAA
445377 TGTATCGATACAT
1 TGTATCGATACAT
445390 TGTATCGATACAT
1 TGTATCGATACAT
445403 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:447888 original size:28 final size:28
Alignment explanation
Indices: 447856--447927 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
447846 TCACAATCAA
** **
447856 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
* *
447884 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCTCGTTACCTCAGAGG
447912 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
447928 GCTTTATTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACCTCAGAGG
Found at i:447986 original size:51 final size:51
Alignment explanation
Indices: 447910--448133 Score: 223
Period size: 51 Copynumber: 4.4 Consensus size: 51
447900 TTACCTCCGA
* ** * * * * *
447910 GGGGATACTCCAACCTCGGCTTTATTCCCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACTAATTTTTCACAATC
* * *
447961 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACTAATTTTTCACAATC
* ** * * **
448012 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTCCCAAAACACTAATTTTTC-ACAATC
* * * * *
448064 GGGGATACTCCAACTCTGATTTTATTTCCAAAAACAATAATTTTTCACAACC
1 GGGGATACTCCAACCCCGATTTTA-TTCCCAAAACACTAATTTTTCACAATC
448116 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
448134 TTATTTTTAA
Statistics
Matches: 140, Mismatches: 31, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
51 81 0.58
52 44 0.31
53 15 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTCCCAAAACACTAATTTTTCACAATC
Found at i:448085 original size:52 final size:50
Alignment explanation
Indices: 447949--448130 Score: 186
Period size: 52 Copynumber: 3.5 Consensus size: 50
447939 AAAATATTGA
* * *
447949 TTTCTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAAT
1 TTTC-CATAATCGGGGATACTCCAA-CCTGATTTTATTTTC-AAAACACCAAT
* *
448001 TTTTCACAATCGGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCT-GATTTTATTTTCAAAACACCAAT
* * **
448052 TTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAATAAT
1 TTTCC-ATAATCGGGGATACTCCAAC-CTGATTTTATTTTC-AAAACACCAAT
* * *
448105 TTTTCACAACCGGGGATACTCCAACC
1 TTTCCATAATCGGGGATACTCCAACC
448131 CCGTTATTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.02
51 40 0.36
52 53 0.48
53 15 0.14
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (50 bp):
TTTCCATAATCGGGGATACTCCAACCTGATTTTATTTTCAAAACACCAAT
Found at i:461704 original size:100 final size:101
Alignment explanation
Indices: 461537--461726 Score: 321
Period size: 100 Copynumber: 1.9 Consensus size: 101
461527 CTTTCCGCTT
* *
461537 TTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCA
1 TTTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCA
461602 GTCCTCAAAGAGCAGGACG-CTTTCTCCTTTCGCCC
66 GTCCTCAAAGAGCAGGACGCCTTTCTCCTTTCGCCC
* *
461637 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TC
1 TTTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCC
461701 AGTCCTCAAAGAGCAGGACGCCTTTC
65 AGTCCTCAAAGAGCAGGACGCCTTTC
461727 AAAGCCCACA
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
100 76 0.90
101 8 0.10
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (101 bp):
TTTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCA
GTCCTCAAAGAGCAGGACGCCTTTCTCCTTTCGCCC
Found at i:461750 original size:55 final size:55
Alignment explanation
Indices: 461640--462291 Score: 745
Period size: 55 Copynumber: 11.3 Consensus size: 55
461630 TTCGCCCTTT
461640 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTTTC
* *
461701 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
461756 AATCCTCAAAGAG-AGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
