Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold992
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: 92738
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:6498 original size:34 final size:35
Alignment explanation
Indices: 6460--6525 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
6450 CCTTACAATA
* *
6460 CTATCTTTT-CGACGGCTAAGATAAAACCTCTTCC
1 CTATCTTTTACAAAGGCTAAGATAAAACCTCTTCC
*
6494 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAAAACCTCT
6526 CAATCACTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAAAACCTCTTCC
Found at i:13956 original size:13 final size:13
Alignment explanation
Indices: 13938--13963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13928 CAATTTTTTG
13938 TGTATCGATACAT
1 TGTATCGATACAT
13951 TGTATCGATACAT
1 TGTATCGATACAT
13964 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:16363 original size:21 final size:21
Alignment explanation
Indices: 16339--16385 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
16329 TTTGATGCTG
16339 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
16359 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
16380 ATTTTG
1 ATTTTG
16386 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:18606 original size:15 final size:15
Alignment explanation
Indices: 18586--18616 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18576 ATTTCGTTTG
*
18586 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
18601 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
18616 G
1 G
18617 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:20449 original size:21 final size:21
Alignment explanation
Indices: 20420--20464 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20410 AAGTTTTCAT
*
20420 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
20440 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
20462 TTT
1 TTT
20465 CAACTTGTAA
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:22572 original size:13 final size:13
Alignment explanation
Indices: 22554--22579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22544 CAATTTTTTG
22554 TGTATCGATACAT
1 TGTATCGATACAT
22567 TGTATCGATACAT
1 TGTATCGATACAT
22580 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:25647 original size:20 final size:20
Alignment explanation
Indices: 25622--25659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25612 GTTGGGCTCA
*
25622 ATGTATCGATACAATTCACC
1 ATGTATCAATACAATTCACC
*
25642 ATGTATCAATAGAATTCA
1 ATGTATCAATACAATTCA
25660 ATCATGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCAATACAATTCACC
Found at i:25746 original size:19 final size:20
Alignment explanation
Indices: 25724--25767 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25714 TGGTGTATTC
*
25724 ATACAAAG-AACATGTATCG
1 ATACAAAGTAACATGTATCA
* *
25743 ATACCAAGTAATATGTATCA
1 ATACAAAGTAACATGTATCA
25763 ATACA
1 ATACA
25768 TCTGGGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (20 bp):
ATACAAAGTAACATGTATCA
Found at i:28700 original size:80 final size:79
Alignment explanation
Indices: 28592--29127 Score: 339
Period size: 80 Copynumber: 6.8 Consensus size: 79
28582 TCAAAAGGGG
* ** * * * *
28592 TACTCCAACTCTATTTTTACTTTTAAAACGTCAAATTTTTCATTTTTGAGGATAATCTAACCTAA
1 TACTCCAACCCTATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCTAACCTCA
28657 CCATCTTCGAGGAGA
66 CCATC-TCGAGGAGA
*
28672 TACTTCAACCCTATTTTTACTTCCAAAACA-CTAAATTTTTCATCTTTGAGGATACTCTAAACC-
1 TACTCCAACCCTATTTTTACTTCCAAAACATC-AAATTTTTCATCTTTGAGGATACTCT-AACCT
* **
28735 CACCATCTCTAAAAGGA
64 CACCATCTCGAGGA-GA
** * * *
28752 TACTTTAA-CCTCATTTTTACTTCCAAAACATTAAATTTTTCA-CTTTTGGGGATACTCCAA-CT
1 TACTCCAACCCT-ATTTTTACTTCCAAAACATCAAATTTTTCATC-TTTGAGGATACTCTAACCT
28814 GCCACCATCTCAGAAGG-GA
64 --CACCATCTC-G-AGGAGA
* * * **
28833 TACTCCAACCC-GTTTTTACTTCTAAAATATCAAAAATTTCATCTTTGAGGATACT-TCAATCC-
1 TACTCCAACCCTATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCT-AA-CCT
* *
28895 CACAATCTCTGA-GAGGG
64 CACCATCTC-GAGGA-GA
** * * * * * * *
28912 TACTTTAACCCCATTTTTACTTTCAAAACGTTAAAATTTTCATCTTTGGGGATACTCT-A-CT-T
1 TACTCCAACCCTATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCTAACCTCA
* *
28974 TC-T-TCGAGGGGA
66 CCATCTCGAGGAGA
* * * * * *
28986 TACTCCAACCCTTTTTTTACTTCTAAAACACCAAATTTTTCATCTCTG-GGATACTCCAACCCCA
1 TACTCCAACCCTATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCTAACCTCA
* * *
29050 CCATCTTTGAGGGGG
66 CCATC-TCGAGGAGA
* * * * ** ** * *
29065 TACTCTAACCTTGTTTTTTACTTTCAAAATGTTGAATTTTTCATCTTTGGGGATACTCCAACC
1 TACTCCAACCCT-ATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCTAACC
29128 CCACTGTCAA
Statistics
Matches: 353, Mismatches: 73, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
73 8 0.02
74 41 0.12
75 4 0.01
76 2 0.01
77 3 0.01
78 2 0.01
79 48 0.14
80 205 0.58
81 36 0.10
82 3 0.01
83 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (79 bp):
TACTCCAACCCTATTTTTACTTCCAAAACATCAAATTTTTCATCTTTGAGGATACTCTAACCTCA
CCATCTCGAGGAGA
Found at i:28793 original size:160 final size:157
Alignment explanation
Indices: 28604--29119 Score: 492
Period size: 160 Copynumber: 3.3 Consensus size: 157
28594 CTCCAACTCT
* * *
28604 ATTTTTACTTTTAAAACGTCAAATTTTTCATTTTTGAGGATAATCTAACCTAACCATCTTCGAGG
1 ATTTTTACTTTCAAAACGTTAAATTTTTCATTTTTGGGGATAATCTAA-CT-ACCATCTTCGAGG
* *
28669 AGATACTTCAACCCTATTTTTACTTCCAAAACACTAAATTTTTCATCTTTGAGGATACTCTAAAC
64 -GATACTCCAACCCTATTTTTACTTCTAAAACACTAAATTTTTCATCTTTGAGGATACTCTAAAC
*
28734 CCACCATCTCTAAAAGGATACTTTAACCTC
128 CCACCATCTCTAAAAGGATACTTTAACCCC
* * * * *
28764 ATTTTTACTTCCAAAACATTAAATTTTTCACTTTTGGGGATACTCCAACTGCCACCATC-TCAGA
1 ATTTTTACTTTCAAAACGTTAAATTTTTCATTTTTGGGGATAATCTAACT---ACCATCTTC-G-
* * **
28828 AGGGATACTCCAACCC-GTTTTTACTTCTAAAATA-TCAAAAATTTCATCTTTGAGGATACT-TC
61 AGGGATACTCCAACCCTATTTTTACTTCTAAAACACT-AAATTTTTCATCTTTGAGGATACTCT-
* * * * *
28890 AATCCCACAATCTCTGAGAGGGTACTTTAACCCC
124 AAACCCACCATCTCTAAAAGGATACTTTAACCCC
* * **
28924 ATTTTTACTTTCAAAACGTTAAAATTTTCATCTTTGGGGAT-A-CT--CTACTTTCTTCGAGGGG
1 ATTTTTACTTTCAAAACGTTAAATTTTTCATTTTTGGGGATAATCTAACTACCATCTTCGA-GGG
* * * * *
28985 ATACTCCAACCCTTTTTTTACTTCTAAAACACCAAATTTTTCATCTCTG-GGATACTCCAACCCC
