Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1768
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: 77183
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Found at i:9089 original size:1 final size:1
Alignment explanation
Indices: 9083--9183 Score: 85
Period size: 1 Copynumber: 101.0 Consensus size: 1
9073 CGTCCTCCAC
* * * * * ** * *
9083 AAAAAAAAAAAAAAACAAAACAAAACAAAAAAAAAACAAAACAAAAAAAAAGCAAAAACAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
9148 ACAAAGAAAAAAACAAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9184 GGTCTGGATG
Statistics
Matches: 75, Mismatches: 25, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:9123 original size:37 final size:40
Alignment explanation
Indices: 9081--9182 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 40
9071 GGCGTCCTCC
9081 ACAAAAAAAAAAAAAAACAAAAC-AAA-ACAAA-AAAAAA
1 ACAAAAAAAAAAAAAAACAAAACAAAATACAAAGAAAAAA
* *
9118 ACAAAACAAAAAAAAAGCAAAAACAAAAATACAAAGAAAAAA
1 ACAAAAAAAAAAAAAAAC-AAAAC-AAAATACAAAGAAAAAA
*
9160 ACAAAAAAAAAACAAAAAAAAAA
1 ACAAAAAAAAAA-AAAAACAAAA
9183 AGGTCTGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
37 16 0.30
38 5 0.09
40 3 0.06
41 5 0.09
42 21 0.39
43 4 0.07
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (40 bp):
ACAAAAAAAAAAAAAAACAAAACAAAATACAAAGAAAAAA
Found at i:9183 original size:37 final size:34
Alignment explanation
Indices: 9084--9183 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 34
9074 GTCCTCCACA
* *
9084 AAAAAAAAA-AAAAACAAAAC--AAAACAAAAAA
1 AAAAAAAAACAAAAAAAAAACAAAAAAAAAAAAA
* *
9115 AAAACAAAACAAAAAAAAAGCAAAAACAAAAATACAA
1 AAAAAAAAACAAAAAAAAAACAAAAA-AAAAA-A-AA
*
9152 AGAAAAAAACAAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAACAAAAAAAAAACAAAAAAAAAAA
9184 GGTCTGGATG
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 8 0.14
32 9 0.16
34 3 0.05
35 5 0.09
36 6 0.11
37 25 0.45
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.01
Consensus pattern (34 bp):
AAAAAAAAACAAAAAAAAAACAAAAAAAAAAAAA
Found at i:10658 original size:27 final size:28
Alignment explanation
Indices: 10617--10675 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
10607 CATTTATCAC
* *
10617 CCTTCAAAAGTCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAATCAGTGGCAA
*
10645 CCTTC-AAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAAGCCCACAAATCAGTGGCAA
10672 CCTT
1 CCTT
10676 TTTTTCGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAATCAGTGGCAA
Found at i:10780 original size:30 final size:30
Alignment explanation
Indices: 10746--10850 Score: 178
Period size: 30 Copynumber: 3.6 Consensus size: 30
10736 TTTTCTTTTT
10746 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
10776 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
*
10806 AAGCCCACAAGTTAGTGGCAACC-TTT-AA
1 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
*
10834 AAGCCCACAAGTCAGTG
1 AAGCCCACAAGTTAGTG
10851 ATGCAAACCT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
28 18 0.25
29 3 0.04
30 52 0.71
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (30 bp):
AAGCCCACAAGTTAGTGGCACCCTTTTCAA
Found at i:10866 original size:60 final size:60
Alignment explanation
Indices: 10746--10874 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 60
10736 TTTTCTTTTT
* * * *
10746 AAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCTCAA
10806 AAGCCCACAAGTTAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGATGCAAACC-TCTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTG--GC-AACCTTCTCAA
10866 AAGCCCACA
1 AAGCCCACA
10875 CAAGTTGGTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
58 18 0.29
59 3 0.05
60 38 0.61
61 3 0.05
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.19
Consensus pattern (60 bp):
AAGCCCACAAGTTAGTGGCAACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCTCAA
Found at i:10963 original size:48 final size:47
Alignment explanation
Indices: 10894--11122 Score: 243
Period size: 48 Copynumber: 4.8 Consensus size: 47
10884 GGCGTCTCCT
* *
10894 TTTAAGCCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-CC
* * *
10942 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC--C
* * *
10991 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCC
11034 -TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-C--C
* * * *
11085 TTTAAGTTCAATGTAGCTCGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
11123 ACATCCTTTT
Statistics
Matches: 151, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
42 37 0.25
45 1 0.01
47 1 0.01
48 41 0.27
49 37 0.25
51 1 0.01
52 33 0.22
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (47 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCC
Found at i:11051 original size:42 final size:42
Alignment explanation
Indices: 10992--11077 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
10982 ACCTTCATAT
*
10992 TTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
* *
11034 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
11076 TT
1 TT
11078 TTCCATCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
TTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:11071 original size:91 final size:93
Alignment explanation
Indices: 10943--11122 Score: 285
Period size: 91 Copynumber: 1.9 Consensus size: 93
10933 CACCTTGCCT
*
10943 TTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-CATATTTAAGTCCAATGTA
1 TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAATGTA
11006 GCT-GACCTTGAATCAGCACATTGGCACC
66 GCTCG-CCTTGAATCAGCACATTGGCACC
* * *
11034 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGT
1 TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TTTCCATATTTAAGTCCAATGT
11099 AGCTCGCCTTGAATCAGCACATTG
65 AGCTCGCCTTGAATCAGCACATTG
11123 ACATCCTTTT
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
91 40 0.49
93 2 0.02
94 38 0.47
95 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (93 bp):
TTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAATGTA
GCTCGCCTTGAATCAGCACATTGGCACC
Found at i:11077 original size:21 final size:21
Alignment explanation
Indices: 11010--11077 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
11000 AATGTAGCTG
*
11010 ACCTTGAATCAGCACATTGGC
1 ACCTTGAATCAGCATATTGGC
** *
11031 ACCTT-AAGTCCAATATAGCTGG-
1 ACCTTGAA-T-CAGCATA-TTGGC
11053 -CCTTGAATCAGCATATTGGC
1 ACCTTGAATCAGCATATTGGC
11073 ACCTT
1 ACCTT