461816 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAATTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * *
461871 AGTCCTCAAAGCGCAGGACACCTTCTCCTTTCAAAGCCCACAAAAGTCGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
461932 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
461987 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
462047 TCGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
462109 AGTCCCCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-C
* ** *
462164 AGTCCTCAAAGAGTAGGACATCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
462219 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
*
462274 AATCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
462292 TGCACTTTAT
Statistics
Matches: 516, Mismatches: 44, Indels: 68
0.82 0.07 0.11
Matches are distributed among these distances:
54 8 0.02
55 275 0.53
56 7 0.01
57 2 0.00
59 4 0.01
60 52 0.10
61 164 0.32
62 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:461966 original size:116 final size:116
Alignment explanation
Indices: 461635--462291 Score: 934
Period size: 116 Copynumber: 5.7 Consensus size: 116
461625 CTCCTTTCGC
* *
461635 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
461699 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
461750 CCTTCCAATCCTCAAAGAG-AGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* *
461814 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATAAATTGGTGGCA
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
461865 CCTTTCAGTCCTCAAAGCGCAGGACACCTTCTCCTTTCAAAGCCCACAAAAGTCGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
461930 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
461981 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* *
462045 TCTCGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
66 TC-AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
462103 CCTTTCAGTCCCCAAAGAGTAGGACA------CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* **
462161 TCCAGTCCTCAAAGAGTAGGACATCTCTT-AAAGCCCACACAAGTTGGTGGCA
66 T-CAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
462213 CCTTTCAGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* *
462272 TTAATCCTCAAAGAGCAGGA
66 TCAGTCCTCAAAGAGCAGGA
462292 TGCACTTTAT
Statistics
Matches: 497, Mismatches: 31, Indels: 33
0.89 0.06 0.06
Matches are distributed among these distances:
108 1 0.00
110 89 0.18
111 7 0.01
115 117 0.24
116 230 0.46
117 1 0.00
121 1 0.00
122 51 0.10
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (116 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:463175 original size:21 final size:21
Alignment explanation
Indices: 463151--463191 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
463141 AGCTACAGCC
463151 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
463172 AAGGAAATGTATCGATACAT
1 AAGGAAATGTATCGATACAT
463192 CGATCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:463217 original size:13 final size:13
Alignment explanation
Indices: 463199--463223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
463189 CATCGATCTT
463199 TGTATCGATACAA
1 TGTATCGATACAA
463212 TGTATCGATACA
1 TGTATCGATACA
463224 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:463238 original size:32 final size:33
Alignment explanation
Indices: 463177--463250 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
463167 ACATTAAGGA
* *
463177 AATGTATCGATACATCGATCTTTGTATCGATAC
1 AATGTATCGATACATAGATCTTTGTATCGAGAC
463210 AATGTATCGATACATA-AGT-TTTGTATCGAGAC
1 AATGTATCGATACATAGA-TCTTTGTATCGAGAC
463242 AATGTATCG
1 AATGTATCG
463251 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 22 0.58