65 ATACTCCAACCCTATTTTTACTTCTAAAACACTAAATTTTTCATCTTTGAGGATACTCTAAACCC
* * ** * * **
29049 ACCATCTTTGAGGGGGTACTCTAACCTTG
130 ACCATCTCTAAAAGGATACTTTAACC-CC
* * * *
29078 TTTTTTACTTTCAAAATGTTGAATTTTTCATCTTTGGGGATA
1 ATTTTTACTTTCAAAACGTTAAATTTTTCATTTTTGGGGATA
29120 CTCCAACCCC
Statistics
Matches: 295, Mismatches: 48, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
152 1 0.00
153 54 0.18
154 68 0.23
156 2 0.01
158 1 0.00
159 4 0.01
160 143 0.48
161 19 0.06
162 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (157 bp):
ATTTTTACTTTCAAAACGTTAAATTTTTCATTTTTGGGGATAATCTAACTACCATCTTCGAGGGA
TACTCCAACCCTATTTTTACTTCTAAAACACTAAATTTTTCATCTTTGAGGATACTCTAAACCCA
CCATCTCTAAAAGGATACTTTAACCCC
Found at i:29688 original size:11 final size:11
Alignment explanation
Indices: 29684--29714 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29674 AATAAAATAT
*
29684 TAATAATATAA
1 TAATAATAAAA
29695 TAATAATAAAA
1 TAATAATAAAA
29706 TAATAATAA
1 TAATAATAA
29715 TTAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:29690 original size:3 final size:3
Alignment explanation
Indices: 29674--29715 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
29664 AAATAAAAAA
*
29674 AAT AA- AAT ATT AAT AAT -AT AAT AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29716 TAATTAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29715 original size:14 final size:14
Alignment explanation
Indices: 29663--29715 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
29653 TAACATGAAA
* *
29663 AAAATAAAAAAAAT
1 AAAATAATAATAAT
29677 AAAAT-AT--TAAT
1 AAAATAATAATAAT
*
29688 AATATAATAATAAT
1 AAAATAATAATAAT
29702 AAAATAATAATAAT
1 AAAATAATAATAAT
29716 TAATTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 7 0.22
12 2 0.06
13 1 0.03
14 22 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:29960 original size:14 final size:14
Alignment explanation
Indices: 29937--30073 Score: 56
Period size: 14 Copynumber: 10.1 Consensus size: 14
29927 TTGCATACTG
29937 TTAC-TTTCATGCA
1 TTACATTTCATGCA
*
29950 TTACATTTCATACA
1 TTACATTTCATGCA
*
29964 -TGCATTTCATG--
1 TTACATTTCATGCA
*
29975 -TA-ATTTTCATTTCA
1 TTACA-TTTCA-TGCA
* *
29989 -TGCATTTCATACA
1 TTACATTTCATGCA
30002 TTACATTTCATGCA
1 TTACATTTCATGCA
* * *
30016 -TGCATTTCACGTAA
1 TTACATTTCATG-CA
* *
30030 TGTTCATTTCATGCG
1 T-TACATTTCATGCA
* * *
30045 TTTCGTTTCATGCT
1 TTACATTTCATGCA
*
30059 TTATATTTCATGCA
1 TTACATTTCATGCA
30073 T
1 T
30074 GTTTTCTTTC
Statistics
Matches: 92, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
10 1 0.01
11 6 0.07
12 1 0.01
13 25 0.27
14 48 0.52
15 2 0.02
16 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (14 bp):
TTACATTTCATGCA
Found at i:29988 original size:29 final size:27
Alignment explanation
Indices: 29953--30041 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 27
29943 TCATGCATTA
29953 CATTTCATACATGCATTTCATGTAATTTT
1 CATTTCAT-CATGCATTTCA-GTAATTTT
*
29982 CA-TT--TCATGCATTTCA-TACA-TTA
1 CATTTCATCATGCATTTCAGTA-ATTTT
*
30005 CATTTCATGCATGCATTTCACGTAATGTT
1 CATTTCAT-CATGCATTTCA-GTAATTTT
30034 CATTTCAT
1 CATTTCAT
30042 GCGTTTCGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
23 6 0.12
24 3 0.06
25 11 0.22
26 2 0.04
27 11 0.22
28 3 0.06
29 13 0.27
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (27 bp):
CATTTCATCATGCATTTCAGTAATTTT
Found at i:29997 original size:52 final size:52
Alignment explanation
Indices: 29941--30048 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
29931 ATACTGTTAC
* * *
29941 TTTCATGCATTACATTTCATACATGCATTTCATGTAATTTTCATTTCATGCA
1 TTTCATACATTACATTTCATACATGCATTTCACGTAATGTTCATTTCATGCA
* *
29993 TTTCATACATTACATTTCATGCATGCATTTCACGTAATGTTCATTTCATGCG
1 TTTCATACATTACATTTCATACATGCATTTCACGTAATGTTCATTTCATGCA
30045 TTTC
1 TTTC
30049 GTTTCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.45
Consensus pattern (52 bp):
TTTCATACATTACATTTCATACATGCATTTCACGTAATGTTCATTTCATGCA
Found at i:30505 original size:33 final size:32
Alignment explanation
Indices: 30444--30522 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
30434 TTGCTACTGC
* * *
30444 AAATGAATGCAATTGAAACATCAGTTC-AAGAG
1 AAATGAATGCAATCGAAACAGCAATTCAAAG-G
*
30476 AGAATGAATGCAATCGAAATAGCAATTCAAAGG
1 A-AATGAATGCAATCGAAACAGCAATTCAAAGG
30509 CAAATGAATGCAAT
1 -AAATGAATGCAAT
30523 AAAAACTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 1 0.03
33 35 0.88
34 4 0.10
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (32 bp):
AAATGAATGCAATCGAAACAGCAATTCAAAGG
Found at i:32218 original size:14 final size:15
Alignment explanation
Indices: 32193--32225 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
32183 ATAGGGGTAT
32193 GAAAAGTAAAAAATA
1 GAAAAGTAAAAAATA
32208 GAAAA-TAAAAAATA
1 GAAAAGTAAAAAATA
32222 -AAAA
1 GAAAA
32226 AATTTCGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
GAAAAGTAAAAAATA
Found at i:34918 original size:24 final size:24
Alignment explanation
Indices: 34886--34969 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 24
34876 ATGAAAAAGT
34886 TACATTTTTACCCAGATGTATCGA
1 TACATTTTTACCCAGATGTATCGA
*
34910 TACATTTTT---CA-ATATATCGA
1 TACATTTTTACCCAGATGTATCGA
34930 TACATTCTGTCTTTTTACCCAGATGTATCGA
1 TACA-------TTTTTACCCAGATGTATCGA
34961 TACATTTTT
1 TACATTTTT
34970 CAATATATCG
Statistics
Matches: 47, Mismatches: 2, Indels: 22
0.66 0.03 0.31
Matches are distributed among these distances:
20 12 0.26
21 2 0.04
24 14 0.30
27 5 0.11
30 2 0.04
31 12 0.26
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (24 bp):
TACATTTTTACCCAGATGTATCGA
Found at i:34966 original size:51 final size:51
Alignment explanation
Indices: 34890--35015 Score: 252
Period size: 51 Copynumber: 2.5 Consensus size: 51
34880 AAAAGTTACA
34890 TTTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
34941 TTTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
1 TTTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
34992 TTTTTACCCAGATGTATCGATACA
1 TTTTTACCCAGATGTATCGATACA
35016 AAATGTATCG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTGTC
Found at i:37907 original size:38 final size:38
Alignment explanation
Indices: 37856--37928 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