11078 TTCCATCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 15 0.44
22 6 0.18
23 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (21 bp):
ACCTTGAATCAGCATATTGGC
Found at i:12021 original size:33 final size:33
Alignment explanation
Indices: 11984--12050 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11974 TTCAACGATT
*
11984 TGTATCGATATATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
12017 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
12050 T
1 T
12051 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:12022 original size:13 final size:13
Alignment explanation
Indices: 12004--12028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11994 TATAAAATGT
12004 TGTATCGATACAA
1 TGTATCGATACAA
12017 TGTATCGATACA
1 TGTATCGATACA
12029 TATTTTTTTG
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:12109 original size:13 final size:13
Alignment explanation
Indices: 12091--12115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12081 ATTACTCAAA
12091 TGTATCGATACAT
1 TGTATCGATACAT
12104 TGTATCGATACA
1 TGTATCGATACA
12116 CTGATCTTTG
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:12217 original size:52 final size:52
Alignment explanation
Indices: 12124--12247 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
12114 CACTGATCTT
*
12124 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
12175 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
12227 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
12248 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:13136 original size:21 final size:21
Alignment explanation
Indices: 13103--13143 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13093 TCATGTTAAC
13103 AAGCCATGATTCATGCATTTT
1 AAGCCATGATTCATGCATTTT
* *
13124 AAGCTATGCTTCATGCATTT
1 AAGCCATGATTCATGCATTT
13144 ATGACATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (21 bp):
AAGCCATGATTCATGCATTTT
Found at i:17301 original size:4 final size:4
Alignment explanation
Indices: 17294--17318 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17284 AAACAGATAT
17294 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
17319 CACCTCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:19491 original size:28 final size:29
Alignment explanation
Indices: 19446--19500 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
19436 CGATGATTAG
*
19446 AAAAAAAATGGGGATTGGAGTATCCCCTC
1 AAAAAAAACGGGGATTGGAGTATCCCCTC
*
19475 AAAAATAACGGGG-TTGGAGTATCCCC
1 AAAAAAAACGGGGATTGGAGTATCCCC
19501 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (29 bp):
AAAAAAAACGGGGATTGGAGTATCCCCTC
Found at i:19498 original size:78 final size:78
Alignment explanation
Indices: 19398--19582 Score: 194
Period size: 78 Copynumber: 2.4 Consensus size: 78
19388 TGTTCCCTTG
* * * * * *
19398 AAAATAACTGGGCTGGAATATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATG-GGGAT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAA-GCGGGAT
19461 TGGAGTATCCCCTCA
64 TGGAGTATCCCCTCA
* * ** * *
19476 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAG-CGGGATT
*
19541 GGAGTATCCCCTCG
65 GGAGTATCCCCTCA
* *
19555 GAAGTAACGGGGTTGGAGTATCCCCGAT
1 AAAATAACGGGGTTGGAGTATCCCCGAT
19583 GAAATAACGA
Statistics
Matches: 88, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
77 2 0.02
78 43 0.49
79 43 0.49
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (78 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAGCGGGATTG
GAGTATCCCCTCA
Found at i:19574 original size:28 final size:28
Alignment explanation
Indices: 19534--19605 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
19524 GGAATAAAGC
** *
19534 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
19562 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
19590 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
19606 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:19658 original size:52 final size:51
Alignment explanation
Indices: 19593--19862 Score: 241
Period size: 52 Copynumber: 5.4 Consensus size: 51
19583 GAAATAACGA
* * * *
19593 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTAGT-GTTTTGAAAATAAAATCGG
* * * * *
19645 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAATCGG
* ** *
19697 GGTTGGAGTATCCCCGATTGCGGAAAAATTAGTGTTTT-AGCAATAAAATCGG
1 GGTTGGAGTATCCTCGATT-ATGAAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * *
19749 GGTTGGAGTATCC-CTGATTATGAAAAATCAATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCTC-GATTATGAAAAATTAGTGTTTTGAAAATAAAATCGG
* * * *
19800 GGTTGGAGTATCCT-GA-TATG-AAAATCAAT-ATTTG-AAAT-AAGTCGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGG
*
19845 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCTCGAT
19863 GATTAACGGG
Statistics
Matches: 186, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
45 20 0.11
46 6 0.03
47 4 0.02
48 9 0.05
49 4 0.02
50 2 0.01
51 38 0.20
52 93 0.50
53 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:19977 original size:51 final size:52
Alignment explanation
Indices: 19873--19997 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 52
19863 GATTAACGGG
* *
19873 GTTGGAGTATCCCCGATTGCGA-AGAAATTGGTGGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT---ATAGAAATTAGTGGTTTTTGAAAATAAAATCGGA
19927 GTTGGAGTATCCCCGATTATAGAAAATTAGT-G-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAG-AAATTAGTGGTTTTTGAAAATAAAATCGGA
*
19978 GTTGGAATATCCCCGATTAT
1 GTTGGAGTATCCCCGATTAT
19998 GGAGAATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
51 38 0.58
52 3 0.05
53 7 0.11
54 18 0.27
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATAGAAATTAGTGGTTTTTGAAAATAAAATCGGA
Found at i:22323 original size:13 final size:13
Alignment explanation
Indices: 22305--22330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22295 ACAAAGATCC
22305 ATGTATCGATACA
1 ATGTATCGATACA
22318 ATGTATCGATACA
1 ATGTATCGATACA
22331 CAGAAAAATG
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:22342 original size:33 final size:33
Alignment explanation
Indices: 22284--22350 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
22274 AAAATGCCTG
***
22284 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
* *
22317 AATGTATCGATACACAGAAAAATGTATTGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
22350 A
1 A
22351 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:26275 original size:79 final size:78