33 16 0.42
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
AATGTATCGATACATAGATCTTTGTATCGAGAC
Found at i:463293 original size:21 final size:21
Alignment explanation
Indices: 463267--463307 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
463257 AGCTACTGCC
463267 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
463288 AAGGAAATGTATCGATACAT
1 AAGGAAATGTATCGATACAT
463308 CGATCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:465712 original size:52 final size:53
Alignment explanation
Indices: 465653--466040 Score: 180
Period size: 52 Copynumber: 7.4 Consensus size: 53
465643 CCCAATTGTT
*
465653 CATAATCGGGGATACTCCAACCT-CGATTTTATTTTCAAAA-CACAAATTTTC
1 CATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* * * * *
465704 CTTTAATCGGGAATACTCCGA-CTCCGATTTTATTTCCAAAATCACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* * * * * * * **
465757 CACAATCGAGGATACTCCAACC-ACG---TTATTTCATCGGAGATACTCCAA--CCC
1 CATAATCGGGGATACTCCAACCTCCGATTTTATTTC--C-AAAAT-CACAAATTTTC
* * * ** * ***
465808 CGTTACCTCCGAGTGGATACTCCCACC-CCGGCTTTATTCCCAAAAT-ATTGA-TTTC
1 C-ATA-AT-CG-G-GGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* * * *
465863 TCATAATTGGGGATACTCCAACC-CCGGTTTTATTTCTAAAA-CACTAATTTTC
1 -CATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* * * * * *
465915 CACAATCGAGGATACTCTAACC-CCGGTTTTATTTTCAAAA-CACCAATTTTC
1 CATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* * * * *
465966 CTTTAATCGGGGATGCTCCAA-CTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
* *
466019 CACAACCGGGGATACTCCAACC
1 CATAATCGGGGATACTCCAACC
466041 CCGTTATTTT
Statistics
Matches: 252, Mismatches: 61, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
49 7 0.03
51 81 0.32
52 102 0.40
53 30 0.12
54 4 0.02
55 3 0.01
56 18 0.07
57 1 0.00
59 6 0.02
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (53 bp):
CATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAAATCACAAATTTTC
Found at i:465928 original size:51 final size:51
Alignment explanation
Indices: 465871--466043 Score: 213
Period size: 52 Copynumber: 3.4 Consensus size: 51
465861 TCTCATAATT
*
465871 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATC
* * **
465922 GAGGATACTCTAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCC-ACAATC
* * * * * *
465974 GGGGATGCTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACC
1 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACCAATTTTCCACAATC
466026 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
466044 TTATTTTCAA
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
50 1 0.01
51 40 0.40
52 45 0.45
53 15 0.15
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATC
Found at i:466033 original size:104 final size:100
Alignment explanation
Indices: 465866--466054 Score: 252
Period size: 104 Copynumber: 1.9 Consensus size: 100
465856 TGATTTCTCA
* * * * *
465866 TAATTGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGAGGATACT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTCCACAACCGAGGATACT
*
465931 CTAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTT
66 CCAACCCC-G--TTATTTTCAAAACACCAATTTTCCTT
* * * *
465969 TAATCGGGGATGCTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGGGGATAC
1 TAATCGGGGATACTCCAACCCCGATTTTATTT-CAAAAACACCAATTTTCCACAACCGAGGATAC
466034 TCCAACCCCGTTATTTTCAAA
65 TCCAACCCCGTTATTTTCAAA
466055 GGGATACTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
101 11 0.15
103 29 0.39
104 35 0.47
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (100 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTTTCCACAACCGAGGATACT
CCAACCCCGTTATTTTCAAAACACCAATTTTCCTT
Found at i:468591 original size:20 final size:20
Alignment explanation
Indices: 468541--468597 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
468531 AGGTAAACCC
* *
468541 AGAATGTATCAATAAAATGA
1 AGAATGTATCGATACAATGA
468561 AGAATGTATCGATACAATGA
1 AGAATGTATCGATACAATGA
*
468581 ATAATGTATCGATACAA
1 AGAATGTATCGATACAA
468598 ATAGTAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (20 bp):
AGAATGTATCGATACAATGA
Found at i:471504 original size:155 final size:155
Alignment explanation
Indices: 471301--472318 Score: 1040
Period size: 155 Copynumber: 6.6 Consensus size: 155
471291 CTGGCGGGTT
* * * * * *
471301 ACCTAGGACTC-AGTTTTGTAAGAAAATTACGAAAATGCTTTTAGGGGATACCTTCGACATAAAA
1 ACCTAGGACTCGA-TTCTG-AA-AAAATTACGAAAATGCCTCTAAGGGATACCTTTGACGTAAAA
* * * * * * *
471365 TTACCCGATACCCCTAAAGGACTTCAAAAGGTTTGAA-AACG-GATGAACCTATCCTAATTGTCC
63 GTACCCGATACCCCTAAAGGACTTAAAAAGG-AT-AATAATGAGATGAACCTATCCTAAATATCT
*
471428 ACCTTTGGCATAAAAGCGAACCCAGTGGCA
126 ACCTTTGGCATAAAAGCGAACCCAGTGACA
* *
471458 ACCTAGGACTCGGTTCTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTCGACGTAAAAGTA
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTTGACGTAAAAGTA
*
471523 CCCGATACCCCTAAAGGACTTAAAAAGGATAATAGATGAGATGAACCTATCCTAATTATCTACCT
66 CCCGATACCCCTAAAGGACTTAAAAAGGATAATA-ATGAGATGAACCTATCCTAAATATCTACCT
* * *
471588 TTGGCATAAAAGC-ACACTCGGTAACA
130 TTGGCATAAAAGCGA-ACCCAGTGACA
* * * * * *
471614 ACCTAGGACTTGATTTTG-AAAAATTATGAAAAT-ACTCCT-AGAGGATATCTTTGACATAAAAG
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCT-CTAAG-GGATACCTTTGACGTAAAAG
* * **
471676 TACCTGATACCCCTAAAGGACTTAAAAAGGATGATAGATGAGATCTACCTATCCTAAATATCTAC
64 TACCCGATACCCCTAAAGGACTTAAAAAGGATAATA-ATGAGATGAACCTATCCTAAATATCTAC
* * * ** *
471741 CTTTGGCATAAAAGTGGATCGGGTGAAA
128 CTTTGGCATAAAAGCGAACCCAGTGACA
* * * *
471769 ACCTAGGACTCGATTAT-AAAAAATTACAAAAAAGCCCCTAAGGGATACCTTTGACGTAAAAGTA
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTTGACGTAAAAGTA
* * * * *
471833 CCCAATACTCCTAAAAGACTTAAAAAGGATAATGGATGAGATGAACCTATCCTAAATATCGACCT
66 CCCGATACCCCTAAAGGACTTAAAAAGGATAAT-AATGAGATGAACCTATCCTAAATATCTACCT
* *
471898 TTGGCATAAAAGC-AGACCTAATGACA
130 TTGGCATAAAAGCGA-ACCCAGTGACA
* * *
471924 ACCTAGGACTCGATTCT-AAAAAATTACGAAAATACC-CTTAGGGGATACCTCTGACGTAAAAGT
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCTC-TAAGGGATACCTTTGACGTAAAAGT
** * * *
471987 ACTTGATACCCCTAAAGGACTTAAAAATGATACTAGATGAGATGAACCTATCCTAAATATCT-TC
65 ACCCGATACCCCTAAAGGACTTAAAAAGGATAATA-ATGAGATGAACCTATCCTAAATATCTACC
* * *
472051 TTTCAGCATAAAAGCGGACCTAGTGACA
129 TTT-GGCATAAAAGCGAACCCAGTGACA
* * * * * *
472079 ACCTTGAACTCGGTTCT-AAAAAATTATGAAAATGCCCCTAAGAGATACCTTTGACGTAAAAGTA
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTTGACGTAAAAGTA
* ** *
472143 CCCAATACCTTTAAAGGACTTAAAAATGATAATAGATGAGATGAACCTATCCTAAATATCTACCT
66 CCCGATACCCCTAAAGGACTTAAAAAGGATAATA-ATGAGATGAACCTATCCTAAATATCTACCT
* * *
472208 TCGGCATAAAAACGAACCCGGTGACA
130 TTGGCATAAAAGCGAACCCAGTGACA
* * * * * * * *
472234 ACTTAAGACTCGATTTTG-TAAAATTACTAAAATG-CTCCTAAAGGATACTTTTGACATAAAAGT
1 ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCT-CTAAGGGATACCTTTGACGTAAAAGT
* * *
472297 ACTCGATACCTCTAAAAGACTT
65 ACCCGATACCCCTAAAGGACTT
472319 GGGATAATGC
Statistics
Matches: 721, Mismatches: 119, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
153 2 0.00
154 12 0.02
155 624 0.87
156 68 0.09
157 15 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (155 bp):
ACCTAGGACTCGATTCTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTTGACGTAAAAGTA
CCCGATACCCCTAAAGGACTTAAAAAGGATAATAATGAGATGAACCTATCCTAAATATCTACCTT