37846 AGACATAGGT
37856 TTCAATAGGCATCCGATCATGCCTACCCCAAAATGGGG
1 TTCAATAGGCATCCGATCATGCCTACCCCAAAATGGGG
* *
37894 TTCAATAGGCATCCGATCATGCTTAGCCCAAAATG
1 TTCAATAGGCATCCGATCATGCCTACCCCAAAATG
37929 ATCGGTGGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (38 bp):
TTCAATAGGCATCCGATCATGCCTACCCCAAAATGGGG
Found at i:39273 original size:114 final size:114
Alignment explanation
Indices: 39073--39313 Score: 403
Period size: 114 Copynumber: 2.1 Consensus size: 114
39063 GAATGTCAAA
*
39073 TTTGTCTGAGTTTCAAAGAAATTCATATTTTATACATTTCAATCCATTCGTACCTAGGAAATAGA
1 TTTGTCTGATTTTCAAAGAAATTCATATTTTATACATTTCAATCCATTCGTACCTAGGAAATAGA
* * *
39138 GCATGCATTTTTATTAGTTTTGAAATCTTTGAGCCTAAACAACATCTAC
66 GCATGCATCTTTATTAGTTTTGAAATATTTGAGCCTAAACAACATCCAC
* *
39187 TTTGTCTGATTTTCAAAGAAATTCATATTTTATACA-TTCTGATCCCTTCGTACCTAGGAAATAG
1 TTTGTCTGATTTTCAAAGAAATTCATATTTTATACATTTC-AATCCATTCGTACCTAGGAAATAG
39251 AGCATGCATCTTTATTAGTTTTGAAATATTTGAGCCTAAACAACATCCAC
65 AGCATGCATCTTTATTAGTTTTGAAATATTTGAGCCTAAACAACATCCAC
*
39301 TTTGTCTAATTTT
1 TTTGTCTGATTTT
39314 TGAAACTTAA
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 3 0.03
114 116 0.97
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (114 bp):
TTTGTCTGATTTTCAAAGAAATTCATATTTTATACATTTCAATCCATTCGTACCTAGGAAATAGA
GCATGCATCTTTATTAGTTTTGAAATATTTGAGCCTAAACAACATCCAC
Found at i:40488 original size:90 final size:89
Alignment explanation
Indices: 40330--40494 Score: 217
Period size: 90 Copynumber: 1.8 Consensus size: 89
40320 GAAAACATAG
* * * * * * *
40330 TTCCTAATCATATCCCTTTCACTCAGCCCTTAGATGGTATTGATGCATCACAAAGCTTGATTTCC
1 TTCCCAATCATATCCCTTTCACCCAACCCTTAGATGGTACTCATGCATCACAAAGCTCGATATCC
40395 TTGGGGGCAAGATGCAGCCCATACA
66 TT-GGGGCAAGATGCAGCCCATACA
*
40420 TTCCCAATCATATTCCC-TTCACCCAACCAC-TAGATGGTACTCATGTATCACAAAGCTCGATAT
1 TTCCCAATCATA-TCCCTTTCACCCAACC-CTTAGATGGTACTCATGCATCACAAAGCTCGATAT
40483 CCTTGGGGCAAG
64 CCTTGGGGCAAG
40495 GATAGCCCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
89 8 0.12
90 52 0.80
91 5 0.08
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (89 bp):
TTCCCAATCATATCCCTTTCACCCAACCCTTAGATGGTACTCATGCATCACAAAGCTCGATATCC
TTGGGGCAAGATGCAGCCCATACA
Found at i:41360 original size:44 final size:44
Alignment explanation
Indices: 41312--41469 Score: 196
Period size: 44 Copynumber: 3.6 Consensus size: 44
41302 CATTTCAGCG
41312 TGACGTATGGTTACCACCCTAGTCAAATTTTTCTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTTTTCTCATTCTGATT
* * *
41356 TGACGTGTGGTTACCACCCTAGTTAGATTTTTCTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTTTTCTCATTCTGATT
* * * * * *
41400 TGACATCTAGTTACCA-CCTCGTCAAATCCTCTTCT-TTTCTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAAT--TTTTCTCATTCTGATT
41443 TGACGTATGGTTACCACCCTAGTCAAA
1 TGACGTATGGTTACCACCCTAGTCAAA
41470 CTATGCTAAC
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 23 0.24
44 68 0.71
45 5 0.05
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTAGTCAAATTTTTCTCATTCTGATT
Found at i:41768 original size:85 final size:85
Alignment explanation
Indices: 41581--42073 Score: 456
Period size: 85 Copynumber: 5.8 Consensus size: 85
41571 TTTTATCCCC
* * * * * * *
41581 AGTCTGCCTGTCGGCTTTAACCTTAGAGACTTT-TTACCC-TCAGTCTGTCTGTCGGCTTTG-CC
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
** * *
41643 TCTAAAGACTGCCTCACCTTA
66 -CTGGAGACTACCTCACCTCA
* ** * * * * * ** *
41664 AGTCTGCCTGTCAATTTTGACCCTGGAGACTTTCTTACCCTTTAGTCTACTTGTTGGCTTTGACA
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
* * *
41729 CTGGAGATTGCCTTACCTCA
66 CTGGAGACTACCTCACCTCA
* * * * *
41749 AGTTTGCTTGTCCGCTTTGACCCTAGAGACTTTTTTACCC-TCATTCTGCTTATCAGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
*
41813 CTGGAGACTACCTCACCTTA
66 CTGGAGACTACCTCACCTCA
** * * * * * *
41833 AGTCCACTTGTCGGCTTTGAACTTAGAGATTTTCTTACCCTTCACTCTGCCTATCGGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
* *
41898 CTGGAGACTGCCTTACCTCA
66 CTGGAGACTACCTCACCTCA
* * * *
41918 AGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTCAGTTTGCCTATCAGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
* *
41983 CTAGAGACTACCTCATCTCA
66 CTGGAGACTACCTCACCTCA
* * * * * *
42003 AGTTTGCTTTTCAGATTTGACCCTAGAGACTTTCTTACCCTT-AGTTTGCCTATCGGCTTTAACC
1 AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
*
42067 TTGGAGA
66 CTGGAGA
42074 GTGGTCTACT
Statistics
Matches: 333, Mismatches: 73, Indels: 7
0.81 0.18 0.02
Matches are distributed among these distances:
83 27 0.08
84 96 0.29
85 209 0.63
86 1 0.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (85 bp):
AGTCTGCTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTGACC
CTGGAGACTACCTCACCTCA
Found at i:41815 original size:127 final size:128
Alignment explanation
Indices: 41663--42073 Score: 357
Period size: 127 Copynumber: 3.2 Consensus size: 128
41653 GCCTCACCTT
* ** * *
41663 AAGTCTGCCTGTCAATTTTGACCCTGGAGACTTTCTTACCCTTTAGTCTACTTGTTGGCTTTGAC
1 AAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTACCCTTAAGTCTACTTGTCGGCTTTGAC
* * * * *
41728 ACTGGAGATTGCCTTACCTCAAGTTTGCTTGTCCGCTTTGACCCTAGAGACTTTTTTACCCTC
66 ACTAGAGATTACCTTACCTCAAGTTTGCTTATCAGCTTTGACCCTAGAGACTTTCTTACCCTC
* * ** * *
41791 -ATTCTGCTTATCAGCTTTGACCCTGGAGACTACCTCA-CCTTAAGTCCACTTGTCGGCTTTGA-
1 AAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTACCCTTAAGTCTACTTGTCGGCTTTGAC
** * * * * * **
41853 ACTTAGAGATTTTCTTACCCTTC-ACTCTGCCTATCGGCTTTGACCCTGGAGACTGCCTTA-CCT
66 AC-TAGAGATTACCTTA-CC-TCAAGTTTGCTTATCAGCTTTGACCCTAGAGACTTTCTTACCCT
41916 C
128 C
* * * * * * * *
41917 AAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTCAGTTTGCCTATCAGCTTTGAC
1 AAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTACCCTTAAGTCTACTTGTCGGCTTTGAC
* * * * * *
41982 CCTAGAGACTACCTCATCTCAAGTTTGCTTTTCAGATTTGACCCTAGAGACTTTCTTACCCT-
66 ACTAGAGATTACCTTACCTCAAGTTTGCTTATCAGCTTTGACCCTAGAGACTTTCTTACCCTC
* * * * *
42044 TAGTTTGCCTATCGGCTTTAACCTTGGAGA
1 AAGTCTGCCTATCAGCTTTGACCCTGGAGA
42074 GTGGTCTACT
Statistics
Matches: 218, Mismatches: 57, Indels: 17
0.75 0.20 0.06
Matches are distributed among these distances:
125 2 0.01
126 39 0.18
127 143 0.66
128 33 0.15