Alignment explanation
Indices: 26144--26520 Score: 373
Period size: 79 Copynumber: 4.8 Consensus size: 78
26134 GACGGGGCTA
* * * * * *
26144 GAGTACCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCTCTTGG
1 GAGTATCCCTGATTAT-GAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
26209 AAATAACAGGGTTG
65 AAATAACAGGGTTG
* * * *
26223 GAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAATATCCCCTCAA
1 GAGTATCCCTGATTAT-GAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
*
26288 AAATAACGGGGTTG
65 AAATAACAGGGTTG
* ** * * * *
26302 GAGTATCCCTGATTGTGAGAAATCAATATTTT-AGTAATAAAACCGGGGTTGGAGTATCCCTTCG
1 GAGTATCCCTGATTATGA-AAATCGGTGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCG
* *
26366 GAAATAACGGGGTTG
64 AAAATAACAGGGTTG
* * * ** * *
26381 GAGTATCCCCGATTGTGGGAAATCAATATTTT-AGAAAT-AAAGCTGGGGTTGGAGTATCCCCTC
1 GAGTATCCCTGATTAT-GAAAATCGGTGTTTTGA-AAATAAAATC-GGGGTTGGAGTATCCCCTC
26444 GAAAATAACAGGGTTG
63 GAAAATAACAGGGTTG
* * * * *
26460 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTCGGAGTATCCCC
1 GAGTATCCCTGATTATG-AAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
26521 GATTATAGAA
Statistics
Matches: 250, Mismatches: 41, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
78 8 0.03
79 237 0.95
80 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (78 bp):
GAGTATCCCTGATTATGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTG
Found at i:26499 original size:158 final size:157
Alignment explanation
Indices: 26144--26519 Score: 434
Period size: 158 Copynumber: 2.4 Consensus size: 157
26134 GACGGGGCTA
* *
26144 GAGTA-CCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCTCTTG
1 GAGTATCCCC-GATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCC-CTTG
* *** *
26208 GAAATAACAGGGTTGGAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
64 GAAATAACAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCGGGGTT
*
26273 GGAATATCCCCTCAAAAATAACGGGGTTG
129 GGAATATCCCCTCAAAAATAACAGGGTTG
* * * ** * * * *
26302 GAGTATCCCTGATTGTGAGAAATCAATATTTTAGTAATAAAACCGGGGTTGGAGTATCCCTTCGG
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTT-GG
* * * * * *
26367 AAATAACGGGGTTGGAGTATCCCCGATTGTGGGAAATCAATATTTT-AGAAAT-AAAGCTGGGGT
65 AAATAACAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGA-AAATAAAATC-GGGGT
* *
26430 TGGAGTATCCCCTCGAAAATAACAGGGTTG
128 TGGAATATCCCCTCAAAAATAACAGGGTTG
* * *
26460 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTCGGAGTATCCC
1 GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCC
26520 CGATTATAGA
Statistics
Matches: 177, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
157 8 0.05
158 166 0.94
159 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (157 bp):
GAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTGGA
AATAACAGGGTTGGAGTATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCGGGGTTGG
AATATCCCCTCAAAAATAACAGGGTTG
Found at i:26519 original size:51 final size:51
Alignment explanation
Indices: 26459--26637 Score: 243
Period size: 51 Copynumber: 3.5 Consensus size: 51
26449 TAACAGGGTT
*
26459 GGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTC
1 GGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTC
* *
26510 GGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGGGGTC
1 GGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGAAAATAAAATCGGAGTC
** * * * * * *
26561 AAAGTATCCCTGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCAGAGTT
1 GGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTC
26612 GGAGTATCCCCGATTATGAAAAATTG
1 GGAGTATCCCCGATTATGAAAAATTG
26638 AGAAACTTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 1 0.01
51 107 0.99
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTC
Found at i:28956 original size:20 final size:20
Alignment explanation
Indices: 28933--28999 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
28923 TACATTATAA
28933 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
28953 AATGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
28966 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
28986 AATGTATCGATACA
1 AATGTATCGATACA
29000 TTGCAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.25
14 1 0.03
15 2 0.05
18 2 0.05
19 1 0.03
20 24 0.60
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:28968 original size:13 final size:13
Alignment explanation
Indices: 28952--28982 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
28942 ATACAATGAG
28952 CAATGTATCGATA
1 CAATGTATCGATA
28965 CAATGTATCGATA
1 CAATGTATCGATA
28978 CAATG
1 CAATG
28983 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:28975 original size:33 final size:33
Alignment explanation
Indices: 28933--28999 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
28923 TACATTATAA
28933 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
28966 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
28999 A
1 A
29000 TTGCAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:29076 original size:13 final size:13
Alignment explanation
Indices: 29058--29082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29048 ATAAAGATCG
29058 ATGTATCGATACC
1 ATGTATCGATACC
29071 ATGTATCGATAC
1 ATGTATCGATAC
29083 ATTGAATAAT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACC
Found at i:33970 original size:59 final size:59
Alignment explanation
Indices: 33729--34793 Score: 1548
Period size: 59 Copynumber: 18.2 Consensus size: 59
33719 TGGAGGATTC
* * *
33729 GACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * *
33788 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGG
* **
33849 GACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGG
33904 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * *
33963 GATGCCTTTTCTTTTAAAGACCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
*
34022 GACTCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * *
34081 GATGCCTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
34140 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
34199 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * * *
34258 GACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGCACCTTTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * * *
34317 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGG
* ** *
