Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 1 of 16
Found at i:3173 original size:11 final size:11
Alignment explanation
Indices: 3149--3200 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
3139 TTTGCCTCAA
3149 TTTTTCT-T-T
1 TTTTTCTCTCT
3158 TTTTTCTCTCT
1 TTTTTCTCTCT
*
3169 TTTTTCTTTCTT
1 TTTTTCTCTC-T
*
3181 TTTTTCTCTCC
1 TTTTTCTCTCT
3192 TTTTTCTCT
1 TTTTTCTCT
3201 ATTTGCCCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 19 0.51
12 10 0.27
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTCTCT
Found at i:3186 original size:23 final size:24
Alignment explanation
Indices: 3151--3198 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
3141 TGCCTCAATT
*
3151 TTTCTTTTTTTTCTCTCTTTTTTC
1 TTTCTTTTTTTTCTCTCCTTTTTC
3175 TTTC-TTTTTTTCTCTCCTTTTTC
1 TTTCTTTTTTTTCTCTCCTTTTTC
3198 T
1 T
3199 CTATTTGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTCTTTTTTTTCTCTCCTTTTTC
Found at i:9763 original size:66 final size:67
Alignment explanation
Indices: 9651--9828 Score: 225
Period size: 66 Copynumber: 2.7 Consensus size: 67
9641 GTGGGCTTTA
* * * *
9651 AGGTAGGCATCTA-ACTTTCCATGGACTAAGGTGGATAGGTGCCACATGTTTATGTGGGCTTGAA
1 AGGTAGGCATCCAGA-TTTTCATGGACTAAGGTGGATAGGTGTCACATGCTTATGTGGGCTTGAA
9715 GGC
65 GGC
*
9718 AGGTAGGCATCCAGATTTTCATGG-CTAAGGAGGATAGGTGTCACATGCTTATGTGGGCTTGAAG
1 AGGTAGGCATCCAGATTTTCATGGACTAAGGTGGATAGGTGTCACATGCTTATGTGGGCTTGAAG
*
9782 GT
66 GC
* ** * * *
9784 AGGTAAGTGTCCAGCTTTTCATGGACTGAGGTGGATAAGTGTCAC
1 AGGTAGGCATCCAGATTTTCATGGACTAAGGTGGATAGGTGTCAC
9829 CAACTTGTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
66 58 0.60
67 37 0.39
68 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (67 bp):
AGGTAGGCATCCAGATTTTCATGGACTAAGGTGGATAGGTGTCACATGCTTATGTGGGCTTGAAG
GC
Found at i:10165 original size:73 final size:72
Alignment explanation
Indices: 9865--10173 Score: 277
Period size: 73 Copynumber: 4.3 Consensus size: 72
9855 GAAAGTGTCC
* * * *
9865 TGCTCTTTAAGGACTAGAGGTAGATAGGTGCCACTAGCTTATGAAGGCTTTGTGGTAGGTAAGAA
1 TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTAGCTTGTG-TGGCTTTGTGGTAGGTAAAAA
*
9930 AAATGTCT
65 AAATATCT
* * * * *
9938 TACTCTTTGAAGACTAGAGGTAGATAGGTGCCACCAGCTTGTGTGGACTTTGTTGTAGATTAAAA
1 TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTAGCTTGTGTGG-CTTTGTGGTAG-GTAAAA
* *
10003 AAAGTATCC
64 AAAATATCT
** * * * ** * * *
10012 TATTATTTGAGGACTAGAAGTATATAAAT-TCACTAGCTTGTATGGGTTT-T-G-AGGTAAAAAA
1 TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTAGCTTGTGTGGCTTTGTGGTAGGTAAAAAA
*
10073 AAAAGTCT
66 AATA-TCT
** *
10081 TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTCCCTTGTGTAGGCTTTGTGGTAGGTAAGAA
1 TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTAGCTTGTGT-GGCTTTGTGGTAGGTAAAAA
**
10146 AAGCATCT
65 AAATATCT
10154 TGCT-TCTTGAGGACTAGAGG
1 TGCTCT-TTGAGGACTAGAGG
10174 AAAATGGGTT
Statistics
Matches: 185, Mismatches: 42, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
68 9 0.05
69 26 0.14
70 11 0.06
71 6 0.03
72 7 0.04
73 83 0.45
74 43 0.23
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (72 bp):
TGCTCTTTGAGGACTAGAGGTAGATAGGTGCCACTAGCTTGTGTGGCTTTGTGGTAGGTAAAAAA
AATATCT
Found at i:10490 original size:32 final size:33
Alignment explanation
Indices: 10438--10535 Score: 114
Period size: 36 Copynumber: 3.0 Consensus size: 33
10428 CCTTATAACA
*
10438 CTATC-TTTCAAGACTAAGATAGAAACCTC-C-
1 CTATCTTTTCAAGGCTAAGATAGAAACCTCTCT
*
10468 CTATCTTTTCACAGGCTAAGATAGAACCTCTCTCT
1 CTATCTTTTCA-AGGCTAAGATAGAAAC-CTCTCT
10503 CTATCTTTTTCAAAGGCTAAGATA-AAACCTCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAAACCTCTC
10536 AAGCACTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
30 5 0.09
31 5 0.09
32 14 0.24
33 3 0.05
34 6 0.10
35 8 0.14
36 16 0.28
37 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAGGCTAAGATAGAAACCTCTCT
Found at i:10945 original size:20 final size:20
Alignment explanation
Indices: 10922--10975 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
10912 ACTGACCATA
* *
10922 ATGTATCTATACAATTTACC
1 ATGTATCGATACAATTCACC
*
10942 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
10962 ATGTATCGATACAA
1 ATGTATCGATACAA
10976 AGTGAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:11062 original size:32 final size:33
Alignment explanation
Indices: 11021--11083 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
11011 TAAATTCAAT
11021 ATGTATCGATACCAAG-AACATGTATCGATAGA
1 ATGTATCGATACCAAGCAACATGTATCGATAGA
* *
11053 ATGTATCGATACTAAGCAATATGTATCGATA
1 ATGTATCGATACCAAGCAACATGTATCGATA
11084 CATTTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACCAAGCAACATGTATCGATAGA
Found at i:12881 original size:13 final size:13
Alignment explanation
Indices: 12863--12888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12853 ACATTAAAAT
12863 TGTATCGATATAA
1 TGTATCGATATAA
12876 TGTATCGATATAA
1 TGTATCGATATAA
12889 ATTTGATTGT
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:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:13149 original size:40 final size:40
Alignment explanation
Indices: 13090--13177 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
13080 TTCAAAAATT
13090 CATC-AAAAGTGTCATATGAACAAAATTTTGCATAAATGG
1 CATCGAAAAGTGTCATATGAACAAAATTTTGCATAAATGG
13129 CATCGAAAAGTGTCATATGAACAAAATTTTGCATAAATGG
1 CATCGAAAAGTGTCATATGAACAAAATTTTGCATAAATGG
*
13169 CATTGAAAA
1 CATCGAAAA
13178 TACTTTTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 4 0.09
40 43 0.91
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (40 bp):
CATCGAAAAGTGTCATATGAACAAAATTTTGCATAAATGG
Found at i:14447 original size:21 final size:21
Alignment explanation
Indices: 14409--14452 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14399 TCTTTTCTCC
*
14409 TCTAATTCATTGATTTTCTTT
1 TCTAATTCATTGAATTTCTTT
14430 TCTAATTCACTT-AATTTCTTT
1 TCTAATTCA-TTGAATTTCTTT
14451 TC
1 TC
14453 AAGAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.59
Consensus pattern (21 bp):
TCTAATTCATTGAATTTCTTT
Found at i:16051 original size:32 final size:32
Alignment explanation
Indices: 16006--16160 Score: 150
Period size: 32 Copynumber: 4.6 Consensus size: 32
15996 ACTATCTTTC
* *
16006 AAGGCTAAAATAGAAACCTCCATATCTTTTTA
1 AAGGCTAAGATAGAAACCTCCCTATCTTTTTA
** *
16038 CGGGCTAAGATAGAACCTCTCTCCCTATCTTTTTCA
1 AAGGCTAAGATAGAA--AC-CTCCCTATCTTTTT-A
*
16074 AAGGCTAAGATAGAAACCTCCCTATCTTTTCA
1 AAGGCTAAGATAGAAACCTCCCTATCTTTTTA
** *
16106 TGGGCTAAGATAGAACCTCTCTCCCTATCTTTTTTA
1 AAGGCTAAGATAGAA--AC-CTCCCTATC-TTTTTA
16142 AAGGCTAAGATA-AAACCTC
1 AAGGCTAAGATAGAAACCTC
16161 TCAATCACTT
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
32 29 0.29
33 14 0.14
34 3 0.03
35 24 0.24
36 29 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (32 bp):
AAGGCTAAGATAGAAACCTCCCTATCTTTTTA
Found at i:16084 original size:36 final size:36
Alignment explanation
Indices: 16023--16162 Score: 173
Period size: 36 Copynumber: 4.0 Consensus size: 36
16013 AAATAGAAAC
* **
16023 CTCCATATCTTTTT-ACGGGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
*
16058 CTCCCTATCTTTTTCAAAGGCTAAGATAGAA--AC-
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
**
16091 CTCCCTATC-TTTTCATGGGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
* *
16126 CTCCCTATCTTTTTTAAAGGCTAAGATAAAACCTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
16162 C
1 C
16163 AATCACTTGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
32 19 0.21
33 9 0.10
34 2 0.02
35 22 0.25
36 37 0.42
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
Found at i:16087 original size:68 final size:68
Alignment explanation
Indices: 16002--16160 Score: 259
Period size: 68 Copynumber: 2.4 Consensus size: 68
15992 CAACACTATC
* *
16002 TTTC-AAGGCTAAAATAGAAACCTCCATATCTTTTTACGGGCTAAGATAGAACCTCTCTCCCTAT
1 TTTCAAAGGCTAAGATAGAAACCTCCATATCTTTTCACGGGCTAAGATAGAACCTCTCTCCCTAT
16066 CTT
66 CTT
* *
16069 TTTCAAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGGGCTAAGATAGAACCTCTCTCCCTAT
1 TTTCAAAGGCTAAGATAGAAACCTCCATATCTTTTCACGGGCTAAGATAGAACCTCTCTCCCTAT
16134 CTT
66 CTT
*
16137 TTTTAAAGGCTAAGATA-AAACCTC
1 TTTCAAAGGCTAAGATAGAAACCTC
16161 TCAATCACTT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
67 11 0.13
68 75 0.87
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (68 bp):
TTTCAAAGGCTAAGATAGAAACCTCCATATCTTTTCACGGGCTAAGATAGAACCTCTCTCCCTAT
CTT
Found at i:25297 original size:13 final size:13
Alignment explanation
Indices: 25279--25304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25269 CAATTTTTTG
25279 TGTATCGATACAT
1 TGTATCGATACAT
25292 TGTATCGATACAT
1 TGTATCGATACAT
25305 ATTTTGTGTA
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:25315 original size:32 final size:33
Alignment explanation
Indices: 25259--25322 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
25249 TACAAGCCAA
*
25259 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
25292 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
25323 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:25316 original size:19 final size:19
Alignment explanation
Indices: 25259--25322 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
25249 TACAAGCCAA
*
25259 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
25279 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
25292 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
25311 TGTATCGATACA
1 TGTATCGATACA
25323 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:27776 original size:13 final size:13
Alignment explanation
Indices: 27758--27795 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
27748 ATAATCCCCC
27758 TGTATCGATACAG
1 TGTATCGATACAG
*
27771 TGTATCGATACAT
1 TGTATCGATACAG
*
27784 TTTATCGATACA
1 TGTATCGATACA
27796 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:29887 original size:15 final size:15
Alignment explanation
Indices: 29867--29897 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29857 ATTTTGTTTG
*
29867 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
29882 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
29897 G
1 G