129 1 0.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (128 bp):
AAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTACCCTTAAGTCTACTTGTCGGCTTTGAC
ACTAGAGATTACCTTACCTCAAGTTTGCTTATCAGCTTTGACCCTAGAGACTTTCTTACCCTC
Found at i:42049 original size:42 final size:42
Alignment explanation
Indices: 41679--42073 Score: 217
Period size: 42 Copynumber: 9.3 Consensus size: 42
41669 GCCTGTCAAT
* * * **
41679 TTTGACCCTGGAGACTTTCTTACCCTTTAGTCTACTTGTTGGC
1 TTTGACCCTGGAGACTTTCTTACCC-TTAGTTTGCTTATCAGC
* * * * *
41722 TTTGACACTGGAGA-TTGCCTTA-CCTCAAGTTTGCTTGTCCGC
1 TTTGACCCTGGAGACTT-TCTTACCCT-TAGTTTGCTTATCAGC
* * *
41764 TTTGACCCTAGAGACTTTTTTACCCTCA-TTCTGCTTATCAGC
1 TTTGACCCTGGAGACTTTCTTACCCTTAGTT-TGCTTATCAGC
** * *** * *
41806 TTTGACCCTGGAGACTACCTCA-CCTTAAGTCCACTTGTCGGC
1 TTTGACCCTGGAGACTTTCTTACCCTT-AGTTTGCTTATCAGC
* * * * * * * *
41848 TTTGAACTTAGAGATTTTCTTACCCTTCACTCTGCCTATCGGC
1 TTTGACCCTGGAGACTTTCTTACCCTT-AGTTTGCTTATCAGC
** * * * *
41891 TTTGACCCTGGAGACTGCCTTA-CCTCAAGTCTGCCTGTCAGC
1 TTTGACCCTGGAGACTTTCTTACCCT-TAGTTTGCTTATCAGC
* *
41933 TTTGACCTTGGAGACTTTCTTACCCTTCAGTTTGCCTATCAGC
1 TTTGACCCTGGAGACTTTCTTACCCTT-AGTTTGCTTATCAGC
* ** * * * * *
41976 TTTGACCCTAGAGACTACCTCA-TCTCAAGTTTGCTTTTCAGA
1 TTTGACCCTGGAGACTTTCTTACCCT-TAGTTTGCTTATCAGC
* * *
42018 TTTGACCCTAGAGACTTTCTTACCCTTAGTTTGCCTATCGGC
1 TTTGACCCTGGAGACTTTCTTACCCTTAGTTTGCTTATCAGC
* *
42060 TTTAACCTTGGAGA
1 TTTGACCCTGGAGA
42074 GTGGTCTACT
Statistics
Matches: 263, Mismatches: 76, Indels: 27
0.72 0.21 0.07
Matches are distributed among these distances:
41 6 0.02
42 169 0.64
43 88 0.33
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.36
Consensus pattern (42 bp):
TTTGACCCTGGAGACTTTCTTACCCTTAGTTTGCTTATCAGC
Found at i:42156 original size:43 final size:43
Alignment explanation
Indices: 42090--42241 Score: 198
Period size: 43 Copynumber: 3.6 Consensus size: 43
42080 TACTTGTCAG
* * *
42090 TTTGACTTTGGAGACTTTCTTACCCCCAAGTCTGTCTGTTGGC
1 TTTGACCTTGGAGACTTTTTTACCCCCAAGTCTGCCTGTTGGC
* *
42133 TTTGACCTTGGAGACTTTTTTA-CCCTAAGTCTGCCTGTTGAC
1 TTTGACCTTGGAGACTTTTTTACCCCCAAGTCTGCCTGTTGGC
* * * * *
42175 TTTGGCCTTGGAGAGTTTTTTACCCTCAAGTCTACCTGTCGGC
1 TTTGACCTTGGAGACTTTTTTACCCCCAAGTCTGCCTGTTGGC
*
42218 TTTGACCTTGGAGACTTTTCTACC
1 TTTGACCTTGGAGACTTTTTTACC
42242 TTTTGTCTGC
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 37 0.40
43 56 0.60
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.39
Consensus pattern (43 bp):
TTTGACCTTGGAGACTTTTTTACCCCCAAGTCTGCCTGTTGGC
Found at i:42178 original size:42 final size:42
Alignment explanation
Indices: 42090--42259 Score: 196
Period size: 43 Copynumber: 4.0 Consensus size: 42
42080 TACTTGTCAG
* * * *
42090 TTTGACTTTGGAGACTTTCTTACCCCCAAGTCTGTCTGTTGGC
1 TTTGACCTTGGAGACTTTTTTA-CCCTAAGTCTGCCTGTTGGC
*
42133 TTTGACCTTGGAGACTTTTTTACCCTAAGTCTGCCTGTTGAC
1 TTTGACCTTGGAGACTTTTTTACCCTAAGTCTGCCTGTTGGC
* * * *
42175 TTTGGCCTTGGAGAGTTTTTTACCCTCAAGTCTACCTGTCGGC
1 TTTGACCTTGGAGACTTTTTTACCCT-AAGTCTGCCTGTTGGC
* * ** *
42218 TTTGACCTTGGAGACTTTTCTACCTTTTGTCTGCCCGTTGGC
1 TTTGACCTTGGAGACTTTTTTACCCTAAGTCTGCCTGTTGGC
42260 CCCGAGAGAA
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 52 0.49
43 55 0.51
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (42 bp):
TTTGACCTTGGAGACTTTTTTACCCTAAGTCTGCCTGTTGGC
Found at i:42250 original size:85 final size:85
Alignment explanation
Indices: 42097--42257 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 85
42087 CAGTTTGACT
** * *
42097 TTGGAGACTTTCTTACCCCCAAGTCTGTCTGTTGGCTTTGACCTTGGAGACTTTTTTACCCTAAG
1 TTGGAGACTTTCTTACCCCCAAGTCTACCTGTCGGCTTTGACCTTGGAGACTTTTCTACCCTAAG
*
42162 TCTGCCTGTTGACTTTGGCC
66 TCTGCCCGTTGACTTTGGCC
* * * * **
42182 TTGGAGAGTTTTTTACCCTCAAGTCTACCTGTCGGCTTTGACCTTGGAGACTTTTCTACCTTTTG
1 TTGGAGACTTTCTTACCCCCAAGTCTACCTGTCGGCTTTGACCTTGGAGACTTTTCTACCCTAAG
42247 TCTGCCCGTTG
66 TCTGCCCGTTG
42258 GCCCCGAGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (85 bp):
TTGGAGACTTTCTTACCCCCAAGTCTACCTGTCGGCTTTGACCTTGGAGACTTTTCTACCCTAAG
TCTGCCCGTTGACTTTGGCC
Found at i:42818 original size:13 final size:11
Alignment explanation
Indices: 42793--42847 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
42783 CTAATTTAAA
42793 AATAAAAAAAT
1 AATAAAAAAAT
42804 AATAAAAAAGGAT
1 AATAAAAAA--AT
*
42817 AACAAAAAAAT
1 AATAAAAAAAT
*
42828 AAATAAAATAAT
1 -AATAAAAAAAT
42840 AATAAAAA
1 AATAAAAA
42848 TACAAGAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 18 0.49
12 9 0.24
13 10 0.27
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:43835 original size:22 final size:20
Alignment explanation
Indices: 43810--43850 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
43800 AAAATATATC
43810 AACAGCAAACGAAAATAGCAGT
1 AACAGCAAA-GAAAA-AGCAGT
43832 AACAGCAAAGAAAAAGCAG
1 AACAGCAAAGAAAAAGCAG
43851 CAAATAGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.59, C:0.17, G:0.20, T:0.05
Consensus pattern (20 bp):
AACAGCAAAGAAAAAGCAGT
Found at i:45532 original size:22 final size:22
Alignment explanation
Indices: 45504--45548 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
45494 TCCAGCAAAG
45504 TATAGAAGAGAATAATAATTAT
1 TATAGAAGAGAATAATAATTAT
45526 TATAGAAGAGAATAATAATTAT
1 TATAGAAGAGAATAATAATTAT
45548 T
1 T
45549 TGTGTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (22 bp):
TATAGAAGAGAATAATAATTAT
Found at i:46861 original size:80 final size:79
Alignment explanation
Indices: 46777--46962 Score: 291
Period size: 80 Copynumber: 2.3 Consensus size: 79
46767 TCCCCAATAA
* * *
46777 AAAATTTGATATTTTGGAGATAAAAATGAGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAA
1 AAAA-TTGATATTTTGGAAATAAAAATGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAA
46842 TATCCCCGATGGTGG
65 TATCCCCGATGGTGG
* * *
46857 AAAATCGATATTTTGGAAATAAAAATTGGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAG
1 AAAATTGATATTTTGGAAATAAAAA-TGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAA
46922 TATCCCCGATGGTGG
65 TATCCCCGATGGTGG
*
46937 AAAATTGATATTTTAGAAATAAAAAT
1 AAAATTGATATTTTGGAAATAAAAAT
46963 ATCGATAAAG
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 20 0.21
80 77 0.79
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (79 bp):