34378 GACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGG
* * **
34433 GAC-AC----CTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGG
34488 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * *
34547 GATGCCTTTTCTTTTAAAGACCACACAAGTTGGTGGCACCTTCAGTCCTCAAACAGCGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* *
34606 GACGCCTTTTCTTTTAAAGGCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAACGG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * *
34665 GACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAG
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * **
34724 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAG
1 GACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGG
34785 GACGCCTTT
1 GACGCCTTT
34794 CAAAGCCCAC
Statistics
Matches: 917, Mismatches: 67, Indels: 42
0.89 0.07 0.04
Matches are distributed among these distances:
51 1 0.00
54 5 0.01
55 132 0.14
56 5 0.01
59 574 0.63
60 132 0.14
61 68 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
Found at i:34556 original size:407 final size:408
Alignment explanation
Indices: 33729--34849 Score: 1647
Period size: 407 Copynumber: 2.7 Consensus size: 408
33719 TGGAGGATTC
* * * * *
33729 GACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCT
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
* *
33794 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC-TTT
66 TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * * * *
33858 C----AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTT
129 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGATGCTTTTTCTTT
* *
33918 T-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAA
192 TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC----AAA
* ** * *
33981 GACCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCGGGACTCCTTTTCTTTTAAAGCCCA
252 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACTAC---TCTTTTAAAGCCCA
* *
34045 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCTACACAAG
314 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAG
*
34110 TTGGTGGCACTTTCAGTCCTCAAAGAGCGG
379 TTGGTGGCACCTTCAGTCCTCAAAGAGCGG
34140 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
34205 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
66 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
*
34270 TTTAAAGCCCACCCAAGTCGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
131 TTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* *
34335 AGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
196 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
*
34400 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC-CTTTTAAAGCCCACACAGGTTGGTG
261 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACTACTCTTTTAAAGCCCACACAAGTTGGTG
**
34463 GCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
326 GCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
34528 TTCAGTCCTCAAAGAGCGG
390 TTCAGTCCTCAAAGAGCGG
* * *
34547 GATGCCTTTTCTTTTAAAGACCACACAAGTTGGTGGCACCTTCAGTCCTCAAACAGCGGGACGCC
1 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
* *
34612 TTTTCTTTTAAAGGCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAACGGGACGCCTTTTCT
66 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
* *
34677 TTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
131 TTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* **
34742 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACATG
196 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
* * * *
34807 AGTTGGTGGCACTTTT-TACTCCTCAATGAGCAGGA-TACACTTT
261 AGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACTACTCTTT
34850 ATTTTCCTCG
Statistics
Matches: 653, Mismatches: 44, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
406 29 0.04
407 349 0.53
408 8 0.01
409 23 0.04
410 52 0.08
411 90 0.14
413 28 0.04
414 50 0.08
415 24 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (408 bp):
GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
TTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACTACTCTTTTAAAGCCCACACAAGTTGGTG
GCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
TCAGTCCTCAAAGAGCGG
Found at i:35520 original size:21 final size:21
Alignment explanation
Indices: 35496--35551 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
35486 AATTTATCCA
35496 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
35517 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
35538 AATGTATCGATACA
1 AATGTATCGATACA
35552 GGGTCCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:35614 original size:22 final size:24
Alignment explanation
Indices: 35583--35628 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35573 TTGAAATTCA
*
35583 ACAATTGTATCGAT-GATAAGTTT
1 ACAATTGTATCGATACATAAGTTT
35606 ACAA-TGTATCGATACATAAGTTT
1 ACAATTGTATCGATACATAAGTTT
35629 TGTATCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (24 bp):
ACAATTGTATCGATACATAAGTTT
Found at i:35652 original size:20 final size:19
Alignment explanation
Indices: 35610--35663 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
35600 AAGTTTACAA
35610 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
35629 TGTATCGATATCGATAAG-TT
1 TGTATCGATA-C-ATAAGTTT
35649 TGTATCGATACATAA
1 TGTATCGATACATAA
35664 TTAGCTACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
20 13 0.39
21 5 0.15
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:35721 original size:13 final size:13
Alignment explanation
Indices: 35703--35728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35693 CATTTTTCTG
35703 TATATCGATACAT
1 TATATCGATACAT
35716 TATATCGATACAT
1 TATATCGATACAT
35729 GGATCTTTGT
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:0.08, T:0.38
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:36785 original size:34 final size:35
Alignment explanation
Indices: 36747--36813 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
36737 CCTTACAACA
36747 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
36781 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
36814 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:37289 original size:13 final size:13
Alignment explanation
Indices: 37271--37296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37261 CAATTTTTTG
37271 TGTATCGATACAT
1 TGTATCGATACAT
37284 TGTATCGATACAT
1 TGTATCGATACAT