29898 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:33417 original size:19 final size:19
Alignment explanation
Indices: 33378--33428 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
33368 TACAAGCCAA
* *
33378 TGTATCGATATAATTTTTTG
1 TGTATCGATA-CATATTTTG
33398 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
33417 TGTATCGATACA
1 TGTATCGATACA
33429 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:36529 original size:11 final size:11
Alignment explanation
Indices: 36505--36578 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
36495 TTACAATATT
36505 ATTATTATTT-A
1 ATTA-TATTTAA
36516 ATTATATTTAA
1 ATTATATTTAA
36527 ATTAT-TTTATA
1 ATTATATTTA-A
* *
36538 TTTAAATATT--
1 ATTATAT-TTAA
36548 ATTATTATTT-A
1 ATTA-TATTTAA
36559 ATTATATTTAA
1 ATTATATTTAA
36570 ATTAT-TTTA
1 ATTATATTTA
36579 TATTTAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
10 23 0.44
11 26 0.50
12 1 0.02
13 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTATATTTAA
Found at i:36536 original size:16 final size:16
Alignment explanation
Indices: 36517--36604 Score: 89
Period size: 16 Copynumber: 5.8 Consensus size: 16
36507 TATTATTTAA
36517 TTATATTTAAATTATT
1 TTATATTTAAATTATT
36533 TTATATTTAAA-TATT
1 TTATATTTAAATTATT
* * *
36548 AT-TA-TT-ATTTA-A
1 TTATATTTAAATTATT
36560 TTATATTTAAATTATT
1 TTATATTTAAATTATT
36576 TTATATTTAAA-TATT
1 TTATATTTAAATTATT
36591 ATTATTATTTAAAT
1 -TTA-TATTTAAAT
36605 ATTATTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
12 2 0.03
13 6 0.10
14 4 0.07
15 13 0.22
16 25 0.43
17 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTAAATTATT
Found at i:36547 original size:43 final size:43
Alignment explanation
Indices: 36494--36626 Score: 209
Period size: 43 Copynumber: 3.1 Consensus size: 43
36484 TGAAATGACT
36494 TTTACAATATTATTATTATTTAATTATATTTAAATTATTTTATA
1 TTTA-AATATTATTATTATTTAATTATATTTAAATTATTTTATA
36538 TTTAAATATTATTATTATTTAATTATATTTAAATTATTTTATA
1 TTTAAATATTATTATTATTTAATTATATTTAAATTATTTTATA
* *
36581 TTTAAATATTATTATTATTTAA--ATATTATTATTTATTTT-TA
1 TTTAAATATTATTATTATTTAATTATATT-TAAATTATTTTATA
36622 TTTAA
1 TTTAA
36627 TTTTAATTTA
Statistics
Matches: 86, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
41 12 0.14
42 9 0.10
43 61 0.71
44 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (43 bp):
TTTAAATATTATTATTATTTAATTATATTTAAATTATTTTATA
Found at i:36550 original size:27 final size:27
Alignment explanation
Indices: 36494--36606 Score: 74
Period size: 27 Copynumber: 4.0 Consensus size: 27
36484 TGAAATGACT
*
36494 TTTACAATATTATTATTATTTAATTATA
1 TTTA-AATATTATTATTATTTAAATATA
36522 TTTAAATTATT-TTA-TATTTAAATAT-
1 TTTAAA-TATTATTATTATTTAAATATA
*
36547 TATT-ATTATTTAATTA-TATTTAAATTATTTTATA
1 T-TTAAATA-TT-ATTATTATTT-AA--A---TATA
36581 TTTAAATATTATTATTATTTAAATAT
1 TTTAAATATTATTATTATTTAAATAT
36607 TATTATTTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 29
0.68 0.03 0.29
Matches are distributed among these distances:
24 2 0.03
25 4 0.06
26 12 0.18
27 16 0.24
28 10 0.15
30 2 0.03
32 6 0.09
33 12 0.18
34 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAAATATTATTATTATTTAAATATA
Found at i:36653 original size:19 final size:16
Alignment explanation
Indices: 36618--36676 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 16
36608 ATTATTTATT
*
36618 TTTATTTAATT-TTAA
1 TTTAATTAATTATTAA
36633 TTTAAGTTAAATATATTAA
1 TTTAA-TT-AAT-TATTAA
36652 TTT-ATTAATTATTAA
1 TTTAATTAATTATTAA
36667 TTTAA-TAATT
1 TTTAATTAATT
36677 TAGAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 18 0.47
16 6 0.16
17 5 0.13
18 2 0.05
19 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTAATTAATTATTAA
Found at i:36659 original size:8 final size:8
Alignment explanation
Indices: 36646--36678 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
36636 AAGTTAAATA
36646 TATTAATT
1 TATTAATT
36654 TATTAA-T
1 TATTAATT
36661 TATTAATT
1 TATTAATT
*
36669 TAATAATT
1 TATTAATT
36677 TA
1 TA
36679 GAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTAATT
Found at i:36665 original size:57 final size:57
Alignment explanation
Indices: 36545--36672 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
36535 ATATTTAAAT
* *
36545 ATTATTATTATTTAATTATATTTAAATTATTTTATATTTAAATATTATTATTATTTA
1 ATTATTATTATTTAATTATATTTAAATTAATTTATAGTTAAATATTATTATTATTTA
* * * *
36602 AATATTATTATTTATTTTTATTTAATTTTAATTTA-AGTTAAATA-TATTA--ATTT-
1 ATTATTATTATTTAATTATATTTAA-ATTAATTTATAGTTAAATATTATTATTATTTA
36655 ATTAATTATTAATTTAAT
1 ATT-ATTATT-ATTTAAT
36673 AATTTAGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
53 2 0.03
54 10 0.17
55 6 0.10
56 5 0.08
57 30 0.50
58 7 0.12
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (57 bp):
ATTATTATTATTTAATTATATTTAAATTAATTTATAGTTAAATATTATTATTATTTA
Found at i:36667 original size:40 final size:41
Alignment explanation
Indices: 36599--36678 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
36589 TTATTATTAT
*
36599 TTAAATATTATTATTTATTTTTATTTAATTT-TAATTTAAG
1 TTAAATATTATTATTTATTATTATTTAATTTATAATTTAAG
36639 TTAAATA-TATTAATTTATTAATTA-TTAATTTAATAATTTA
1 TTAAATATTATT-ATTTATT-ATTATTTAATTT-ATAATTTA
36679 GAATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 4 0.11
40 21 0.60
41 3 0.09
42 7 0.20
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (41 bp):
TTAAATATTATTATTTATTATTATTTAATTTATAATTTAAG
Found at i:40111 original size:13 final size:13
Alignment explanation
Indices: 40093--40117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40083 ATATTGCACA
40093 GTATCGATACATT
1 GTATCGATACATT
40106 GTATCGATACAT
1 GTATCGATACAT
40118 GACCAAATGT
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:40242 original size:20 final size:20
Alignment explanation
Indices: 40199--40250 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
40189 CTTAACTGTT
*
40199 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
40218 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
40238 TGTATCGATACAT
1 TGTATCGATACAT
40251 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:46393 original size:13 final size:13
Alignment explanation
Indices: 46375--46399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46365 CAGCATTCTC
46375 TGTATCGATACAG
1 TGTATCGATACAG
46388 TGTATCGATACA
1 TGTATCGATACA
46400 AACGGTTTAT
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:49034 original size:20 final size:20
Alignment explanation
Indices: 48991--49042 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
48981 CTTAATTGTT
*
48991 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
49010 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
49030 TGTATCGATACAT
1 TGTATCGATACAT
49043 TGGCTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:50610 original size:7 final size:7
Alignment explanation
Indices: 50593--50679 Score: 88
Period size: 7 Copynumber: 12.0 Consensus size: 7
50583 GCTTCCTCCG
50593 CAAAAAA
1 CAAAAAA
50600 -AAAAAA
1 CAAAAAA
50606 CAAAAAA
1 CAAAAAA
*
50613 CAAACAA
1 CAAAAAA
50620 -AAAAAA
1 CAAAAAA
50626 CAACAAACA
1 CAA-AAA-A
*
50635 AAAAAAA
1 CAAAAAA
50642 CAAAAAAA
1 C-AAAAAA
50650 CAAAAAA
1 CAAAAAA
50657 CAAAAAA
1 CAAAAAA
*
50664 AAAACAAA
1 CAAA-AAA
50672 CAACAAAA
1 CAA-AAAA
50680 AGGGTCCGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
6 11 0.16
7 31 0.46
8 21 0.31
9 4 0.06
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:50620 original size:24 final size:23
Alignment explanation
Indices: 50594--50680 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 23
50584 CTTCCTCCGC
50594 AAAAAAAAAAAACAAAAAAC---
1 AAAAAAAAAAAACAAAAAACAAA
* *
50614 AAACAAAAAAAACAACAAACAAA
1 AAAAAAAAAAAACAAAAAACAAA
50637 AAAAACAAAAAAACAAAAAACAAA
1 AAAAA-AAAAAAACAAAAAACAAA
50661 AAAAAAACAAACAACAAAAA
1 AAAAAAA-AAA-AACAAAAA
50681 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
20 18 0.32
23 6 0.11
24 25 0.44
25 8 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAACAAAAAACAAA
Found at i:50630 original size:16 final size:15
Alignment explanation
Indices: 50598--50680 Score: 98
Period size: 16 Copynumber: 5.3 Consensus size: 15
50588 CTCCGCAAAA
*
50598 AAAAAAAACAAAAAAC
1 AAAAAAAA-AAACAAC
50614 AAACAAAAAAAACAAC
1 AAA-AAAAAAAACAAC
50630 AAACAAAAAAAACAA-
1 AAA-AAAAAAAACAAC
50645 AAAAACAAAAAACAA-
1 AAAAA-AAAAAACAAC
50660 AAAAAAAACAAACAAC
1 AAAAAAAA-AAACAAC
50676 AAAAA
1 AAAAA
50681 GGGTCCGGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
14 5 0.08
15 23 0.37
16 29 0.47
17 5 0.08
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACAAC
Found at i:50680 original size:1 final size:1
Alignment explanation
Indices: 50594--50667 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
50584 CTTCCTCCGC
* * * * * * * * *
50594 AAAAAAAAAAAACAAAAAACAAACAAAAAAAACAACAAACAAAAAAAACAAAAAAACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50659 AAAAAAAAA
1 AAAAAAAAA
50668 CAAACAACAA
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:51743 original size:37 final size:37
Alignment explanation
Indices: 51702--51786 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
51692 TGTCACAATC
51702 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
51739 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
51776 ATGCATTTGTG
1 ATGCATTTGTG
51787 CTTCATCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:51815 original size:57 final size:57
Alignment explanation
Indices: 51753--51867 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
51743 ATTTGTGACA
*
51753 TTCATAACATTTCATTTTGCATGATGCATTTGTGCTTCATCTTTTCTTTGACATCGC
1 TTCATAACATTTCATTTTGCATGATGCATTTGTGCCTCATCTTTTCTTTGACATCGC
51810 TTCATAACATTTCATTTTGCATGATGCATTTGTGCCTCATCTTTTCTTTGACATCGC
1 TTCATAACATTTCATTTTGCATGATGCATTTGTGCCTCATCTTTTCTTTGACATCGC
51867 T
1 T
51868 CCAAACCAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (57 bp):
TTCATAACATTTCATTTTGCATGATGCATTTGTGCCTCATCTTTTCTTTGACATCGC
Found at i:52327 original size:13 final size:13
Alignment explanation
Indices: 52309--52334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52299 TACAGCAAGT
52309 ATGTATCGATACA
1 ATGTATCGATACA
52322 ATGTATCGATACA
1 ATGTATCGATACA
52335 CAAAAAATTG
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:54578 original size:21 final size:21