AAAATTGATATTTTGGAAATAAAAATGAGGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAAT
ATCCCCGATGGTGG
Found at i:47728 original size:19 final size:19
Alignment explanation
Indices: 47689--47791 Score: 146
Period size: 19 Copynumber: 5.7 Consensus size: 19
47679 TTTCAACGAT
47689 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
47709 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
47728 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
47747 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
47761 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
47779 TTGTATCGATACA
1 TTGTATCGATACA
47792 ATGTAAGCTA
Statistics
Matches: 77, Mismatches: 0, Indels: 13
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.14
15 2 0.03
17 2 0.03
19 48 0.62
20 14 0.18
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:47766 original size:13 final size:13
Alignment explanation
Indices: 47748--47772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47738 ACATAAGTGT
47748 TGTATCGATACAA
1 TGTATCGATACAA
47761 TGTATCGATACA
1 TGTATCGATACA
47773 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:47770 original size:32 final size:32
Alignment explanation
Indices: 47690--47796 Score: 142
Period size: 32 Copynumber: 3.1 Consensus size: 32
47680 TTCAACGATT
47690 TGTATCGATACATAAAGTGTTGTATCGATACATAA
1 TGTATCGATACAT-AAGTGTTGTATCGATAC--AA
47725 GTGTTGTATCGATACATAAGTGTTGTATCGATACAA
1 ----TGTATCGATACATAAGTGTTGTATCGATACAA
*
47761 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
47793 TGTA
1 TGTA
47797 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
32 35 0.52
36 2 0.03
38 17 0.25
39 13 0.19
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:47912 original size:52 final size:52
Alignment explanation
Indices: 47867--47995 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
47857 CACTAATCTT
*
47867 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
47919 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
47971 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
47996 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:54882 original size:11 final size:11
Alignment explanation
Indices: 54868--54907 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
54858 AAAAATGATG
*
54868 AAAAAAAATAA
1 AAAAAAAACAA
54879 AAAAAAAACAA
1 AAAAAAAACAA
54890 AAAAAAAACACA
1 AAAAAAAACA-A
54902 AAAAAA
1 AAAAAA
54908 GGTGCAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:54902 original size:13 final size:12
Alignment explanation
Indices: 54868--54907 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
54858 AAAAATGATG
*
54868 AAAAAAAA-TAA
1 AAAAAAAACAAA
54879 AAAAAAAACAAA
1 AAAAAAAACAAA
54891 AAAAAAACACAAA
1 AAAAAAA-ACAAA
54904 AAAA
1 AAAA
54908 GGTGCAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 8 0.31
12 9 0.35
13 9 0.35
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:56049 original size:16 final size:17
Alignment explanation
Indices: 56024--56061 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
56014 TTGTGCTGTA
* *
56024 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
56040 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
56057 ATCAT
1 ATCAT
56062 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:56313 original size:33 final size:33
Alignment explanation
Indices: 56198--56871 Score: 366
Period size: 33 Copynumber: 20.9 Consensus size: 33
56188 TCTCTTCTCA
** * **
56198 AAGTCCATGACTCAGTGGCATCCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* **
56230 AAGTCCACAACTCAGTGGCATCCTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* *
56262 AAGTCCACGACTCAGTGGCATCCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
*
56295 AAGTCCACAACTCTGTGGCA--C----CCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* * * * *
56322 AAGCCCACAACTCAGTGGCTTTC-TTTCC---A
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* * **
56351 AAGTCCACGACTCAGTGGCAT-CTTTT-CTTCA
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* * * *
56382 AAGTCCACGACTCTGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCA-TCCTTTTCCTTTT
* *
56416 AAGTCCACAACTCTGTGGCA--C----CCGTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
*
56443 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTTCCTTTT
* * ** * *
56476 AAGCCCACGACTTTGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCA-TCCTTTTCCTTTT
*
56510 AAGTCCACAACTCTGTGGCA--C---T-CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* *
56537 AAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
1 -AAGTCCACAACTCCGTGGCA-TCCTTTTC-CTTTT
* *
56573 AAAGTCCATAACCCCGTGGCA-CCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTT-TTCCTTTT
* *
56607 AAGTCCACGACTTCGTGGCA-CC--TT-CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* **
56636 CAAATCCCACAACTCCGTGGCACTTTTTTTCCTTTT
1 -AAGT-CCACAACTCCGTGGCA-TCCTTTTCCTTTT
* *
56672 AAGTCCACGACTCTGTGGCA-CCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTT-TTCCTTTT
* *
56705 AAGTCCACGACTCCGTGGCA-GC--TT-CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
* *
56734 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 --AAGTCCACAACTCCGTGGCA-TCCTTTT-CCTTTT
* *
56771 CAAAG-CTACAACTCCGTGGCA-CCTTTTTCTTTTT
1 --AAGTCCACAACTCCGTGGCATCC-TTTTCCTTTT
* *
56805 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGTCCACAACTCCGTGGCA-TCCTTTT-CCTTTT
* *
56841 AACTCCACAACTCTGTGGCAT-CTTTCTCCTT
1 AAGTCCACAACTCCGTGGCATCCTTT-TCCTT
56872 CTCAAAAGCC
Statistics
Matches: 516, Mismatches: 73, Indels: 105
0.74 0.11 0.15
Matches are distributed among these distances:
27 50 0.10
28 22 0.04
29 32 0.06
30 7 0.01
31 53 0.10
32 61 0.12
33 102 0.20
34 94 0.18
35 36 0.07
36 49 0.09
37 10 0.02
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCCTTTTCCTTTT
Found at i:56347 original size:27 final size:27
Alignment explanation
Indices: 56289--56340 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56279 GCATCCTTTT
* *
56289 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCAGTGGCAC
56316 CCTTTTAAGCCCACAACTCAGTGGC
1 CCTTTTAAGCCCACAACTCAGTGGC
56341 TTTCTTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCAGTGGCAC
Found at i:56368 original size:121 final size:121
Alignment explanation
Indices: 56228--56461 Score: 389
Period size: 121 Copynumber: 1.9 Consensus size: 121
56218 TCCTTTTCTT
56228 CAAAGTCCACAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA-TCCTTTTCCT
1 CAAAGTCCACAACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACTCAGTGGCACTCCTTTTCCT
* *
56292 TTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCAGTGGCTTTCTTTC
65 TCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACAACTCAGTGGCTTTCTTTC
* * *
56349 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCACTCTTTTTCCTT
1 CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCACTCCTTTTCCTT
* *
56414 CTAAGTCCACAACTCTGTGGCACCCGTTTAAGTCCACAACTCCGTGGC
66 CTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACAACTCAGTGGC
56462 ACCTTTTTCT
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
120 29 0.28
121 76 0.72
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.30
Consensus pattern (121 bp):
CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCACTCCTTTTCCTT
CTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCACAACTCAGTGGCTTTCTTTC
Found at i:56420 original size:34 final size:34
Alignment explanation
Indices: 56351--56873 Score: 366
Period size: 34 Copynumber: 16.0 Consensus size: 34
56341 TTTCTTTCCA
* * *
56351 AAGTCCACGACTCAGTGGCA-TC-TTTT-CTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56382 AAGTCCACGACTCTGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56416 AAGTCCACAACTCTGTGGCAC-C-----CGTT-T
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56443 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * **
56476 AAGCCCACGACTTTGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56510 AAGTCCACAACTCTGTGGCACTC---TT--TT-A
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56538 AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTC-CTTCT
* * * *
56573 AAAGTCCATAACCCCGTGGCAC-CTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * *
56607 AAGTCCACGACTTCGTGGCAC-CTTCTT--TTC-
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * *
56637 AAATCCCACAACTCCGTGGCACTTTTTTTCCTTTT
1 AAGT-CCACAACTCCGTGGCACTCTTTTTCCTTCT
* * * *
56672 AAGTCCACGACTCTGTGGCAC-CTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * * *
56705 AAGTCCACGACTCCGTGGCA-GCTTCTT--TTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56736 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTT-CC--TTCT
* * *
56773 AAG-CTACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
56805 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGTCCACAACTCCGTGGCACTCTTTTT-CCTTCT
* * *
56841 AACTCCACAACTCTGTGGCA-TCTTTCTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
56874 CAAAAGCCCA
Statistics
Matches: 399, Mismatches: 59, Indels: 66
0.76 0.11 0.13
Matches are distributed among these distances:
27 22 0.06
28 24 0.06
29 2 0.01
30 3 0.01
31 60 0.15
32 16 0.04
33 87 0.22
34 101 0.25
35 38 0.10
36 39 0.10
37 7 0.02
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.35
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:56496 original size:60 final size:61
Alignment explanation
Indices: 56262--56496 Score: 171
Period size: 60 Copynumber: 3.9 Consensus size: 61
56252 CTTTTCTTCA
* * * * * *
56262 AAGTCCACGACTCAGTGGCA-TCCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCCGTTT
* * * * * * ***
56322 AAGCCCACAACTCAGTGG--CT-TTCTTT-C--CAAAGTCCACGACTCAGTGGCATCTTTTCTT
1 AAGTCCACAACTCCGTGGCACTCTT-TTTCCTTCTAAGCCCACAACTCTGTGGCA-CCCGT-TT
* * *
56380 CAAAGTCCACGACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTT
1 --AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCCGTTT
* * * *
56443 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAGCCCACGACTTTGTGGCAC
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCAC
56497 TCTTTTTCCT
Statistics
Matches: 138, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
56 18 0.13
57 3 0.02
58 4 0.03
59 4 0.03
60 59 0.43
61 19 0.14
62 5 0.04
63 5 0.04
64 2 0.01
65 19 0.14
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCCGTTT
Found at i:56690 original size:98 final size:97
Alignment explanation
Indices: 56198--56826 Score: 550
Period size: 98 Copynumber: 6.6 Consensus size: 97
56188 TCTCTTCTCA
* * **
56198 AAGTCCATGACTCAGTGGCATCC-TTTT-CTTCAAAGTCCACAACTCAGTGGCATCCTT-TTCTT
1 AAGTCCACGACTCTGTGGCA-CCTTTTTCCTTTTAAGTCCACAACTCAGTGGCA-CCTTCTT-TT
* * *
56260 CAAAGTCCACGACTCAGTGGCA-TCCTTTTCCTTTT
63 CAAA-TCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
56295 AAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGCCCACAACTCAGTGG--CTTTCTTTCCAA
1 AAGTCCACGACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCTTCTTTTCAA
* * **
56352 AGTCCACGACTCAGTGGCA-TC-TTTT-CTTCA
66 A-TCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
56382 AAGTCCACGACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC--CGTTT-A
1 AAGTCCACGACTCTGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCTTCTTTTCA
* *
56444 AGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
65 AATCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
56476 AAGCCCACGACTTTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCA-C-TCTTTT-A
1 AAGTCCACGACTCTGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCTTCTTTTCA
*
56538 AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTT
65 AA-TCCACAACTCCGTGGCACTCTTTTTC-CTTTT
** * * * *
56573 AAAGTCCATAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTTC-GTGGCACCTTCTTTTC
1 -AAGTCCACGACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAAC-TCAGTGGCACCTTCTTTTC
*
56637 AAATCCCACAACTCCGTGGCACTTTTTTTCCTTTT
64 AAAT-CCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
56672 AAGTCCACGACTCTGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCAGCTTCTTTTCAA
1 AAGTCCACGACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCTTCTTTTCAA
*
56737 AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 A-TCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * * * * *
56771 CAAAG-CTACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
1 --AAGTCCACGACTCTGTGGCACCTTTTTCCTTTT-AAGTCCACAACTCAGTGGCAC