TGGCATAAAAGCGAACCCAGTGACA
Found at i:471885 original size:310 final size:307
Alignment explanation
Indices: 471301--472318 Score: 1213
Period size: 310 Copynumber: 3.3 Consensus size: 307
471291 CTGGCGGGTT
* ** * *
471301 ACCTAGGACTC-AGTTTTGTAAGAAAATTACGAAAATGCTTTTAGGGGATACCTTCGACATAAAA
1 ACCTAGGACTCGA-TTTTG--A-AAAATTACGAAAATACTCCTAGAGGATACCTTTGACATAAAA
* * * * * * * * *
471365 TTACCCGATACCCCTAAAGGACTTCAAAAGGTTTGA-AAACG-GATGAACCTATCCTAATTGTCC
62 GTACCTGATACCCCTAAAGGACTTAAAAAGG-ATGATAGATGAGATGAACCTATCCTAAATATCT
* *
471428 ACCTTTGGCATAAAAGCGAACCCAGTGGCAACCTAGGACTCGGTTCTGAAAAAATTACGAAAATG
126 ACCTTTGGCATAAAAGCGGACCCAGTGACAACCTAGGACTCGGTTCT-AAAAAATTACGAAAATG
* * *
471493 CCTCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGGATAATAG
190 CCCCTAAGGGATACCTTTGACGTAAAAGTACCCAATA-CCCTAAAGGACTTAAAAAGGATAATAG
* *
471558 ATGAGATGAACCTATCCTAATTATCTACCTTTGGCATAAAAGCACACTCGGTAACA
254 ATGAGATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCA-AC-CGGTGACA
* * *
471614 ACCTAGGACTTGATTTTGAAAAATTATGAAAATACTCCTAGAGGATATCTTTGACATAAAAGTAC
1 ACCTAGGACTCGATTTTGAAAAATTACGAAAATACTCCTAGAGGATACCTTTGACATAAAAGTAC
**
471679 CTGATACCCCTAAAGGACTTAAAAAGGATGATAGATGAGATCTACCTATCCTAAATATCTACCTT
66 CTGATACCCCTAAAGGACTTAAAAAGGATGATAGATGAGATGAACCTATCCTAAATATCTACCTT
* * ** * * * * *
471744 TGGCATAAAAGTGGATCGGGTGAAAACCTAGGACTCGATTATAAAAAATTACAAAAAAGCCCCTA
131 TGGCATAAAAGCGGACCCAGTGACAACCTAGGACTCGGTTCTAAAAAATTACGAAAATGCCCCTA
* *
471809 AGGGATACCTTTGACGTAAAAGTACCCAATACTCCTAAAAGACTTAAAAAGGATAATGGATGAGA
196 AGGGATACCTTTGACGTAAAAGTACCCAATAC-CCTAAAGGACTTAAAAAGGATAATAGATGAGA
* **
471874 TGAACCTATCCTAAATATCGACCTTTGGCATAAAAGCAGACCTAATGACA
260 TGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCA-ACC-GGTGACA
* * * * *
471924 ACCTAGGACTCGATTCTAAAAAATTACGAAAATAC-CCTTAGGGGATACCTCTGACGTAAAAGTA
1 ACCTAGGACTCGATTTTGAAAAATTACGAAAATACTCC-TAGAGGATACCTTTGACATAAAAGTA
* * *
471988 CTTGATACCCCTAAAGGACTTAAAAATGAT-ACTAGATGAGATGAACCTATCCTAAATATCT-TC
65 CCTGATACCCCTAAAGGACTTAAAAAGGATGA-TAGATGAGATGAACCTATCCTAAATATCTACC
* * * * *
472051 TTTCAGCATAAAAGCGGACCTAGTGACAACCTTGAACTCGGTTCTAAAAAATTATGAAAATGCCC
129 TTT-GGCATAAAAGCGGACCCAGTGACAACCTAGGACTCGGTTCTAAAAAATTACGAAAATGCCC
* * *
472116 CTAAGAGATACCTTTGACGTAAAAGTACCCAATACCTTTAAAGGACTTAAAAATGATAATAGATG
193 CTAAGGGATACCTTTGACGTAAAAGTACCCAATACC-CTAAAGGACTTAAAAAGGATAATAGATG
* *
472181 AGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAACGAACCCGGTGACA
257 AGATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGC-AA-CCGGTGACA
* * * * * * *
472234 ACTTAAGACTCGATTTTGTAAAATTACTAAAATGCTCCTAAAGGATACTTTTGACATAAAAGTA-
1 ACCTAGGACTCGATTTTGAAAAATTACGAAAATACTCCTAGAGGATACCTTTGACATAAAAGTAC
* *
472298 CTCGATACCTCTAAAAGACTT
66 CT-GATACCCCTAAAGGACTT
472319 GGGATAATGC
Statistics
Matches: 600, Mismatches: 92, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
309 14 0.02
310 509 0.85
311 61 0.10
313 15 0.03
314 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (307 bp):
ACCTAGGACTCGATTTTGAAAAATTACGAAAATACTCCTAGAGGATACCTTTGACATAAAAGTAC
CTGATACCCCTAAAGGACTTAAAAAGGATGATAGATGAGATGAACCTATCCTAAATATCTACCTT
TGGCATAAAAGCGGACCCAGTGACAACCTAGGACTCGGTTCTAAAAAATTACGAAAATGCCCCTA
AGGGATACCTTTGACGTAAAAGTACCCAATACCCTAAAGGACTTAAAAAGGATAATAGATGAGAT
GAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAACCGGTGACA
Found at i:472194 original size:465 final size:466
Alignment explanation
Indices: 471346--472318 Score: 1187
Period size: 465 Copynumber: 2.1 Consensus size: 466
471336 TGCTTTTAGG
* * * * * * * **
471346 GGATACCTTCGACATAAAATTACCCGATACCCCTAAAGGACTTCAAAAGG-T--TTGAAAACGGA