Alignment explanation
Indices: 54545--54589 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
54535 TTGCAAGTTG
*
54545 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
54567 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
54587 AAA
1 AAA
54590 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:58516 original size:20 final size:20
Alignment explanation
Indices: 58437--58516 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
58427 AATGTCCAAA
*
58437 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
58457 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
58482 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
58502 TTGTATCGATACATT
1 ATGTATCGATACATT
58517 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:58520 original size:13 final size:13
Alignment explanation
Indices: 58502--58540 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
58492 ACATTTTTCT
58502 TTGTATCGATACA
1 TTGTATCGATACA
58515 TTGTATCGATACA
1 TTGTATCGATACA
*
58528 CTGTATCGATACA
1 TTGTATCGATACA
58541 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:61101 original size:13 final size:13
Alignment explanation
Indices: 61083--61108 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61073 TACAGCAAGT
61083 ATGTATCGATACA
1 ATGTATCGATACA
61096 ATGTATCGATACA
1 ATGTATCGATACA
61109 CAAAAAATTG
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:62211 original size:28 final size:29
Alignment explanation
Indices: 62138--62435 Score: 235
Period size: 28 Copynumber: 10.5 Consensus size: 29
62128 ATTCCTCATC
* * **
62138 TTCAGAAGCCCACAAGTCGGTGGCACCCCT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATCT
*
62168 TTC-AAAGCCCACAAGTTAGTGGCAATC-
1 TTCAAAAGCCCACAAGTCAGTGGCAATCT
62195 TTCAAAAGCCCACAAGTCAGTGGC-ATCT
1 TTCAAAAGCCCACAAGTCAGTGGCAATCT
* *
62223 TTCCAAAGTCCACAAGTCAGTGGCACAT-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATCT
*
62252 TTC-AAAGCTCACAAGTCAGTGGC-ATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAATC-T
* * *
62280 TTCAAAAGCCCATAAGTTAGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAATC-T
*
62309 TTC-AAAGCCCACAAGCCAGTGGC-ATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAATC-T
* *
62337 TTCAAAAGCCCACAAGTTATTGGC-ATCT
1 TTCAAAAGCCCACAAGTCAGTGGCAATCT
*** *
62365 TTTTGAAGCCCACAAGGT-AGTGGCAAGC-
1 TTCAAAAGCCCACAA-GTCAGTGGCAATCT
* * ** *
62393 TTCAAAAGCACATAAGTTGGT-GCAACCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAA-TCT
62422 TTCAAAAGCCCACA
1 TTCAAAAGCCCACA
62436 CAAGTTGGTG
Statistics
Matches: 220, Mismatches: 35, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.01
27 12 0.05
28 119 0.54
29 82 0.37
30 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAATCT
Found at i:62256 original size:57 final size:57
Alignment explanation
Indices: 62138--62389 Score: 298
Period size: 57 Copynumber: 4.4 Consensus size: 57
62128 ATTCCTCATC
* * * *
62138 TTCAGAAGCCCACAAGTCGGTGGCACCCCTTTC-AAAGCCCACAAGTTAGTGGCA-ATC
1 TTCA-AAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCACAAGTTAGTGGCACATT
* * *
62195 TTCAAAAGCCCACAAGTCAGTGGCATC-TTTCCAAAGTCCACAAGTCAGTGGCACATT
1 TTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATT
* * *
62252 TTCAAAGCTCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTTAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATT
* *
62309 TTCAAAGCCCACAAGCCAGTGGCATCTTTTCAAAAGCCCACAAGTTATTGGCATC-TT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCA-CATT
**
62366 TTTGAAGCCCACAAGGT-AGTGGCA
1 TTCAAAGCCCACAA-GTCAGTGGCA
62390 AGCTTCAAAA
Statistics
Matches: 171, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
55 4 0.02
56 42 0.25
57 122 0.71
58 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACATT
Found at i:62302 original size:85 final size:85
Alignment explanation
Indices: 62143--62389 Score: 302
Period size: 85 Copynumber: 2.9 Consensus size: 85
62133 TCATCTTCAG
* *
62143 AAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTTAGTGGCAATC--TTCAAAAGCCC
1 AAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGC-ATCTTTTCAAAAGCCC
* *
62206 ACAAGTCAGTGGCATCTTTCCA
64 ACAAGTTAGTGGCACCTTTCCA
* * * * *
62228 AAGTCCACAAGTCAGTGGCACATTTTCAAAGCTCACAAGTCAGTGGCATCTTTTCAAAAGCCCAT
1 AAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCAC
*
62293 AAGTTAGTGGCACCTTTTCA
66 AAGTTAGTGGCACCTTTCCA
* * * **
62313 AAGCCCACAAGCCAGTGGCATCTTTTCAAAAGCCCACAAGTTATTGGCATCTTTT-TGAAGCCCA
1 AAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCA
*
62377 CAAGGTAGTGGCA
65 CAAGTTAGTGGCA
62390 AGCTTCAAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
83 3 0.02
84 23 0.17
85 88 0.64
86 24 0.17
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (85 bp):
AAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCAC
AAGTTAGTGGCACCTTTCCA
Found at i:62673 original size:49 final size:49
Alignment explanation
Indices: 62444--63308 Score: 733
Period size: 49 Copynumber: 17.9 Consensus size: 49
62434 CACAAGTTGG
* * *
62444 TGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATGT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
** * * *
62493 TGGTGCCTTTGTC-TCCTTTAAGTCCAATGTCGCTGACCTTGAATCAACACATT
1 TGGCACC--T-TCAT-CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATA-T
* * * * *
62546 TAGCACCTTCACCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
*
62595 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * *
62638 TGGCACCTTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * **
62687 TGG-----T-ACCTTTAAGTCCAATATCATTGGCCTTGAATCAGCATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * *
62730 TGGTACCTTTACCATC-TTGAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACC-TT--CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * * *
62781 TGGCACC-TCGTCCTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * *
62829 T-G-A----C-TC---AAGCCCAATATTGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
** * * * *
62868 TGGCACCTTCATCTTTAACACCGATGTCGTTGGCCTAGAATCAACATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * *
62917 TAGCACCTTAACCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTT---CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * *
62969 TGGCATCTTCATCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * * *
63018 TGGCACCTTTATCTTTTAGTCCAATGTAGTTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * * *
63067 TGGCATCTTCATCTTCAAGTCTAATATCACTGGCCTTGAATCAGCATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* ** *
63116 TGGCACCTTTATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * *
63165 TGGCACCTTCATCTTTAAGTCCGATATCGTTGGCTTTGAATCAGCATAT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * **
63214 TGGCATCTTTAACAT-TCTTAAGCCCAATGTCGCTAGCCTTGTCTCAGCATAT
1 TGGCA-CCTT--CATCT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
* * * * *
63266 TGGCA--TTCTTCTTCAAGTCTAGTGTCGCTGGCCATGAATCAGC
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGC
63309 GCATTGTCTT
Statistics
Matches: 651, Mismatches: 125, Indels: 82
0.76 0.15 0.10
Matches are distributed among these distances:
39 30 0.05
40 1 0.00
41 1 0.00
42 2 0.00
43 75 0.12
44 1 0.00
45 2 0.00
46 3 0.00
47 29 0.04
48 32 0.05
49 283 0.43
50 37 0.06
51 42 0.06
52 108 0.17
53 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATAT
Found at i:64075 original size:21 final size:21
Alignment explanation
Indices: 64051--64104 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
64041 TTCAACAATT
*
64051 TGTATCGATACAAACAGTTAA
1 TGTATCGATACAAACAGTAAA
*
64072 TGTATCGATATAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
64093 TGTATCAATACA
1 TGTATCGATACA
64105 TAAGTGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:64285 original size:33 final size:33
Alignment explanation
Indices: 64155--64267 Score: 226
Period size: 33 Copynumber: 3.4 Consensus size: 33
64145 GCCAAGGAAA
64155 TGTATCGATACATTTTTCAATATATCGATACAG
1 TGTATCGATACATTTTTCAATATATCGATACAG
64188 TGTATCGATACATTTTTCAATATATCGATACAG
1 TGTATCGATACATTTTTCAATATATCGATACAG
64221 TGTATCGATACATTTTTCAATATATCGATACAG
1 TGTATCGATACATTTTTCAATATATCGATACAG
64254 TGTATCGATACATT
1 TGTATCGATACATT
64268 GATCTTTGTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTTTTCAATATATCGATACAG
Found at i:64285 original size:66 final size:66
Alignment explanation
Indices: 64155--64285 Score: 208
Period size: 66 Copynumber: 2.0 Consensus size: 66
64145 GCCAAGGAAA
** *
64155 TGTATCGATACATTTTTCAATATATCGATACAGTGTATCGATACATTTTTCAATATATCGATACA
1 TGTATCGATACATTTTTCAATATATCGATACAGTGTATCGATACATTGATCAATATATCAATACA
64220 G
66 G
** *
64221 TGTATCGATACATTTTTCAATATATCGATACAGTGTATCGATACATTGATCTTTGTATCAATACA
1 TGTATCGATACATTTTTCAATATATCGATACAGTGTATCGATACATTGATCAATATATCAATACA
64286 TCTGGGAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (66 bp):
TGTATCGATACATTTTTCAATATATCGATACAGTGTATCGATACATTGATCAATATATCAATACA
G
Found at i:67481 original size:20 final size:20
Alignment explanation
Indices: 67456--67505 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
67446 GGCTTAATGC
67456 ATCGATACAATTCACCATGT
1 ATCGATACAATTCACCATGT
*
67476 ATCGATACAATTCATCATGT
1 ATCGATACAATTCACCATGT
*
67496 ATCAATACAA
1 ATCGATACAA
67506 GGTGAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (20 bp):
ATCGATACAATTCACCATGT
Found at i:67587 original size:32 final size:33
Alignment explanation
Indices: 67551--67613 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
67541 TAAATACAAT
*
67551 ATGTATCGATACCAAG-AACATGTATCGATATA
1 ATGTATCAATACCAAGCAACATGTATCGATATA
* *
67583 ATGTATCAATACTAAGCAATATGTATCGATA
1 ATGTATCAATACCAAGCAACATGTATCGATA
67614 CATCTAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACCAAGCAACATGTATCGATATA
Found at i:67627 original size:20 final size:21
Alignment explanation
Indices: 67604--67642 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
67594 CTAAGCAATA
67604 TGTATCGATACA-TCTAGGTG
1 TGTATCGATACATTCTAGGTG
67624 TGTATCGATACATTCTAGG
1 TGTATCGATACATTCTAGG
67643 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGGTG
Found at i:67714 original size:20 final size:21
Alignment explanation