56827 TCTTTTTCCC
Statistics
Matches: 447, Mismatches: 55, Indels: 56
0.80 0.10 0.10
Matches are distributed among these distances:
87 22 0.05
88 4 0.01
89 29 0.06
90 2 0.00
92 36 0.08
93 7 0.02
94 84 0.19
95 18 0.04
96 8 0.02
97 49 0.11
98 99 0.22
99 17 0.04
100 51 0.11
101 21 0.05
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (97 bp):
AAGTCCACGACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACCTTCTTTTCAA
ATCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:56914 original size:33 final size:34
Alignment explanation
Indices: 56868--57029 Score: 194
Period size: 33 Copynumber: 4.9 Consensus size: 34
56858 GCATCTTTCT
* *
56868 CCTTC-TCAAAAGCCCACACAAGTCGGTTGCAA-
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
* *
56900 CCTTCTTCTAAAGCCCACACAAGTTGGTGGCAATG
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA-C
56935 CC--C-TCTAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
*
56966 CCTT-TTCTAAAGCCCACACAAGTCGATGGCAA-
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
* * *
56998 CATTCTTCAAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
57030 TCACCTTTAA
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
31 2 0.02
32 34 0.30
33 75 0.66
35 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (34 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
Found at i:56957 original size:65 final size:65
Alignment explanation
Indices: 56876--57029 Score: 204
Period size: 65 Copynumber: 2.4 Consensus size: 65
56866 CTCCTTCTCA
* * *
56876 AAAGCCCACACAAGTCGGTTGCAA-CCTTCTTCTAAAGCCCACACAAGTTGGTGGCAATGCCCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TTCTAAAGCCCACACAAGTCGATGGCAATGCCCTC
56940 T
65 T
* *
56941 AAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGATGGCAACAT-TCTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGATGGC-A-ATGCCCT
*
57005 CA
64 CT
*
57007 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
57030 TCACCTTTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 47 0.59
66 30 0.38
67 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (65 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGATGGCAATGCCCTCT
Found at i:57091 original size:49 final size:49
Alignment explanation
Indices: 57034--57782 Score: 862
Period size: 49 Copynumber: 15.8 Consensus size: 49
57024 GTGGCATCAC
*
57034 CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
57083 CTTTAAGTCCAA-GTAGCTGGCCTTGAATCAGCGCATTGGCA-----A-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
57125 CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
57174 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
57217 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
57266 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * *
57309 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
57358 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
57401 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
57450 CTTTAAGTCCAATGTAGCTGGTCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * * *
57499 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCGCCTTTGTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
* * * * *
57551 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
57600 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
57649 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
57692 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CAT
* *
57744 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
57783 ACATCTTTTT
Statistics
Matches: 597, Mismatches: 63, Indels: 77
0.81 0.09 0.10
Matches are distributed among these distances:
42 12 0.02
43 179 0.30
44 1 0.00
45 2 0.00
47 3 0.01
48 26 0.04
49 291 0.49
50 2 0.00
51 1 0.00
52 80 0.13
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:57249 original size:92 final size:92
Alignment explanation
Indices: 57031--57782 Score: 1139
Period size: 92 Copynumber: 8.0 Consensus size: 92
57021 TTGGTGGCAT
* *
57031 CACCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAA-
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
*
57095 GTAGCTGGCCTTGAATCAGCGCATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
57122 CAACTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
57187 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
57214 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
57279 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
57306 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
57371 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
57398 CACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
*
57463 GTAGCTGGTCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
57490 CACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCGCCTTTGTCATCTTT
1 CA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTT
* *
57555 AAGTCCAATGTCGCTGGCCTTGAATCAACACATTGG
57 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
57591 CACCTTTACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTTTAA
1 ---C---ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAA
57655 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
59 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* *
57689 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCC
57754 AATGTAGCTGGCCTTGAATCAGCACATTG
63 AATGTAGCTGGCCTTGAATCAGCACATTG
57783 ACATCTTTTT
Statistics
Matches: 613, Mismatches: 28, Indels: 36
0.91 0.04 0.05
Matches are distributed among these distances:
91 62 0.10
92 341 0.56
93 2 0.00
95 40 0.07
96 1 0.00
98 80 0.13
99 2 0.00
100 3 0.00
101 79 0.13
103 1 0.00
104 1 0.00
107 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:57672 original size:150 final size:141
Alignment explanation
Indices: 57551--57846 Score: 340
Period size: 150 Copynumber: 2.0 Consensus size: 141
57541 CCTTTGTCAT
* * * * *
57551 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTACCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* * * *
57616 GCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAA
57681 CACATTGGCAC
131 CACATTGGCAC
* *
57692 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAAT
* * * * *