1 GGATACCTTTGACATAAAAGTACCCAATACCTCTAAAAGACTTAAAAAGGATAATGGATGA--GA
* * * * *
471408 TGAACCTATCCTAATTGTCCACCTTTGGCATAAAAGCGAACCCAGTGGCAACCTAGGACTCGGTT
64 TGAACCTATCCTAAATATCCACCTTTGGCATAAAAGCGAACCCAATGACAACCTAGGACTCGATT
*
471473 CTGAAAAAATTACGAAAATGCCTCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAA
129 CTGAAAAAATTACGAAAATCCCTCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAA
* *
471538 GGACTTAAAAAGGATAATAGATGAGATGAACCTATCCTAATTATCTACCTTTGGCATAAAAGCAC
194 GGACTTAAAAAGGATAATAGATGAGATGAACCTATCCTAAATATCTACCTTTAGCATAAAAGCAC
* * * * * * *
471603 ACTCGGTAACAACCTAGGACTTGATTTTGAAAAATTATGAAAATACTCCTAGAGGATATCTTTGA
259 ACTCAGTAACAACCTAGAACTCGATTCTAAAAAATTATGAAAATACCCCTAGAGGATACCTTTGA
** * *
471668 CATAAAAGTACCTGATACCCCTAAAGGACTTAAAAAGGATGATAGATGAGATCTACCTATCCTAA
324 CATAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGGATAATAGATGAGATCAACCTATCCTAA
* ** * * * *
471733 ATATCTACCTTTGGCATAAAAGTGGATCGGGTGAAAACCTAGGACTCGATTATAAAAAATTACAA
389 ATATCTACCTTCGGCATAAAAACGAACCCGGTGAAAACCTAAGACTCGATTATAAAAAATTACAA
*
471798 AAAAGCCCCTAAG
454 AAAAGCCCCTAAA
*
471811 GGATACCTTTGACGTAAAAGTACCCAATA-CTCCTAAAAGACTTAAAAAGGATAATGGATGAGAT
1 GGATACCTTTGACATAAAAGTACCCAATACCT-CTAAAAGACTTAAAAAGGATAATGGATGAGAT
* *
471875 GAACCTATCCTAAATATCGACCTTTGGCATAAAAGC-AGACCTAATGACAACCTAGGACTCGATT
65 GAACCTATCCTAAATATCCACCTTTGGCATAAAAGCGA-ACCCAATGACAACCTAGGACTCGATT
* **
471939 CT-AAAAAATTACGAAAATACCCT-TAGGGGATACC-TCTGACGTAAAAGTACTTGATACCCCTA
129 CTGAAAAAATTACGAAAAT-CCCTCTAAGGGATACCTTC-GACGTAAAAGTACCCGATACCCCTA
* * *
472001 AAGGACTTAAAAATGATACTAGATGAGATGAACCTATCCTAAATATCT-TCTTTCAGCATAAAAG
192 AAGGACTTAAAAAGGATAATAGATGAGATGAACCTATCCTAAATATCTACCTTT-AGCATAAAAG
* * * *
472065 CGGAC-CT-AGTGACAACCTTGAACTCGGTTCTAAAAAATTATGAAAATGCCCCTA-AGAGATAC
256 C--ACACTCAGTAACAACCTAGAACTCGATTCTAAAAAATTATGAAAATACCCCTAGAG-GATAC
* ** * *
472127 CTTTGACGTAAAAGTACCCAATACCTTTAAAGGACTTAAAAATGATAATAGATGAGATGAACCTA
318 CTTTGACATAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGGATAATAGATGAGATCAACCTA
* * * **
472192 TCCTAAATATCTACCTTCGGCATAAAAACGAACCCGGTGACAACTTAAGACTCGATTTTGTAAAA
383 TCCTAAATATCTACCTTCGGCATAAAAACGAACCCGGTGAAAACCTAAGACTCGATTATAAAAAA
* * *
472257 TTACTAAAATGCTCCTAAA
448 TTACAAAAAAGCCCCTAAA
* * *
472276 GGATACTTTTGACATAAAAGTACTCGATACCTCTAAAAGACTT
1 GGATACCTTTGACATAAAAGTACCCAATACCTCTAAAAGACTT
472319 GGGATAATGC
Statistics
Matches: 430, Mismatches: 66, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
464 9 0.02
465 347 0.81
466 68 0.16
467 2 0.00
468 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (466 bp):
GGATACCTTTGACATAAAAGTACCCAATACCTCTAAAAGACTTAAAAAGGATAATGGATGAGATG
AACCTATCCTAAATATCCACCTTTGGCATAAAAGCGAACCCAATGACAACCTAGGACTCGATTCT
GAAAAAATTACGAAAATCCCTCTAAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGG
ACTTAAAAAGGATAATAGATGAGATGAACCTATCCTAAATATCTACCTTTAGCATAAAAGCACAC
TCAGTAACAACCTAGAACTCGATTCTAAAAAATTATGAAAATACCCCTAGAGGATACCTTTGACA
TAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGGATAATAGATGAGATCAACCTATCCTAAAT
ATCTACCTTCGGCATAAAAACGAACCCGGTGAAAACCTAAGACTCGATTATAAAAAATTACAAAA
AAGCCCCTAAA
Found at i:472769 original size:10 final size:10
Alignment explanation
Indices: 472754--472785 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
472744 GAAAATGTTA
472754 ATTTAATTTT
1 ATTTAATTTT
472764 ATTTAATTTT
1 ATTTAATTTT
472774 ATTTATATTTT
1 ATTTA-ATTTT
472785 A
1 A
472786 AAAATACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTAATTTT
Found at i:472769 original size:15 final size:16
Alignment explanation
Indices: 472751--472783 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