Indices: 67691--67734 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
67681 GATGCTTTGA
67691 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
67711 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
67733 AT
1 AT
67735 CTATAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:69649 original size:167 final size:166
Alignment explanation
Indices: 69461--69770 Score: 435
Period size: 167 Copynumber: 1.9 Consensus size: 166
69451 CTTGGTTTTT
* * * * *
69461 AATTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATCAGTTTTTAAAAATTCATTC
1 AATTTCTAAAATTCATAAAATATCATAATTTAAGTCATATTAAATCAGTTTTGAAAAATTCATTC
* * * *
69526 ATTTTTAT-AAGTTTTTCATTTTTTTCCTTAAAATTCCC-TAGTTTTCGAAAAATTGAGTTTTCA
66 ATTTTCATCAA-TTTTTCATTTTTTT-CTTAAAATGCCCATA-TTTTCAAAAAATTGAATTTTCA
*
69589 ATTCCATAAATGTTTTTGCGAGGGATTTTTTCTATTATA
128 ATCCCATAAATGTTTTTGCGAGGGATTTTTTCTATTATA
* * *
69628 AATTTCTAAAATTCATAAAATATCATAATTTAAGTCTTATTAAATTAGTTTTGAAAAATTCATTT
1 AATTTCTAAAATTCATAAAATATCATAATTTAAGTCATATTAAATCAGTTTTGAAAAATTCATTC
* **
69693 ATTTTCATCAATTTTTCATTTTTTTCTTGAAATGCCCATATTTTCAAAAAATTGAATTTTGTATC
66 ATTTTCATCAATTTTTCATTTTTTTCTTAAAATGCCCATATTTTCAAAAAATTGAATTTTCAATC
69758 CCATAAATGTTTT
131 CCATAAATGTTTT
69771 CGGGGGGACT
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
166 43 0.34
167 80 0.64
168 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (166 bp):
AATTTCTAAAATTCATAAAATATCATAATTTAAGTCATATTAAATCAGTTTTGAAAAATTCATTC
ATTTTCATCAATTTTTCATTTTTTTCTTAAAATGCCCATATTTTCAAAAAATTGAATTTTCAATC
CCATAAATGTTTTTGCGAGGGATTTTTTCTATTATA
Found at i:73911 original size:12 final size:12
Alignment explanation
Indices: 73894--73918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73884 TTTTGAAACA
73894 TACTAACTTGAT
1 TACTAACTTGAT
73906 TACTAACTTGAT
1 TACTAACTTGAT
73918 T
1 T
73919 TATTTACATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TACTAACTTGAT
Found at i:79123 original size:47 final size:47
Alignment explanation
Indices: 78999--79515 Score: 398
Period size: 47 Copynumber: 11.0 Consensus size: 47
78989 AACTGTTTTT
* ** *
78999 ACCCTTGTTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTTCTT
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAA--CTTTTTC-C
* * * * * *
79049 ACACTCATTTCACTGTAGTGGCATTAGGACTTGGTCAAACCTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
* * * * *
79096 AGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
** * * *
79143 ACCCTCG-TTGACTGTATTAACATTA-G-TCTTGTTAAACTTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
* *
79187 ACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTC-C
* * * * ** *
79235 ACCCTTGTTTGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
** * * *
79282 ATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTT-C
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
** * *
79329 ACCCTCGTTTGACTGTATTGGCATTA-TTCCTCGTTAAACTCTTTT-C
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
* ** ** *
79375 ACCCTCGTTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTC-C
** * * ** ** *
79423 ACTATCATTTGATTACATTGGCATTAAAACCTGGTCAAACTCTTTTTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
* * * * *
79471 ACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTT
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTT
79516 TCATTTTCAT
Statistics
Matches: 365, Mismatches: 93, Indels: 21
0.76 0.19 0.04
Matches are distributed among these distances:
44 21 0.06
45 17 0.05
46 57 0.16
47 122 0.33
48 113 0.31
49 4 0.01
50 31 0.08
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (47 bp):
ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
Found at i:79301 original size:95 final size:94
Alignment explanation
Indices: 79085--79350 Score: 268
Period size: 95 Copynumber: 2.9 Consensus size: 94
79075 GGACTTGGTC
* * * * * * * *
79085 AAACCTTTTCCAGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTCACCCTCG
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
* ** * * ** *
79150 -TTGACTGTATTAACATT-AG-TCTTGTT
66 TTTGACTATATTGGCGTTAAGACCTCATA
* * * *
79176 AAACTTTTTCCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTT
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTT-TCACCCTC
79241 GTTTGACTATATTGGCGTTAAGACCTCATA
65 GTTTGACTATATTGGCGTTAAGACCTCATA
** * * *
79271 AAACTTTTTCCATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTTCACCCTCG
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
*
79336 TTTGACTGTATTGGC
66 TTTGACTATATTGGC
79351 ATTATTCCTC
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
91 49 0.34
92 8 0.06
93 13 0.09
94 24 0.17
95 51 0.35
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (94 bp):
AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
TTTGACTATATTGGCGTTAAGACCTCATA
Found at i:79353 original size:142 final size:141
Alignment explanation
Indices: 79176--79518 Score: 357
Period size: 142 Copynumber: 2.4 Consensus size: 141
79166 TAGTCTTGTT
* *
79176 AAACTTTTTCCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTT
1 AAACTTTTT-CACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTT-TCACCCTC
* * * * *
79241 GTTTGACTATATTGGCGTTAAGACCTCATAAAACTTTTTC-CATTCTCGTTTAATTATATTGGCA
64 GTTGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCA
**
79305 TTAGGACCTGGTC
129 TTAAAACCTGGTC
** * * *
79318 AAACTGTTTTCACCCTCGTTTGACTGTATTGGCATT-ATTCCTCGTTAAACTCTTTTCACCCTCG
1 AAACT-TTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCACCCTCG
* * * ** ** * * *
79382 TTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTCACTATCATTTGATTACATTGGCAT
65 TTGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCAT
79447 TAAAACCTGGTC
130 TAAAACCTGGTC
* * * * * *
79459 AAACTCTTTTTCACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTTTCA
1 AAA--CTTTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCA
79519 TTTTCATTTG
Statistics
Matches: 161, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
140 37 0.23
141 46 0.29
142 57 0.35
143 21 0.13
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (141 bp):
AAACTTTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCACCCTCGT
TGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCATT
AAAACCTGGTC
Found at i:79373 original size:95 final size:93
Alignment explanation
Indices: 78999--79518 Score: 371
Period size: 93 Copynumber: 5.5 Consensus size: 93
78989 AACTGTTTTT
* * * ** * * *
78999 ACCCTTGTTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTTCTTACACTCATTTCACTG
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACT-TTTTTC--ACCCTCGTTTGACTG
* * * * * *
79064 TAGTGGCATTAGGACTTGGTCAAACCTTTTCC
63 TATTGGCATTA-GTCCTCGTTAAACTTTTTCC
* * * *
79096 AGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTCACCCTCG-TTGACTGTAT
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
** *
79160 TAACATTAGT-CTTGTTAAACTTTTTCC
66 TGGCATTAGTCCTCGTTAAACTTTTTCC
* * * * * *
79187 ACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTTGTTTGACTATA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTT-TCACCCTCGTTTGACTGTA
* * * *
79252 TTGGCGTTAAGACCTCATAAAACTTTTTCC
65 TTGGCATT-AGTCCTCGTTAAACTTTTTCC
** * *
79282 ATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTTCACCCTCGTTTGACTGTAT
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
*
79347 TGGCATTATTCCTCGTTAAACTCTTTT-C
66 TGGCATTAGTCCTCGTTAAACT-TTTTCC
** * ** ** * ** * * **
79375 ACCCTCGTTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTCACTATCATTTGATTACA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTT-TCACCCTCGTTTGACTGTA
** * * *
79440 TTGGCATTAAAACCTGGTCAAACTCTTTTTC
65 TTGGCATT-AGTCCTCGTTAAACT-TTTTCC
* * * * * * *
79471 ACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTTTCA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCA
79519 TTTTCATTTG
Statistics
Matches: 340, Mismatches: 75, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
91 52 0.15
92 9 0.03
93 72 0.21
94 56 0.16
95 70 0.21
96 45 0.13
97 36 0.11
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (93 bp):
ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
TGGCATTAGTCCTCGTTAAACTTTTTCC
Found at i:79478 original size:48 final size:47
Alignment explanation
Indices: 79406--79518 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 47
79396 TGTTAGGATT
* *
79406 TGGTCAAATTTTTTCTCACTATCATTTGATTACATTGGCATTAAAACC
1 TGGTCAAACTTTTT-TCACCATCATTTGATTACATTGGCATTAAAACC
** * ** *
79454 TGGTCAAACTCTTTTTCACCATCATTTGATTGTATTGGCGTTAGGACT
1 TGGTCAAACT-TTTTTCACCATCATTTGATTACATTGGCATTAAAACC
79502 TGGTCAAACTTTTTTCA
1 TGGTCAAACTTTTTTCA
79519 TTTTCATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 7 0.12
48 45 0.80
49 4 0.07
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (47 bp):
TGGTCAAACTTTTTTCACCATCATTTGATTACATTGGCATTAAAACC
Found at i:82698 original size:52 final size:51
Alignment explanation
Indices: 82613--82736 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
82603 ATATGAAAAG
* *
82613 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
82664 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
82716 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
82737 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:82749 original size:51 final size:50
Alignment explanation
Indices: 82613--82756 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
82603 ATATGAAAAG
* *
82613 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
82665 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
82716 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
82757 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:82763 original size:13 final size:13
Alignment explanation
Indices: 82745--82769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82735 CAAAGATCAG
82745 TGTATCGATACAA
1 TGTATCGATACAA
82758 TGTATCGATACA
1 TGTATCGATACA
82770 TTTGAGTAAT
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:82847 original size:33 final size:33
Alignment explanation
Indices: 82810--82876 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
82800 AGTAGCTTAA
82810 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
82843 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