37297 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:37361 original size:21 final size:21
Alignment explanation
Indices: 37335--37410 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
37325 CTGCCAAGAA
37335 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
***
37356 ATGTATCGATAC-T-TTGCAAC
1 ATGTATCGATACATCTT-TTTC
37376 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
37397 ATGTATCGATACAT
1 ATGTATCGATACAT
37411 TGCAACATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 14 0.30
21 28 0.61
22 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:37380 original size:20 final size:20
Alignment explanation
Indices: 37355--37451 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
37345 ACATCTTTTT
37355 CATGTATCGATACTTTGCAA
1 CATGTATCGATACTTTGCAA
***
37375 CATGTATCGATACATCTT-TTT
1 CATGTATCGATAC-T-TTGCAA
*
37396 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
37416 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
**
37435 TTGTGTATCGATACTTT
1 -CATGTATCGATACTTT
37452 TAAGGGTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.06
20 43 0.68
21 14 0.22
22 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:37392 original size:41 final size:41
Alignment explanation
Indices: 37335--37428 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
37325 CTGCCAAGAA
*
37335 ATGTATCGATACATCTTTTTCATGTATCGATACTTTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
37376 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
37417 ATGTATCGATAC
1 ATGTATCGATAC
37429 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:39355 original size:13 final size:13
Alignment explanation
Indices: 39337--39361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39327 ACTGAAGCAA
39337 TGTATCGATACAT
1 TGTATCGATACAT
39350 TGTATCGATACA
1 TGTATCGATACA
39362 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42611 original size:34 final size:35
Alignment explanation
Indices: 42573--42639 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
42563 CCTTACAACA
42573 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
42607 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
42640 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:43115 original size:13 final size:13
Alignment explanation
Indices: 43097--43122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43087 CAATTTTTTG
43097 TGTATCGATACAT
1 TGTATCGATACAT
43110 TGTATCGATACAT
1 TGTATCGATACAT
43123 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:43190 original size:21 final size:21
Alignment explanation
Indices: 43161--43236 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
43151 CTGCCAAGAA
43161 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
* ***
43182 ATATATCGATAC-T-TTGCAAC
1 ATGTATCGATACATCTT-TTTC
43202 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
43223 ATGTATCGATACAT
1 ATGTATCGATACAT
43237 TGCAACATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 27 0.61
22 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:43210 original size:20 final size:20
Alignment explanation
Indices: 43185--43277 Score: 91
Period size: 20 Copynumber: 4.6 Consensus size: 20
43175 CTTTTTCATA
43185 TATCGATACTTTGCAACATG
1 TATCGATACTTTGCAACATG
***
43205 TATCGATACATCTT-TTTCATG
1 TATCGATAC-T-TTGCAACATG
*
43226 TATCGATACATTGCAACATG
1 TATCGATACTTTGCAACATG
**
43246 TATCGATACTTTG-AATTGTG
1 TATCGATACTTTGCAA-CATG
43266 TATCGATACTTT
1 TATCGATACTTT
43278 TAAGGGTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.07
20 39 0.66
21 14 0.24
22 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACTTTGCAACATG
Found at i:43218 original size:41 final size:41
Alignment explanation
Indices: 43161--43254 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
43151 CTGCCAAGAA
*
43161 ATGTATCGATACATCTTTTTCATATATCGATACTTTGCAAC
1 ATGTATCGATACATCTTTTTCATATATCGATACATTGCAAC
*
43202 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATATATCGATACATTGCAAC
43243 ATGTATCGATAC
1 ATGTATCGATAC
43255 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATATATCGATACATTGCAAC
Found at i:45126 original size:51 final size:53
Alignment explanation
Indices: 45062--45192 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
45052 AGTTTCTCAA
* * * *
45062 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
45113 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
45167 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
45193 CCCGTTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:45201 original size:51 final size:49
Alignment explanation
Indices: 45059--45204 Score: 143
Period size: 51 Copynumber: 2.9 Consensus size: 49
45049 TTGAGTTTCT
* * *
45059 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAACAC
* * *
45110 TAATT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCG--TTTATTTCC--AAAACAC
*
45163 CAATTTCTTCACAATCGGGGATACTCCAACCCCG-TTATTTCC
1 CAA-TTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCC
45205 GAGGGGATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.03
51 43 0.54
53 9 0.11
54 23 0.29
55 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (49 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCCAAAACAC
Found at i:45280 original size:52 final size:50
Alignment explanation
Indices: 45207--45376 Score: 155
Period size: 52 Copynumber: 3.3 Consensus size: 50
45197 TTATTTCCGA
* * *
45207 GGGGATACTCTAACCCTGGTTTTATCTCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTC-GGTTTTAT-TCTAAAACACCAATTTTTCCACAATC
* * **
45259 GGGGATACTCCAATCTCGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CTCGGTTTTATTCT-AAAACACCAATTTTTCC-ACAATC
* * *
45311 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACT-CGGTTTTA-TT-CTAAAACACCAATTTTTCCACAATC
*
45363 GAGGATACTCCAAC
1 GGGGATACTCCAAC
45377 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 13 0.14
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACTCGGTTTTATTCTAAAACACCAATTTTTCCACAATC
Found at i:45396 original size:28 final size:28
Alignment explanation
Indices: 45360--45436 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
45350 ATTTTTCACA
* * *
45360 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
45388 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
45416 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