472741 TACGAAAATG
472751 TTAATTTAATTT-TAT
1 TTAATTTAATTTATAT
*
472766 TTAATTTTATTTATAT
1 TTAATTTAATTTATAT
472782 TT
1 TT
472784 TAAAAATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAATTTAATTTATAT
Found at i:473824 original size:6 final size:6
Alignment explanation
Indices: 473813--473843 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
473803 TTTTCTCACC
473813 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
473844 CTCTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTCTT
Found at i:474623 original size:166 final size:162
Alignment explanation
Indices: 474449--475087 Score: 701
Period size: 166 Copynumber: 3.9 Consensus size: 162
474439 TAGACCAAAG
* * * *
474449 AAAATCCCC-CGAAAATATTCATGGAGTAGAAAAC-TCAGTTTTTCAAGAAAATGAGGAATTTCA
1 AAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACTTC-GTATTTCAA-AAAATGA-GAATTTCA
** * * *
474512 AAGAAAAATTCAAAAATGAATGAAAATGAATGAATTTTTGAAAATTTATTTAATATGAAATAAAT
63 AAGAAAAATTC-AAAATTTATGAAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAAT
* *
474577 AACAATATTTAGTGGATTTTAAAAATCAAAAACTAAGA
127 AATAATATTTAGTGAATTTTAAAAAT-AAAAAC-AAGA
* * * *
474615 AAAATCCCCTCAAAAAAATTTACGGAGTAGAAAACTCCGTATTTTGAAAAAA-GGGAAATTTC-A
1 AAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACTTCGTA-TTTCAAAAAATGAG-AATTTCAA
* *
474678 AGTAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAAT
64 AG--AAAAATTCAAAATTTATGAAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAAT
* *
474743 AATAATATTT-GATGAATTTT-CAAATTAAAA-AA-A
127 AATAATATTTAG-TGAATTTTAAAAATAAAAACAAGA
** * *
474776 AATTTCCCC-CGAAAAAATTTACGAAGTAGAAAACTTCGTATTTCGAAAAAATGAGCATTTCAAA
1 AAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACTTCGTATTTC-AAAAAATGAGAATTTCAAA
*
474840 GAAAAATTCAAAATTTATGAAAATGAATTAATTTTTAAAAACTGGA-TTAATATGAAATAAATAA
65 GAAAAATTCAAAATTTATGAAAATGAATGAATTTTTAAAAACT-GATTTAATATGAAATAAATAA
* *
474904 TAATATTTAATAAATTTTAAAAATAAAAAAACAAGA
129 TAATATTTAGTGAATTTTAAAAAT--AAAAACAAGA
* *
474940 AAAATCCCCTTGAAAAAATTTATGGAGTAGAAAACTTCGTATTTCAAGAAAAAAT-AGAATTTCA
1 AAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACTTCGTATTTC---AAAAAATGAGAATTTCA
* * * * *
475004 AA-AAAAATTCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAAATAAAT
63 AAGAAAAATTC-AAAATTTATGAAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAAT
*
475068 GATAATATTT-GATGAATTTT
127 AATAATATTTAG-TGAATTTT
475088 GATGTTTGAA
Statistics
Matches: 404, Mismatches: 46, Indels: 46
0.81 0.09 0.09
Matches are distributed among these distances:
159 76 0.19
160 45 0.11
161 13 0.03
162 6 0.01
163 2 0.00
164 12 0.03
165 50 0.12
166 151 0.37
167 43 0.11
168 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (162 bp):
AAAATCCCCTCGAAAAAATTTACGGAGTAGAAAACTTCGTATTTCAAAAAATGAGAATTTCAAAG
AAAAATTCAAAATTTATGAAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAATAATA
ATATTTAGTGAATTTTAAAAATAAAAACAAGA
Found at i:475058 original size:325 final size:326
Alignment explanation
Indices: 474453--475087 Score: 856
Period size: 325 Copynumber: 1.9 Consensus size: 326
474443 CCAAAGAAAA
* * * *
474453 TCCCCCGAAAATATTCATGGAGTAGAAAACTCAGTTTTTCAAGAAAATGAGGAATTTCAAAGAAA
1 TCCCCCGAAAAAATTCACGAAGTAGAAAACTCAGTATTTCAAGAAAATGAGGAATTTCAAAGAAA
* **
474518 AATTCAAAAATGAATGAAAATGAATGAATTTTTGAAAATTTATTTAATATGAAATAAATAACAAT
66 AATTCAAAAATGAATGAAAATGAATGAATTTTTAAAAATGGATTTAATATGAAATAAATAACAAT
* ** *
474583 ATTTAGTGGATTTTAAAAATCAAAAACTAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAA
131 ATTTAATAAATTTTAAAAATAAAAAACTAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAA
* * * * *
474648 ACTCCGTATTTTGAAAAAAGGGAAATTTCAAGTAAAAAATTCAAAATTTATGGAAATGAATGAAT