82876 A
1 A
82877 AGGACTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:82850 original size:13 final size:13
Alignment explanation
Indices: 82832--82856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82822 CAAAAAAATA
82832 TGTATCGATACAT
1 TGTATCGATACAT
82845 TGTATCGATACA
1 TGTATCGATACA
82857 ACATTTTATG
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:83006 original size:49 final size:49
Alignment explanation
Indices: 82885--84010 Score: 1380
Period size: 49 Copynumber: 23.9 Consensus size: 49
82875 CAAGGACTTA
* *
82885 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
82934 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
82982 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83031 -AGGTGCCAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83079 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83128 ATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
83171 ACGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * * *
83220 ATGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83263 AAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83312 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83355 AAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83404 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83447 AAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83496 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
83539 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83588 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83631 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83680 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * * *
83730 AAAATGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83775 AAGGTGCCAATGTGCTGAATCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
83824 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83867 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
83916 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * * *
83966 AAAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGGCTTA
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
84011 GAAGGGTTGC
Statistics
Matches: 927, Mismatches: 94, Indels: 109
0.82 0.08 0.10
Matches are distributed among these distances:
43 298 0.32
45 7 0.01
47 8 0.01
48 93 0.10
49 446 0.48
52 75 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:83228 original size:92 final size:92
Alignment explanation
Indices: 82878--84015 Score: 1440
Period size: 92 Copynumber: 12.1 Consensus size: 92
82868 ATCGATACAA
* * *
82878 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTG-AGGTGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
* *
82942 ATGTGCTGATTCAAGGCCAGCTACATT
66 ATATGCTGATTCAAGGCCAGCTATATT
*
82969 GGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AG
1 GGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
83033 GTGCCAATGTGCTGATTCAAAGCCAGCTACATT
60 ATGCCAATATGCTGATTCAAGGCCAGCTATATT
* *
83066 GGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATG
1 GGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
83131 GTGCCAATATGCTGATTCAAGGCCAGCGATATT
60 ATGCCAATATGCTGATTCAAGGCCAGCTATATT
* * *
83164 GGACTTAACGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGATGATGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
83229 ATATGCTGATTCAAGGCCAGCGATATT
66 ATATGCTGATTCAAGGCCAGCTATATT
*
83256 GGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
83321 ATATGCTGATTCAAGGCCAGCGATATT
66 ATATGCTGATTCAAGGCCAGCTATATT
*
83348 GGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
83413 ATATGCTGATTCAAGGCCAGCGATATT
66 ATATGCTGATTCAAGGCCAGCTATATT
*
83440 GGACTTAAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
83505 ATATGCTGATTCAAGGCCAGCAATATT
66 ATATGCTGATTCAAGGCCAGCTATATT
83532 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
83597 ATATGCTGATTCAAGGCCAGCAATATT
66 ATATGCTGATTCAAGGCCAGCTATATT
* *
83624 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
* * *
83689 ATGTGCTGAGTCAAGGCCAGCTACATT
66 ATATGCTGATTCAAGGCCAGCTATATT
* * *
83716 GGACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G
1 GGACTT-AA-A--G-----GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
83778 --G-TGCCAATGTGCTGAATCAAGGCCAGCTACATT
57 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATT
* * *
83811 GGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G
1 GGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
83871 -TGCCAATGTGCTGATTCAAGGCCAGCTACATT
60 ATGCCAATATGCTGATTCAAGGCCAGCTATATT
*
83903 GGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAA
1 GGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--
* *
83968 AAGGTGCCAATATGCTGATTCAAGGCTAGCTATATT
57 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATT
*
84004 GGGCTTAGAAGG
1 GGACTTA-AAGG
84016 GTTGCCACCG
Statistics
Matches: 971, Mismatches: 43, Indels: 61
0.90 0.04 0.06
Matches are distributed among these distances:
91 8 0.01
92 645 0.66
93 6 0.01
94 4 0.00
95 46 0.05
96 8 0.01
97 144 0.15
98 37 0.04
99 1 0.00
100 4 0.00
101 68 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
ATATGCTGATTCAAGGCCAGCTATATT
Found at i:84054 original size:33 final size:35
Alignment explanation
Indices: 84010--84080 Score: 128
Period size: 33 Copynumber: 2.1 Consensus size: 35
84000 TATTGGGCTT
84010 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
84044 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
84078 AGA
1 AGA
84081 GAGAAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.21, C:0.17, G:0.37, T:0.25
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:84153 original size:34 final size:35
Alignment explanation
Indices: 84064--84270 Score: 264
Period size: 34 Copynumber: 5.9 Consensus size: 35
84054 CACCGACTTG
* *
84064 TGTGGGCTTTAGGAAGAGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAG-GAAAAAGAGTGCCACGGAGT
*
84100 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGGAGT
84135 TGTGGGCTTTAAAA-GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
84168 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
84205 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
84239 TGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCAC
84271 AAAGTTGTAG
Statistics
Matches: 154, Mismatches: 5, Indels: 23
0.85 0.03 0.13
Matches are distributed among these distances:
33 23 0.15
34 42 0.27
35 31 0.20
36 27 0.18
37 31 0.20
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.19
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:84278 original size:71 final size:69
Alignment explanation
Indices: 84064--84270 Score: 308
Period size: 71 Copynumber: 2.9 Consensus size: 69
84054 CACCGACTTG
* * *
84064 TGTGGGCTTTAGGAAGAGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCC
84128 ACGGAGT
63 ACGGAGT
*
84135 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
84200 GGAGT
65 GGAGT
*
84205 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCA
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCA
84270 C
64 C
84271 AAAGTTGTAG
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
68 23 0.18
69 4 0.03
70 39 0.31
71 60 0.48
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.19
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACG
GAGT
Found at i:84392 original size:62 final size:62
Alignment explanation
Indices: 84315--84457 Score: 195
Period size: 62 Copynumber: 2.3 Consensus size: 62
84305 AGAAAAAATA
*
84315 CCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTTAGTCGTGGACTTTAAAGAGAAG-GA-T
1 CCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTCGTGGACTTT---GAGAAGAGATT
84376 G
62 G
* *
84377 CCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTG
1 CCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTG
84439 CCACTGAGTCGTGGACTTT
1 CCACTGAGTCGTGGACTTT
84458 TTTTTTTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
60 6 0.08
61 4 0.05
62 42 0.58
63 21 0.29
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (62 bp):
CCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTG
Found at i:84413 original size:31 final size:31
Alignment explanation
Indices: 84315--84457 Score: 177
Period size: 31 Copynumber: 4.6 Consensus size: 31
84305 AGAAAAAATA
*
84315 CCACTGAGTCGTGGACTTTGAGACA-A-AATG
1 CCACTGAGTCGTGGACTTTGAG-CAGAGATTG
* *
84345 CCACTTAGTCGTGGACTTTAAAG-AGAAGGA-TG
1 CCACTGAGTCGTGGACTTT-GAGCAG-A-GATTG
*
84377 CCACTGCGTCGTGGACTTTGAGCAGAGATTG
1 CCACTGAGTCGTGGACTTTGAGCAGAGATTG
*
84408 CCACTGAGTCGTGGACTTTGAGAAGAGATTG
1 CCACTGAGTCGTGGACTTTGAGCAGAGATTG
84439 CCACTGAGTCGTGGACTTT
1 CCACTGAGTCGTGGACTTT
84458 TTTTTTTTTT
Statistics
Matches: 99, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.01
30 20 0.20
31 56 0.57
32 21 0.21
33 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (31 bp):
CCACTGAGTCGTGGACTTTGAGCAGAGATTG
Found at i:85441 original size:10 final size:10
Alignment explanation
Indices: 85426--85463 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
85416 GTTTCTCCTC
85426 TCTTTTTTTT
1 TCTTTTTTTT
85436 TCTTTTTTTT
1 TCTTTTTTTT
* *
85446 T-GTTTTGTT
1 TCTTTTTTTT
85455 TCTTTTTTT
1 TCTTTTTTT
85464 GGAAAAGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:90877 original size:47 final size:47
Alignment explanation
Indices: 90753--91269 Score: 398
Period size: 47 Copynumber: 11.0 Consensus size: 47
90743 AACTGTTTTT
* ** *
90753 ACCCTTGTTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTTCTT
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAA--CTTTTTC-C
* * * * * *
90803 ACACTCATTTCACTGTAGTGGCATTAGGACTTGGTCAAACCTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
* * * * *
90850 AGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
** * * *
90897 ACCCTCG-TTGACTGTATTAACATTA-G-TCTTGTTAAACTTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
* *
90941 ACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTC-C
* * * * ** *
90989 ACCCTTGTTTGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
** * * *
91036 ATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTT-C