45437 ATTTTTTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:57930 original size:14 final size:12
Alignment explanation
Indices: 57910--57963 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
57900 ACCTTCTCTT
57910 CAAAAAAAAAGAG
1 CAAAAAAAAA-AG
57923 CAAAAAAAAAAG
1 CAAAAAAAAAAG
57935 CAAAAAAAAAA-
1 CAAAAAAAAAAG
*
57946 CAAAACAAAAAAA
1 CAAAA-AAAAAAG
57959 CAAAA
1 CAAAA
57964 CAAAGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.13
12 19 0.49
13 15 0.38
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAG
Found at i:57931 original size:15 final size:14
Alignment explanation
Indices: 57911--57973 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 14
57901 CCTTCTCTTC
*
57911 AAAAAAAAAGAGC-
1 AAAAAAAAAAAGCA
57924 -AAAAAAAAAAGCAA
1 AAAAAAAAAAAGC-A
*
57938 AAAAAAAACAAAACA
1 AAAAAAAA-AAAGCA
*
57953 AAAAAACAAAA-CA
1 AAAAAAAAAAAGCA
*
57966 AAGAAAAA
1 AAAAAAAA
57974 GAGAGAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 11 0.27
13 8 0.20
14 3 0.07
15 15 0.37
16 4 0.10
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGCA
Found at i:57939 original size:8 final size:8
Alignment explanation
Indices: 57927--57973 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
57917 AAAGAGCAAA
57927 AAAAAAAGC
1 AAAAAAA-C
57936 AAAAAAA-
1 AAAAAAAC
57943 AAACAAAAC
1 AAA-AAAAC
57952 AAAAAAAC
1 AAAAAAAC
*
57960 AAAACAAAG
1 AAAA-AAAC
57969 AAAAA
1 AAAAA
57974 GAGAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 3 0.09
8 14 0.41
9 17 0.50
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:57943 original size:11 final size:11
Alignment explanation
Indices: 57912--57956 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
57902 CTTCTCTTCA
57912 AAAAAAAAGAGC
1 AAAAAAAA-AGC
57924 AAAAAAAAAAGC
1 -AAAAAAAAAGC
*
57936 AAAAAAAAAAC
1 AAAAAAAAAGC
57947 AAAACAAAAA
1 AAAA-AAAAA
57957 AACAAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 14 0.47
12 8 0.27
13 8 0.27
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:57967 original size:13 final size:12
Alignment explanation
Indices: 57910--57963 Score: 65
Period size: 13 Copynumber: 4.4 Consensus size: 12
57900 ACCTTCTCTT
*
57910 CAAAAAAAAAGAG
1 CAAAAAAAAA-AA
*
57923 CAAAAAAAAAAG
1 CAAAAAAAAAAA
57935 C-AAAAAAAAAA
1 CAAAAAAAAAAA
57946 CAAAACAAAAAAA
1 CAAAA-AAAAAAA
57959 CAAAA
1 CAAAA
57964 CAAAGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
11 10 0.26
12 6 0.16
13 22 0.58
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:59037 original size:27 final size:27
Alignment explanation
Indices: 59007--59092 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
58997 TTGGTGGCAT
59007 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
59034 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
59062 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
59089 TTTC
1 TTTC
59093 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:59225 original size:59 final size:59
Alignment explanation
Indices: 58978--60311 Score: 1678
Period size: 59 Copynumber: 23.0 Consensus size: 59
58968 AGTAGGAAAC
* * ** *
58978 CTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
** *
59037 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
59092 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAGAGAGCAGGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
59145 C--TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
59202 CTTTTAAAGACCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
59261 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
59320 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
59380 C----AAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
59431 CTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* *
59491 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
59550 CTTTTAAAGACCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCGGGACTCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* *
59609 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
59668 CTTTTAAAGCCTACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
59727 CTTTTAAAGACCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * * *
59786 CTTTTAAAGCCCACCCAAGTCGGTGGCACCTTTAATCCTCAAAGAGCATGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
59845 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTT
** *
59905 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * *
59956 CTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* *
60016 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
60075 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
60134 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
60193 CTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
*
60252 CTTTTCAAAGCCCACACATGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTT
60312 CAAAGCCCAC
Statistics
Matches: 1155, Mismatches: 85, Indels: 68
0.88 0.06 0.05
Matches are distributed among these distances:
51 2 0.00
53 2 0.00
54 25 0.02
55 302 0.26
56 2 0.00
57 2 0.00
58 3 0.00
59 612 0.53
60 138 0.12
61 67 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:60136 original size:525 final size:525
Alignment explanation
Indices: 58978--60311 Score: 2169
Period size: 525 Copynumber: 2.6 Consensus size: 525
58968 AGTAGGAAAC
* * ** * **
58978 CTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC-TTTC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGATGCCTTTTCTTTT
* *
59038 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGC
65 AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGC
** * * * *
59098 CCACACAAGTTGGTGGCATTTTCCAGTCCTTAGAGAGCAGGACACC---TC--TTAAAGCCCACA
129 CCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACA
*
59158 CAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGACCACACAAGTT
193 CAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGACCACACAAGTT
* *
59223 GGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGC
258 GGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGC
*
59288 ACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
323 ACCTTTAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
59353 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTCA
388 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTCA
59418 AAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
453 AAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGA
59483 CGCCTTTT
518 CGCCTTTT
59491 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
* *
59556 AAGACCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCGGGACTCCTTTTCTTTTAAAGCCC
66 AAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCC
* *
59621 ACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCTACACAA
131 ACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAA
* *
59686 GTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGACCACACAAGTTGGT
196 GTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGACCACACAAGTTGGT
59751 GGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGCACC
261 GGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGCACC
* *
59816 TTTAATCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTA
326 TTTAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
*
59881 GTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
391 GTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTCAAAG
*
59946 AGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGC
456 AGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
60011 CTTTT
521 CTTTT
60016 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
*
60081 AAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCC
66 AAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCC
* *
60145 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCG
130 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACA
* * * * *
60210 AGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACATGTTG
195 AGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCATTTTCTTTT-AAAGACCACACAAGTTG
60275 GTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
259 GTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTT
60312 CAAAGCCCAC
Statistics
Matches: 762, Mismatches: 41, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
512 20 0.03
513 32 0.04
516 24 0.03
517 26 0.03
520 18 0.02
521 25 0.03
523 2 0.00
525 561 0.74
526 26 0.03
527 28 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (525 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTA
AAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCC
ACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAA
GTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGACCACACAAGTTGGT
GGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGCACC
TTTAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTCAAAG
AGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
CTTTT
Found at i:60350 original size:407 final size:405
Alignment explanation
Indices: 59034--60340 Score: 1910
Period size: 407 Copynumber: 3.2 Consensus size: 405
59024 GCAGGACACC
*
59034 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
* * *
59099 CACACAAGTTGGTGGCATTTTCCAGTCCTTAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTT
66 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
*
59164 GGTGGCACCTT-CAGTCCTCAAAGAGCGGGA-CACATTTTCTTTTAAAGACCACACAAGTTGGTG
131 GGTGGCA-CTTCCAGTCCTCAAAGAGCGGGATC-C-TTTTCTTTTAAAGCCCACACAAGTTGGTG
* *
59227 GCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCT
193 GCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
59292 TTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
258 TCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * * **
59357 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGCCATTTTCCAGTCCTC
321 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTC
**
59417 AAAGAGCAGGA--C---ACCT
385 AAAGAGCAGGATGCTTTTTCT
* * * *
59433 TTT-AAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACC-TTTC----A
** * *
59497 AAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGATGC-CTTTTCTTTTAAAGA
61 AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--CAC----CTTTTAAAGC
59560 CCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCGGGACTCCTTTTCTTTTAAAGCCCACAC
120 CCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCGGGA-TCCTTTTCTTTTAAAGCCCACAC
*
59625 AAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCTACACAAGTTG
184 AAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTG
* *
59690 GTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGACCACACAAGTTGGTGGCA
249 GTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
59755 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTCGGTGGCACCTTTA
314 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCA
* *
59820 ATCCTCAAAGAGCATGATGCTTTTTCT
379 GTCCTCAAAGAGCAGGATGCTTTTTCT
*
59847 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
*
59911 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGT
65 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGT
*
59976 TGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTG
130 TGGTGGCA-CTTCCAGTCCTCAAAGAGCGGGAT-CCTTTTCTTTTAAAGCCCACACAAGTTGGTG
60041 GCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
193 GCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
60106 TCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
258 TCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
* *
60171 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAA
323 CTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAA
60236 GAGCAGGATGCTTTTTCT
388 GAGCAGGATGCTTTTTCT
* *
60254 TTTCAAAGCCCACACATGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
* *
60318 CCACACGAGTTGATGGCACTTTT
65 CCACACAAGTTGGTGGCA-TTTT
60341 TACTCCTCAA
Statistics
Matches: 821, Mismatches: 56, Indels: 53
0.88 0.06 0.06
Matches are distributed among these distances:
398 48 0.06
399 7 0.01
402 16 0.02
403 26 0.03
404 1 0.00
405 24 0.03
406 58 0.07
407 497 0.61
408 5 0.01
409 18 0.02
410 48 0.06
411 19 0.02
414 9 0.01
415 42 0.05
416 3 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (405 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTT
GGTGGCACTTCCAGTCCTCAAAGAGCGGGATCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
CCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
GTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
CAGGATGCTTTTTCT
Found at i:61037 original size:21 final size:21
Alignment explanation
Indices: 61011--61067 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
61001 AAATTATCCA
61011 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
61032 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
61053 AATGTATCGATACAT
1 AATGTATCGATACAT