196 ACTCCGTATTTAGAAAAAAGAGAAATTTCAAG-AAAAAATTCAAAACTCATGAAAATGAATGAAT
474713 TTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTCAAATTAAAAAAAAA
260 TTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTCAAATTAAAAAAAAA
474778 TT
325 TT
* *
474780 TCCCCCGAAAAAATTTACGAAGTAGAAAACTTC-GTATTTCGAA-AAAATGA-GCATTTCAAAGA
1 TCCCCCGAAAAAATTCACGAAGTAGAAAAC-TCAGTATTTC-AAGAAAATGAGGAATTTCAAAGA
** * *
474842 AAAATTC-AAAATTTATGAAAATGAATTAATTTTTAAAAACTGGA-TTAATATGAAATAAATAAT
64 AAAATTCAAAAATGAATGAAAATGAATGAATTTTTAAAAA-TGGATTTAATATGAAATAAATAAC
** *
474905 AATATTTAATAAATTTTAAAAATAAAAAAAC-AAGAAAAATCCCCTTGAAAAAATTTATGGAGTA
128 AATATTTAATAAATTTTAAAAAT-AAAAAACTAAGAAAAATCCCCTCAAAAAAATTTACGGAGTA
* *
474969 GAAAACTTCGTATTTCAAGAAAAAATAG-AATTTCAA-AAAAAATTCAAAAACTCATGAAAATGA
192 GAAAACTCCGTATTT--AGAAAAAAGAGAAATTTCAAGAAAAAATTC-AAAACTCATGAAAATGA
* * *
475032 ATTAATTTTTGAAAACT-AATTTAATATGAAATAAATGATAATATTTGATGAATTTT
254 ATGAATTTTTAAAAACTGAA-TTAATATGAAATAAATAATAATATTTGATGAATTTT
475088 GATGTTTGAA
Statistics
Matches: 270, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
324 11 0.04
325 174 0.64
326 34 0.13
327 47 0.17
328 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (326 bp):
TCCCCCGAAAAAATTCACGAAGTAGAAAACTCAGTATTTCAAGAAAATGAGGAATTTCAAAGAAA
AATTCAAAAATGAATGAAAATGAATGAATTTTTAAAAATGGATTTAATATGAAATAAATAACAAT
ATTTAATAAATTTTAAAAATAAAAAACTAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAA
ACTCCGTATTTAGAAAAAAGAGAAATTTCAAGAAAAAATTCAAAACTCATGAAAATGAATGAATT
TTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTCAAATTAAAAAAAAAT
T
Found at i:476158 original size:17 final size:17
Alignment explanation
Indices: 476136--476168 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
476126 TTATCCAACC
476136 TAAAATAAAGATATCCT
1 TAAAATAAAGATATCCT
476153 TAAAATAAAGATATCC
1 TAAAATAAAGATATCC
476169 CTATTTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (17 bp):
TAAAATAAAGATATCCT
Found at i:478309 original size:15 final size:16
Alignment explanation
Indices: 478289--478328 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
478279 AAATAATGCT
*
478289 TTTATTAAGGAGGAG-
1 TTTATTAAGGAAGAGC
478304 TTTATTAAGGAAGAGC
1 TTTATTAAGGAAGAGC
478320 TTTTATTAA
1 -TTTATTAA
478329 AAATCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
17 8 0.36
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (16 bp):
TTTATTAAGGAAGAGC
Found at i:479375 original size:13 final size:13
Alignment explanation
Indices: 479357--479382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
479347 AATTTTTTTG
479357 TGTATCGATACAT
1 TGTATCGATACAT
479370 TGTATCGATACAT
1 TGTATCGATACAT
479383 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:479447 original size:21 final size:21
Alignment explanation
Indices: 479421--479496 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
479411 CTGCCAAGAA
479421 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
479442 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
479462 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
479483 ATGTATCGATACAT
1 ATGTATCGATACAT
479497 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:479466 original size:20 final size:20
Alignment explanation
Indices: 479441--479514 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
479431 ACATCTTTTT
479441 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
479461 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
479482 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
479502 CATGTATCGATAC
1 CATGTATCGATAC
479515 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Done.