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
** * *
91083 ACCCTCGTTTGACTGTATTGGCATTA-TTCCTCGTTAAACTCTTTT-C
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
* ** ** *
91129 ACCCTCGTTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTC-C
** * * ** ** *
91177 ACTATCATTTGATTACATTGGCATTAAAACCTGGTCAAACTCTTTTTC
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTTCC
* * * * *
91225 ACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTT
1 ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTT
91270 TCATTTTCAT
Statistics
Matches: 365, Mismatches: 93, Indels: 21
0.76 0.19 0.04
Matches are distributed among these distances:
44 21 0.06
45 17 0.05
46 57 0.16
47 122 0.33
48 113 0.31
49 4 0.01
50 31 0.08
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (47 bp):
ACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTTTTTCC
Found at i:91055 original size:95 final size:94
Alignment explanation
Indices: 90839--91104 Score: 268
Period size: 95 Copynumber: 2.9 Consensus size: 94
90829 GGACTTGGTC
* * * * * * * *
90839 AAACCTTTTCCAGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTCACCCTCG
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
* ** * * ** *
90904 -TTGACTGTATTAACATT-AG-TCTTGTT
66 TTTGACTATATTGGCGTTAAGACCTCATA
* * * *
90930 AAACTTTTTCCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTT
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTT-TCACCCTC
90995 GTTTGACTATATTGGCGTTAAGACCTCATA
65 GTTTGACTATATTGGCGTTAAGACCTCATA
** * * *
91025 AAACTTTTTCCATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTTCACCCTCG
1 AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
*
91090 TTTGACTGTATTGGC
66 TTTGACTATATTGGC
91105 ATTATTCCTC
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
91 49 0.34
92 8 0.06
93 13 0.09
94 24 0.17
95 51 0.35
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (94 bp):
AAACTTTTTCCACCCTCGTTTAACTATATTGGCATTAAGACCTGGACAAACTGTTTTCACCCTCG
TTTGACTATATTGGCGTTAAGACCTCATA
Found at i:91107 original size:142 final size:141
Alignment explanation
Indices: 90930--91272 Score: 357
Period size: 142 Copynumber: 2.4 Consensus size: 141
90920 TAGTCTTGTT
* *
90930 AAACTTTTTCCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTT
1 AAACTTTTT-CACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTT-TCACCCTC
* * * * *
90995 GTTTGACTATATTGGCGTTAAGACCTCATAAAACTTTTTC-CATTCTCGTTTAATTATATTGGCA
64 GTTGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCA
**
91059 TTAGGACCTGGTC
129 TTAAAACCTGGTC
** * * *
91072 AAACTGTTTTCACCCTCGTTTGACTGTATTGGCATT-ATTCCTCGTTAAACTCTTTTCACCCTCG
1 AAACT-TTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCACCCTCG
* * * ** ** * * *
91136 TTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTCACTATCATTTGATTACATTGGCAT
65 TTGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCAT
91201 TAAAACCTGGTC
130 TAAAACCTGGTC
* * * * * *
91213 AAACTCTTTTTCACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTTTCA
1 AAA--CTTTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCA
91273 TTTTCATTTG
Statistics
Matches: 161, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
140 37 0.23
141 46 0.29
142 57 0.35
143 21 0.13
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (141 bp):
AAACTTTTTCACCCTCGTTTGACTGTATTGGCATTAAGACCTGGTCAAACTTTTTTCACCCTCGT
TGGACTATATTGGCGTTAAGACCTCATAAAACTTTTTCTCACTATCATTTAATTACATTGGCATT
AAAACCTGGTC
Found at i:91127 original size:95 final size:93
Alignment explanation
Indices: 90753--91272 Score: 371
Period size: 93 Copynumber: 5.5 Consensus size: 93
90743 AACTGTTTTT
* * * ** * * *
90753 ACCCTTGTTTGACTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTTCTTACACTCATTTCACTG
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACT-TTTTTC--ACCCTCGTTTGACTG
* * * * * *
90818 TAGTGGCATTAGGACTTGGTCAAACCTTTTCC
63 TATTGGCATTA-GTCCTCGTTAAACTTTTTCC
* * * *
90850 AGCCTCATTTAACTGTATTGGCGTTAGGACCTGGTCAAACTTTTTTCACCCTCG-TTGACTGTAT
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
** *
90914 TAACATTAGT-CTTGTTAAACTTTTTCC
66 TGGCATTAGTCCTCGTTAAACTTTTTCC
* * * * * *
90941 ACCCTCGTTTGACTGTATTGGCATTAAGACCTGGACAAACTTTTTCTCACCCTTGTTTGACTATA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTT-TCACCCTCGTTTGACTGTA
* * * *
91006 TTGGCGTTAAGACCTCATAAAACTTTTTCC
65 TTGGCATT-AGTCCTCGTTAAACTTTTTCC
** * *
91036 ATTCTCGTTTAATTATATTGGCATTAGGACCTGGTCAAACTGTTTTCACCCTCGTTTGACTGTAT
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
*
91101 TGGCATTATTCCTCGTTAAACTCTTTT-C
66 TGGCATTAGTCCTCGTTAAACT-TTTTCC
** * ** ** * ** * * **
91129 ACCCTCGTTGGACTGTATTGGTGTTAGGATTTGGTCAAATTTTTTCTCACTATCATTTGATTACA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTT-TCACCCTCGTTTGACTGTA
** * * *
91194 TTGGCATTAAAACCTGGTCAAACTCTTTTTC
65 TTGGCATT-AGTCCTCGTTAAACT-TTTTCC
* * * * * * *
91225 ACCATCATTTGATTGTATTGGCGTTAGGACTTGGTCAAACTTTTTTCA
1 ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCA
91273 TTTTCATTTG
Statistics
Matches: 340, Mismatches: 75, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
91 52 0.15
92 9 0.03
93 72 0.21
94 56 0.16
95 70 0.21
96 45 0.13
97 36 0.11
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (93 bp):
ACCCTCGTTTAACTATATTGGCATTAGGACCTGGTCAAACTTTTTTCACCCTCGTTTGACTGTAT
TGGCATTAGTCCTCGTTAAACTTTTTCC
Found at i:91232 original size:48 final size:47
Alignment explanation
Indices: 91160--91272 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 47
91150 TGTTAGGATT
* *
91160 TGGTCAAATTTTTTCTCACTATCATTTGATTACATTGGCATTAAAACC
1 TGGTCAAACTTTTT-TCACCATCATTTGATTACATTGGCATTAAAACC
** * ** *
91208 TGGTCAAACTCTTTTTCACCATCATTTGATTGTATTGGCGTTAGGACT
1 TGGTCAAACT-TTTTTCACCATCATTTGATTACATTGGCATTAAAACC
91256 TGGTCAAACTTTTTTCA
1 TGGTCAAACTTTTTTCA
91273 TTTTCATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 7 0.12
48 45 0.80
49 4 0.07
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (47 bp):
TGGTCAAACTTTTTTCACCATCATTTGATTACATTGGCATTAAAACC
Found at i:94575 original size:34 final size:35
Alignment explanation
Indices: 94537--94603 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
94527 CCTTACAACA
94537 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCGAAGGCTAAGATAG-AACCTCTCTCT
94571 CTATCTTTTTCGAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCGAAGGCTAAGATAGAACCTCTC
94604 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:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCGAAGGCTAAGATAGAACCTCTCTCT
Found at i:95082 original size:13 final size:13
Alignment explanation
Indices: 95064--95089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95054 CAATTTTTTG
95064 TGTATCGATACAT
1 TGTATCGATACAT
95077 TGTATCGATACAT
1 TGTATCGATACAT
95090 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:95174 original size:20 final size:20
Alignment explanation
Indices: 95149--95221 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
95139 CATCCTTTTT
95149 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
95169 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
95190 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
95210 ATGTATCGATAC
1 ATGTATCGATAC
95222 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:95194 original size:21 final size:21
Alignment explanation
Indices: 95128--95204 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
95118 CTGCCAAGAA
*
95128 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
95149 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
95169 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
95190 ATGTATCGATACATT
1 ATGTATCGATACATT
95205 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:95194 original size:41 final size:41
Alignment explanation
Indices: 95128--95221 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
95118 CTGCCAAGAA
95128 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
95169 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
95210 ATGTATCGATAC
1 ATGTATCGATAC
95222 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:95684 original size:52 final size:52
Alignment explanation
Indices: 95599--95722 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
95589 ATATGAAAAG
* *
95599 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
95651 TTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAAT
95703 TT-CCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
95723 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 18 0.26
52 46 0.67
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:95735 original size:51 final size:50
Alignment explanation
Indices: 95599--95742 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
95589 ATATGAAAAG
* *
95599 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
95651 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
95703 TT-CCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
95743 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 30 0.36
52 45 0.54
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:95749 original size:13 final size:13
Alignment explanation
Indices: 95731--95755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95721 CAAAGATCAG
95731 TGTATCGATACAA
1 TGTATCGATACAA
95744 TGTATCGATACA
1 TGTATCGATACA
95756 TTTGAGTAAT
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:95833 original size:33 final size:33
Alignment explanation
Indices: 95796--95862 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
95786 AGTAGCTTAA
95796 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
95829 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
95862 A
1 A
95863 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:95836 original size:13 final size:13
Alignment explanation
Indices: 95818--95842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95808 CAAAAAAATA
95818 TGTATCGATACAT
1 TGTATCGATACAT
95831 TGTATCGATACA
1 TGTATCGATACA
95843 ACATTTTATG
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:97631 original size:18 final size:19
Alignment explanation
Indices: 97610--97648 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
97600 TTATTTCATT
*