61068 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:61216 original size:13 final size:13
Alignment explanation
Indices: 61198--61223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61188 CATTTTTCTG
61198 TGTATCGATACAT
1 TGTATCGATACAT
61211 TGTATCGATACAT
1 TGTATCGATACAT
61224 GGATCTTTGT
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:61220 original size:33 final size:33
Alignment explanation
Indices: 61178--61244 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
61168 GCCAAGGAAA
***
61178 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
61211 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
61244 T
1 T
61245 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:63646 original size:51 final size:51
Alignment explanation
Indices: 63579--63868 Score: 289
Period size: 52 Copynumber: 5.6 Consensus size: 51
63569 TTGAGTTTCT
* * * *
63579 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
63630 TAATTTTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
* * ** *
63683 CAA-TTTCTTCACAATCGGGGATACTCCAACCCCGGTTTTATCACTAAAACAC
1 CAATTTTC-T-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * *
63735 TAATTTTTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGC
1 CAA-TTTTCTACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACAC
** *
63787 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTT-CTACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
*
63840 CAATTTT-TCACAATCGAGGATACTCCAAC
1 CAATTTTCT-ACAATCGGGGATACTCCAAC
63869 CTCGTTATTT
Statistics
Matches: 194, Mismatches: 34, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
51 42 0.22
52 97 0.50
53 23 0.12
54 32 0.16
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCTACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:63826 original size:104 final size:103
Alignment explanation
Indices: 63588--63868 Score: 302
Period size: 105 Copynumber: 2.7 Consensus size: 103
63578 TCAATTCTCC
* ** * *
63588 ACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTATAATCGGGGATA
1 ACAATCGGGGATACTCCAACTCCGATTTTATCCT-AAAACACTAATTTTTCCACAATCGGGGATA
*
63652 CTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 CTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTCTT
* *
63692 CACAATCGGGGATACTCCAACCCCGGTTTTATCACTAAAACACTAATTTTTCCACAATCGGGGAT
1 -ACAATCGGGGATACTCCAACTCCGATTTTATC-CTAAAACACTAATTTTTCCACAATCGGGGAT
* * *
63757 ACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATTTTCCTT
64 ACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-TTT-CTT
* * * * *
63798 -TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCGAGGAT
1 ACAATCGGGGATACTCCAACTCCGATTTTA--TCCTAAAACACTAATTTTTCCACAATCGGGGAT
63861 ACTCCAAC
64 ACTCCAAC
63869 CTCGTTATTT
Statistics
Matches: 150, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
104 54 0.36
105 56 0.37
106 40 0.27
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (103 bp):
ACAATCGGGGATACTCCAACTCCGATTTTATCCTAAAACACTAATTTTTCCACAATCGGGGATAC
TCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTT
Found at i:63888 original size:28 final size:28
Alignment explanation
Indices: 63852--63928 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
63842 ATTTTTCACA
* * *
63852 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
63880 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
63908 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
63929 ATTTTTTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:65176 original size:20 final size:20
Alignment explanation
Indices: 65150--65202 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
65140 GTAGCCAAAC
* *
65150 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
65169 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
65190 TTGTATCGATACA
1 TTGTATCGATACA
65203 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:68752 original size:13 final size:13
Alignment explanation
Indices: 68734--68758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68724 CAAAGATCAG
68734 TGTATCGATACAA
1 TGTATCGATACAA
68747 TGTATCGATACA
1 TGTATCGATACA
68759 TTTAAGTGAT
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:68840 original size:13 final size:13
Alignment explanation
Indices: 68822--68846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68812 AAAAAAAATA
68822 TGTATCGATACAT
1 TGTATCGATACAT
68835 TGTATCGATACA
1 TGTATCGATACA
68847 ACACTTTATG
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:69382 original size:13 final size:13
Alignment explanation
Indices: 69364--69388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69354 GGAAATTCAA
69364 TGTATCGATACAC
1 TGTATCGATACAC
69377 TGTATCGATACA
1 TGTATCGATACA
69389 GGGGGATTAT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:71999 original size:21 final size:21
Alignment explanation
Indices: 71952--72005 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
71942 GTAGCCAAAC
* **
71952 TTGTATCGATACACCAAAGTA
1 TTGTATCGATACACAAAAAAA
71973 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACACAAAAAAA
71993 TTGTATCGATACA
1 TTGTATCGATACA
72006 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (21 bp):
TTGTATCGATACACAAAAAAA
Found at i:73444 original size:22 final size:22
Alignment explanation
Indices: 73419--73493 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
73409 TATACTATAT
73419 ATTATTAAATAT-TTATTATTTA
1 ATTATTAAATATATTATT-TTTA
*
73441 ATTATTACAT-TATTATTTTTA
1 ATTATTAAATATATTATTTTTA
* * * *
73462 AATATTTAAATATAATATATTAA
1 ATTA-TTAAATATATTATTTTTA
*
73485 ATAATTAAA
1 ATTATTAAA
73494 ATTTTATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 8 0.19
22 24 0.57
23 10 0.24
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTATTAAATATATTATTTTTA
Found at i:73445 original size:36 final size:38
Alignment explanation
Indices: 73396--73483 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 38
73386 TATAAGTATT
73396 TTATATTATATTATATAC--TATATATTATTAAATATTTA
1 TTATATTATATTAT-TACATTAT-TATTATTAAATATTTA
*
73434 TTAT-TTA-ATTATTACATTATTATTTTTAAATATTTAA
1 TTATATTATATTATTACATTATTATTATTAAATATTT-A
* *
73471 ATATAATATATTA
1 TTATATTATATTA
73484 AATAATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
35 3 0.07
36 19 0.45
37 10 0.24
38 6 0.14
39 4 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (38 bp):
TTATATTATATTATTACATTATTATTATTAAATATTTA
Done.