97610 AATTTTCT-TTTTTTTTGA
1 AATTTTCTCTTATTTTTGA
97628 AA-TTTCTCTTATTTTTGA
1 AATTTTCTCTTATTTTTGA
97646 AAT
1 AAT
97649 ATGAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (19 bp):
AATTTTCTCTTATTTTTGA
Found at i:98591 original size:11 final size:11
Alignment explanation
Indices: 98575--98617 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
98565 TTTGGCAAGT
98575 AAGAAAAAAAA
1 AAGAAAAAAAA
98586 AAGAAAGAAACAA
1 AAGAAA-AAA-AA
* *
98599 GAGAGAAAAAA
1 AAGAAAAAAAA
98610 AAGAAAAA
1 AAGAAAAA
98618 TCAAGGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 14 0.54
12 6 0.23
13 6 0.23
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:108646 original size:84 final size:87
Alignment explanation
Indices: 108464--108907 Score: 380
Period size: 89 Copynumber: 5.0 Consensus size: 87
108454 AATTTAGGGA
* * * * * *
108464 AAACTCCATCCCTACTCCTCCAAAGGGCATACTCTAA-TCTGATTCT-ACAAAAAACTCAAATTT
1 AAACTCCATCCCCACTCCTCC-GAGGGGATACTCCAACCCTG-TTCTAAC-AAAAATTCAAA-TT
* *
108527 TCTCTTTGTATAATTTTATCTTTGGGG
62 T-TCTTTGTATAATTTTATCCTTGAGG
* * * *
108554 ATACTCCATCCCCACTCCTCTGAGGGGATACTCTAACCCCGTTCTAAC-AAAATTCAAA-TTT-T
1 AAACTCCATCCCCACTCCTCCGAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAATTTTCT
*
108616 TTGTATAATTTTATCATTGAGG
66 TTGTATAATTTTATCCTTGAGG
** * * * *
108638 AAACTCCATCCCCACTATTCCGAAGGGATACTCTAATCCTATTCTAACAAAAATTCAAATTTTCT
1 AAACTCCATCCCCACTCCTCCGAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAATTTTCT
* *
108703 TTCGTTTAATTCTATCCTT-AGGG
66 TT-GTATAATTTTATCCTTGA-GG
* * * * * * * * *
108726 AAATTCCATCCGCATTTCTCTGAGAGGACACTCCAGCCTTGTTCTAACAAAAATTCAAAATTTTC
1 AAACTCCATCCCCACTCCTCCGAGGGGATACTCCAACCCTGTTCTAACAAAAATTC-AAATTTT-
*
108791 CTTTGTATAATTTTATCCTTGGGG
64 CTTTGTATAATTTTATCCTTGAGG
* * * *
108815 AAACTCCATCCCCATTCCTCCGAGGAGATACTCCAACCTTGTTCT-ACAAAGTAATTATAAATTT
1 AAACTCCATCCCCACTCCTCCGAGGGGATACTCCAACCCTGTTCTAACAAA--AATT-CAAATTT
* *
108879 TCTTTTCATATAATTTTATCATTGAGG
63 TC-TTT-GTATAATTTTATCCTTGAGG
108906 AA
1 AA
108908 CTTCAAACAT
Statistics
Matches: 289, Mismatches: 50, Indels: 29
0.79 0.14 0.08
Matches are distributed among these distances:
84 61 0.21
85 11 0.04
86 5 0.02
87 4 0.01
88 71 0.25
89 78 0.27
90 40 0.14
91 19 0.07
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (87 bp):
AAACTCCATCCCCACTCCTCCGAGGGGATACTCCAACCCTGTTCTAACAAAAATTCAAATTTTCT
TTGTATAATTTTATCCTTGAGG
Found at i:108816 original size:89 final size:88
Alignment explanation
Indices: 108513--108907 Score: 367
Period size: 88 Copynumber: 4.5 Consensus size: 88
108503 TGATTCTACA
* * * *
108513 AAAAACTCAAATTTTCTCTTTGTATAATTTTATCTTTGGGGATACTCCATCCCCACTCCTCTGAG
1 AAAAATTCAAATTTTC-CTTTGTATAATTTTATCATTGGGGAAACTCCATCCCCATTCCTCTGAG
* * **
108578 GGGATACTCTAACCCCGTTCTAAC
65 AGGATACTCCAACCTTGTTCTAAC
* * ** *
108602 -AAAATTCAAA-TTT--TTTGTATAATTTTATCATTGAGGAAACTCCATCCCCACTATTCCGA-A
1 AAAAATTCAAATTTTCCTTTGTATAATTTTATCATTGGGGAAACTCCATCCCCATTCCTCTGAGA
* *
108662 GGGATACTCTAATCC-TATTCTAAC
66 -GGATACTCCAA-CCTTGTTCTAAC
* * * * * * *
108686 AAAAATTCAAATTTT-CTTTCGTTTAATTCTATCCTTAGGGAAATTCCATCCGCATTTCTCTGAG
1 AAAAATTCAAATTTTCCTTT-GTATAATTTTATCATTGGGGAAACTCCATCCCCATTCCTCTGAG
* *
108750 AGGACACTCCAGCCTTGTTCTAAC
65 AGGATACTCCAACCTTGTTCTAAC
* *
108774 AAAAATTCAAAATTTTCCTTTGTATAATTTTATCCTTGGGGAAACTCCATCCCCATTCCTCCGAG
1 AAAAATTC-AAATTTTCCTTTGTATAATTTTATCATTGGGGAAACTCCATCCCCATTCCTCTGAG
108839 -GAGATACTCCAACCTTGTTCT-AC
65 AG-GATACTCCAACCTTGTTCTAAC
* * * *
108862 AAAGTAATTATAAATTTTCTTTTCATATAATTTTATCATTGAGGAA
1 AAA--AATT-CAAATTTTCCTTT-GTATAATTTTATCATTGGGGAA
108908 CTTCAAACAT
Statistics
Matches: 252, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
84 58 0.23
85 12 0.05
86 3 0.01
87 8 0.03
88 71 0.28
89 62 0.25
90 19 0.08
91 19 0.08
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (88 bp):
AAAAATTCAAATTTTCCTTTGTATAATTTTATCATTGGGGAAACTCCATCCCCATTCCTCTGAGA
GGATACTCCAACCTTGTTCTAAC
Found at i:113422 original size:20 final size:20
Alignment explanation
Indices: 113375--113449 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
113365 AAAAAGACAT
* *
113375 AATGTATCGATATATTA-AAG
1 AATGTATCGATACA-TACAAA
* * *
113395 AATATATCGATACATTCATA
1 AATGTATCGATACATACAAA
* * *
113415 CATGTATCGATATATAGAAA
1 AATGTATCGATACATACAAA
113435 AATGTATCGATACAT
1 AATGTATCGATACAT
113450 CTCGGTAAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATACAAA
Found at i:113443 original size:40 final size:39
Alignment explanation
Indices: 113372--113449 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
113362 GGTAAAAAGA
*
113372 CATAATGTATCGATATATTAAAGAATATATCGATACATT
1 CATAATGTATCGATATATTAAAAAATATATCGATACATT
*
113411 CATACATGTATCGATATA-TAGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATATATTA-AAAAATATATCGATACAT
113450 CTCGGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 6 0.17
40 29 0.83
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATATATTAAAAAATATATCGATACATT
Found at i:117916 original size:13 final size:13
Alignment explanation
Indices: 117898--117925 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
117888 ATACAAAGAT
117898 CAATGTATCGATA
1 CAATGTATCGATA
117911 CAATGTATCGATA
1 CAATGTATCGATA
117924 CA
1 CA
117926 TTTCCTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:119960 original size:17 final size:17
Alignment explanation
Indices: 119933--119990 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 17
119923 CAGCTAAAAA
119933 AGAATGAAAAAAAGAGAG
1 AGAA-GAAAAAAAGAGAG
119951 AGAAG--AAAAAG-GA-
1 AGAAGAAAAAAAGAGAG
*
119964 AGAA-AAAAGAAAAAGAG
1 AGAAGAAAA-AAAGAGAG
119981 AGAAGAAAAA
1 AGAAGAAAAA
119991 GAAAAACTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 9 0.27
16 2 0.06
17 6 0.18
18 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (17 bp):
AGAAGAAAAAAAGAGAG
Found at i:119979 original size:13 final size:13
Alignment explanation
Indices: 119963--119996 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
119953 AAGAAAAAGG
119963 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
* *
119976 AAGAGAGAAGAAA
1 AAGAAAAAAGAAA
119989 AAGAAAAA
1 AAGAAAAA
119997 CTAGGAAAAT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:121318 original size:148 final size:146
Alignment explanation
Indices: 121057--121330 Score: 316
Period size: 148 Copynumber: 1.9 Consensus size: 146
121047 TTATCACTTG
** * * * *
121057 AATTTTTTAGAATTTTTAATATTCCCATGGGTATTCATGGGGGTATGGAAATTTTCAAAACTTTT
1 AATTTTTTAGAATTTCCAATATTCCCATGGGCATCCATAGGGGTATGAAAATTTTCAAAACTTTT
* * * ** * ** *
121122 CGTATCTTTTTGATTCTCTATTGACATACAAAATGAATTTTTTGGAAAATAAAAAAATTAAATTA
66 CGTATCTTTTAGATCCTCCATCAACACACAAAATGAAACTTTTCGAAAA-AAAAAAA-TAAATTA
121187 AGTAAAAATTATGATCCC
129 AGTAAAAATTATGATCCC
* *
121205 AATTTTTTAGAATTTCCAATATTCCTATGGGCATCCGTAGGGGTATGAAAATTTTCAAAACTTTT
1 AATTTTTTAGAATTTCCAATATTCCCATGGGCATCCATAGGGGTATGAAAATTTTCAAAACTTTT
* ** * *
121270 CGTGTCTTTTCAG-TCCTCCATCAAGGCACGAAATGAAACTTTTCGAAAAAACAAAATAAAT
66 CGTATCTTTT-AGATCCTCCATCAACACACAAAATGAAACTTTTCGAAAAAAAAAAATAAAT
121331 ATTTTATTTA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
146 5 0.05
147 6 0.06
148 91 0.88
149 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (146 bp):
AATTTTTTAGAATTTCCAATATTCCCATGGGCATCCATAGGGGTATGAAAATTTTCAAAACTTTT
CGTATCTTTTAGATCCTCCATCAACACACAAAATGAAACTTTTCGAAAAAAAAAAATAAATTAAG
TAAAAATTATGATCCC
Found at i:122043 original size:155 final size:155
Alignment explanation
Indices: 121551--122243 Score: 498
Period size: 155 Copynumber: 4.5 Consensus size: 155
121541 AGTCCCACAT
**
121551 ATCTATAAATCCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTCCACGTCGAAGGTATCCCC-TA
1 ATCTAT-AATCCTTTTTAAGTCCTTTA-GGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTTA
* * * * * * * * *
121615 GGGGCATTCTAGTAATTTTCTCTAGAATCGAGTCTTAGGTTGTCAATGGTTCTGCTTTTATGCCG
64 -GGGCATTTTAGTAATTTT-T-TAGAACCAAATCCTAGGTTATCACTGGCTCCGCTTTTATGCCG
* * *
121680 AAGG-CAGATATTTAGGGTAAGTTCATCCC
126 AAGGTGAGATATTTAGGATAGGTTCATCCC
* * * * *
121709 ATCTCTAGT-CTTTTTAAGTCTTTTAGGGTTGTCGAGATACTTTTACGTC-ATAGGTAT-ACCTA
1 ATCTATAATCCTTTTTAAGTCCTTTAGGG-TATCGAG-TACTTTTACGTCGA-AGGTATCCCCT-
* * * * * * *
121771 TAGTGGTATTTTCA-TAA-TTTTTATAACCAAATCCCAAGTCATCATTGGGTCCGCTTTTATGCC
62 TAG-GGCATTTT-AGTAATTTTTTAGAACCAAATCCTAGGTTATCACTGGCTCCGCTTTTATGCC
*
121834 GAAGGT-AGATATTTAGGATAGGTTCATCCT
125 GAAGGTGAGATATTTAGGATAGGTTCATCCC
* * * * *** * *
121864 TTTTAAAATCATTTTCCGGTCCTTTAAGGGTACCAAGTACTTTTACGTCGAAGGTATCCCCTTAG
1 ATCTATAATCCTTTTTAAGTCCTTT-AGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTTAG
* * * * *
121929 GGCATTTTTGTAATTTTTTAAAACCAAATCCTAGGTTGTCACTGGCTCCG-TTTTATGCTGATGG
65 GGCATTTTAGTAATTTTTTAGAACCAAATCCTAGGTTATCACTGGCTCCGCTTTTATGCCGAAGG
121993 TGAG-TATTTAGGATAGGTTCATCCC
130 TGAGATATTTAGGATAGGTTCATCCC
* * * * * ** *
122018 ATTTTGTAATCCTTTTTAAGTCCTTTAGGGATACCGGGCACTTCAACGTCGAAGATAT-CCCTTA
1 A-TCTATAATCCTTTTTAAGTCCTTTAGGG-TATCGAGTACTTTTACGTCGAAGGTATCCCCTT-
* * * * * * * ** * **
122082 AGGGCATTTTGGTAATCTTTTAGAATC-GAGCTTTAGGTTATCA-TCGGGTCTTCTTTTTTGTTG
63 AGGGCATTTTAGTAATTTTTTAGAACCAAATC-CTAGGTTATCACT-GGCTCCGCTTTTATGCCG
*
122145 AAGGTGAG-TATTTAGGATAGGTTCATCTC
126 AAGGTGAGATATTTAGGATAGGTTCATCCC
* * * * * * *
122174 AGCTATAATCCTTTTTAAGTCCGTTTGGGGTATCGGGTATTTTTACGTCAAAGTTATCCCC-AAG
1 ATCTATAATCCTTTTTAAGTCC-TTTAGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTTAG
122238 GGCATT
65 GGCATT
122244 GTCATAATTT
Statistics
Matches: 422, Mismatches: 90, Indels: 50
0.75 0.16 0.09
Matches are distributed among these distances:
154 63 0.15
155 228 0.54
156 88 0.21
157 26 0.06
158 16 0.04
159 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (155 bp):
ATCTATAATCCTTTTTAAGTCCTTTAGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTTAGG
GCATTTTAGTAATTTTTTAGAACCAAATCCTAGGTTATCACTGGCTCCGCTTTTATGCCGAAGGT
GAGATATTTAGGATAGGTTCATCCC
Found at i:131681 original size:39 final size:40
Alignment explanation
Indices: 131601--131681 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 40
131591 TTTTCTTTTT
* *
131601 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTTTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCACACATTCTCC
* * *
131641 CCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTCACACATTCTCC
131680 CC
1 CC
131682 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.09
39 25 0.71
40 7 0.20
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.36
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCACACATTCTCC
Found at i:133075 original size:21 final size:20
Alignment explanation
Indices: 133046--133088 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
133036 GGCTAGTATG
* *
133046 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
133067 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
133087 GG
1 GG
133089 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:133549 original size:13 final size:13
Alignment explanation
Indices: 133531--133567 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
133521 AATCCCCCTG
*
133531 TATCGATACAGTA
1 TATCGATACAATA
*
133544 TATCGATACAATG
1 TATCGATACAATA
133557 TATCGATACAA
1 TATCGATACAA
133568 AGAAAAATGT
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:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:138460 original size:13 final size:13
Alignment explanation
Indices: 138442--138467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
138432 CAATTTTTTG
138442 TGTATCGATACAT
1 TGTATCGATACAT
138455 TGTATCGATACAT
1 TGTATCGATACAT
138468 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:139208 original size:21 final size:21
Alignment explanation
Indices: 139167--139210 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
139157 CTCTCCTTTA
* *
139167 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
139188 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
139209 TC
1 TC
139211 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:141035 original size:13 final size:13
Alignment explanation
Indices: 141017--141055 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
141007 ATAATCACCC
141017 TGTATCGATACAA
1 TGTATCGATACAA
141030 TGTATCGATACAA
1 TGTATCGATACAA
141043 TGTATCGATACAA
1 TGTATCGATACAA
141056 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141112 original size:20 final size:20
Alignment explanation
Indices: 141041--141120 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
141031 GTATCGATAC
*
141041 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
*
141061 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
141086 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
141106 CATGTATCGATACAT
1 AATGTATCGATACAT
141121 TTTGGACATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:143154 original size:15 final size:15
Alignment explanation
Indices: 143134--143164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
143124 ATTTCGTTTG
*
143134 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
143149 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
143164 G
1 G
143165 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:144977 original size:21 final size:21
Alignment explanation
Indices: 144948--144992 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
144938 AAGTTTTCAT
*
144948 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
144968 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
144990 TTT
1 TTT
144993 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:147235 original size:13 final size:13
Alignment explanation
Indices: 147217--147242 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147207 CAATTTTTTG
147217 TGTATCGATACAT
1 TGTATCGATACAT
147230 TGTATCGATACAT
1 TGTATCGATACAT
147243 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:149693 original size:13 final size:13
Alignment explanation
Indices: 149675--149700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
149665 CAATTTTTTA
149675 TGTATCGATACAT
1 TGTATCGATACAT
149688 TGTATCGATACAT
1 TGTATCGATACAT
149701 ACTTTGTGTA
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:149716 original size:32 final size:33
Alignment explanation
Indices: 149655--149718 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
149645 TACAAGCCAA
**
149655 TGTATCGATACAATTTTTTATGTATCGATACAT
1 TGTATCGATACAATACTTTATGTATCGATACAT
*
149688 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTATGTATCGATACA
149719 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:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTATGTATCGATACAT
Found at i:150208 original size:51 final size:50
Alignment explanation
Indices: 150139--150304 Score: 156
Period size: 51 Copynumber: 3.3 Consensus size: 50
150129 AAATAATAGG
* * ** *
150139 GTTGGAGTATCCTTGATTGTGGAAAATCGAT-TCTTT-AGAAATAAGGTCGGA
1 GTTGGAGTATCCCTGATTGTGGAAAATAG-TGT-TTTGA-AAATAAAATCAGA
* * *
150190 GTTGGAGTGTCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCTGATTGTG-GAAAATAGTGTTTTGAAAATAAAATCAGA
* * * *
150241 GTTGGAGTATCCCTGATTGTGGAAAATTGGTATTTTAAAAATAAAATCAGG
1 GTTGGAGTATCCCTGATTGTGGAAAA-TAGTGTTTTGAAAATAAAATCAGA
*
150292 GTTAGAGTATCCC
1 GTTGGAGTATCCC
150305 CTCAGAAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
50 4 0.04
51 83 0.87
52 8 0.08
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (50 bp):
GTTGGAGTATCCCTGATTGTGGAAAATAGTGTTTTGAAAATAAAATCAGA
Found at i:158171 original size:19 final size:19
Alignment explanation
Indices: 158124--158178 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
158114 TTGCTAGTTT
158124 CATGTATCGATACAATTAAG
1 CATGTATCGATACAA-TAAG
* *
158144 TATGCATCGATACAATAAG
1 CATGTATCGATACAATAAG
158163 CATGTATCGATACAAT
1 CATGTATCGATACAAT
158179 GTATCGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATAAG
Found at i:158182 original size:13 final size:13
Alignment explanation
Indices: 158164--158190 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
158154 TACAATAAGC
158164 ATGTATCGATACA
1 ATGTATCGATACA
158177 ATGTATCGATACA
1 ATGTATCGATACA
158190 A
1 A
158191 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:162909 original size:21 final size:20
Alignment explanation
Indices: 162883--162921 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
162873 GTTATAAAGA
162883 AATTTTATACCAAATTTCTTC
1 AATTTTATACC-AATTTCTTC
162904 AATTTT-T-CCAATTTCTTC
1 AATTTTATACCAATTTCTTC
162922 TTTTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 1 0.06
21 6 0.33
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTATACCAATTTCTTC
Found at i:162980 original size:22 final size:22
Alignment explanation
Indices: 162954--163002 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
162944 TCTCCCTTAC
*
162954 TAAAATATCTCCCCCAAAATTA
1 TAAAATATCTCCCCCAAAACTA
*
162976 TAAAATTTCTCCCCCAAAACTA
1 TAAAATATCTCCCCCAAAACTA
162998 TAAAA
1 TAAAA
163003 AATTTGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATATCTCCCCCAAAACTA
Found at i:164075 original size:21 final size:21
Alignment explanation
Indices: 164049--164103 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
164039 TACTTGCAAC
*
164049 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
164070 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
164091 TCACTTAATTTCT
1 TCATTTATTTTCT
164104 TTTCAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:164104 original size:21 final size:21
Alignment explanation
Indices: 164064--164107 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
164054 TCTTTTCTCC
* *
164064 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
164085 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
164106 TC
1 TC
164108 AAAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:166831 original size:12 final size:12
Alignment explanation
Indices: 166808--166839 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
166798 CTTATTCTCC
166808 TTTTTTCT-TTT
1 TTTTTTCTCTTT
166819 TTTTTTCTCTTT
1 TTTTTTCTCTTT
166831 TTTTTTCTC
1 TTTTTTCTC
166840 AACTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:169818 original size:336 final size:336
Alignment explanation
Indices: 169152--169819 Score: 1167
Period size: 337 Copynumber: 2.0 Consensus size: 336
169142 ATAAGTGCCA
* *
169152 TTTTAGCTTATAATTTGGTCTTTTGGATCAATTTCGTTGAGAGAAGTCTTCTCTAGAAAAAAAAC
1 TTTTAGCTTATAATTTGGTCTTTTGGATCAATTTCATTGAGAGAAGTCTCCTCTAGAAAAAAAAC
* *
169217 TTTCATATCAATAGGATTCCTCTGTGGATGAATTTAGGAATAATTATAGCATTTTTTTAAAATTA
66 TTTCATATCAATAGCATTCCTCTATGGATGAATTTAGGAATAATTATAGCATTTTTTTAAAATTA
*
169282 TGAGCAAGTTATTGATATCTTAATTCCATAATAAAGAAATAAAAAAGAGAGGGTAGGTTGGTGGG
131 TGAGCAAGTTATTGATATCTTAATTCCATAATAAAGAAATAAAAAAGAGAAGGTAGGTTGGTGGG
*
169347 ATTACCAAAGCAAAATTGAAGCACTAGAAATTATGATGCCTTAGATAAAGCTAGACTTGCTAGAA
196 ATTACCAAAGCAAAATTGAAGCACTAGAAATTATGATGCCTTAGATAAAGCTAGACTTGCCAGAA
** * *
169412 TTGTATGCTTTATGCAAGGGTTGGAATGATATGTCCATTTCAAAAGTTGTTGTGCTTTTTTTGCT
261 TTGTAAACTTTATGCAAGGGTTGGAATGATATGTCCATTTCAAAAGTTGTCGTGCTCTTTTTGCT
169477 ATTTTTTGGTT
326 ATTTTTTGGTT
*
169488 TTTTAGCTTATAATTTGGTCTTTTGGATCAATTTCATTGAGAGAAGTCTCCTCTAGAAACAAAAC
1 TTTTAGCTTATAATTTGGTCTTTTGGATCAATTTCATTGAGAGAAGTCTCCTCTAGAAAAAAAAC
* *
169553 TTTCATATCAATAGCATTCCTCTATGGATGAATTTAGGAATGATTATAGCATTTTTTTTAACATT
66 TTTCATATCAATAGCATTCCTCTATGGATGAATTTAGGAATAATTATAGCA-TTTTTTTAAAATT
*
169618 ATGAGCAAGTTATTGATATCTTAATTCCATAATAAAGAAATAAAAAAGAGAAGGTGGGTTGGTGG
130 ATGAGCAAGTTATTGATATCTTAATTCCATAATAAAGAAATAAAAAAGAGAAGGTAGGTTGGTGG
* * *
169683 GATTACCAAAGCAAAATTGAAGCACTAGAAATTATGATGCGTTGGATAAAGCTAGACTTGCCATA
195 GATTACCAAAGCAAAATTGAAGCACTAGAAATTATGATGCCTTAGATAAAGCTAGACTTGCCAGA
169748 ATTGTAAACTTTATGCAAGGGTTGGAATGATATGTCCATTTCAAAAGTTGTCGTGCTCTTTTTG-
260 ATTGTAAACTTTATGCAAGGGTTGGAATGATATGTCCATTTCAAAAGTTGTCGTGCTCTTTTTGC
169812 TATTTTTT
325 TATTTTTT
169820 TTTTTTTTTT
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
336 118 0.38
337 196 0.62
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (336 bp):
TTTTAGCTTATAATTTGGTCTTTTGGATCAATTTCATTGAGAGAAGTCTCCTCTAGAAAAAAAAC
TTTCATATCAATAGCATTCCTCTATGGATGAATTTAGGAATAATTATAGCATTTTTTTAAAATTA
TGAGCAAGTTATTGATATCTTAATTCCATAATAAAGAAATAAAAAAGAGAAGGTAGGTTGGTGGG
ATTACCAAAGCAAAATTGAAGCACTAGAAATTATGATGCCTTAGATAAAGCTAGACTTGCCAGAA
TTGTAAACTTTATGCAAGGGTTGGAATGATATGTCCATTTCAAAAGTTGTCGTGCTCTTTTTGCT
ATTTTTTGGTT
Done.