57757 GTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C----CT-TCATCTTTAAGTCCAATATAGCTGGCC
* * *
57822 GTGAATCAACATATTGGCAT
122 TTGAATCAACACATTGGCAC
57842 CTTTA
1 CTTTA
57847 TCACTTTTCT
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
141 40 0.31
142 3 0.02
144 39 0.31
145 1 0.01
149 1 0.01
150 43 0.34
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (141 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAA
CACATTGGCAC
Found at i:57821 original size:55 final size:54
Alignment explanation
Indices: 57692--57845 Score: 195
Period size: 55 Copynumber: 2.9 Consensus size: 54
57682 ACATTGGCAC
*
57692 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
* * * *
57744 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTC-CAT
* * * * *
57799 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTT
57846 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.45
53 1 0.01
54 5 0.06
55 41 0.48
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCCAT
Found at i:57903 original size:67 final size:68
Alignment explanation
Indices: 57795--57921 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
57785 ATCTTTTTTC
* * *
57795 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
57859 TCT
66 TCT
* * * * *
57862 TCATCTTTAAGTCCAATATTGCTGGCCTTTAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
57922 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:59142 original size:19 final size:20
Alignment explanation
Indices: 59099--59151 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
59089 ATTTCAACGA
59099 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
59119 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
59138 TTTGTATCGATACA
1 TTTGTATCGATACA
59152 ATGTAAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:59271 original size:52 final size:52
Alignment explanation
Indices: 59227--59407 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
59217 CACTGATCTT
*
59227 TGTATCGATACATGCAAGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
59279 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
59331 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
59383 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAAGCAAATTT
59408 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:65822 original size:20 final size:21
Alignment explanation
Indices: 65797--65849 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
65787 TACAAGCCAA
* *
65797 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
*
65817 TGTATCGATGC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
65837 TGTATCGATACAA
1 TGTATCGATACAA
65850 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:65854 original size:19 final size:19
Alignment explanation
Indices: 65797--65855 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
65787 TACAAGCCAA
* *
65797 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
*
65817 TGTATCGATGCATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
65837 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
65856 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 6 0.18
20 26 0.79
21 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:68397 original size:13 final size:13
Alignment explanation
Indices: 68379--68416 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
68369 ATAATCCCCC
68379 TGTATCGATACAG
1 TGTATCGATACAG
*
68392 TGTATCGATACAT
1 TGTATCGATACAG
68405 TGTATCGATACA
1 TGTATCGATACA
68417 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:68430 original size:20 final size:20
Alignment explanation
Indices: 68405--68481 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 20
68395 ATCGATACAT
68405 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* **
68425 TGTATCAATACATTGAATTTCCAAA
1 TGTATCGATACAAAGAA-----AAA
*
68450 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
68470 TGTATCGATACA
1 TGTATCGATACA
68482 TTTTGGACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 28 0.64
25 16 0.36
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:74630 original size:19 final size:19
Alignment explanation
Indices: 74573--74631 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
74563 TACAAGCCAA
* *
74573 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
74593 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
* *
74613 TGTACCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
74632 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.18
20 27 0.79
21 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:75215 original size:44 final size:44
Alignment explanation
Indices: 75167--75536 Score: 171
Period size: 44 Copynumber: 8.7 Consensus size: 44
75157 TGCATTCTGG
* * * *
75167 TCTTTGAGGACAAAGGGAAAATAAATAAATGAGGTACACCCTAT
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* * ***
75211 TCTTTAAGGACAAAGGGAAAAGAAGGAAATGAAGTGTGCCCTAC
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* ** * * *
75255 TCTTTGAGGACAAA--G-AAA-AAGGAAACAAAGTGCATCCTGC
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* * * * *** *
75295 TCTTTGAAGACAAAAGAGAAGAGAAGGAAATGAAGTGTGCCCTGC
1 TCTTTGAGGAC-AAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* * * ** * *
75340 TCTTTGAGGACAAAGGGAAAATAAGGAAATGAGGCGCGCCCTGC
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* *
75384 TCTTTGAGGACAAA--GAAAA-AAAG---TG-CGT----CCTGC
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
* * * * * **** *
75417 TCTTTAAGGATAAAAGGAGAAAGAATGAAATGAAATGTGTCCTGC
1 TCTTTGAGGACAAAGGGA-AAAGAAAGAAATGAAGTACACCCTAC
* * * *
75462 TCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCATCCTAC
1 TCTTTGAGGAC-AAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
*
75507 TCTTTGAGGACAAA-GGAAAA-AAGGAAATGA
1 TCTTTGAGGACAAAGGGAAAAGAAAGAAATGA
75537 GAAAAGTGTC
Statistics
Matches: 260, Mismatches: 48, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
33 17 0.07
35 2 0.01
36 3 0.01
37 4 0.02
38 2 0.01
40 28 0.11
41 10 0.04
42 16 0.06
43 6 0.02
44 94 0.36
45 73 0.28
46 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (44 bp):
TCTTTGAGGACAAAGGGAAAAGAAAGAAATGAAGTACACCCTAC
Found at i:75460 original size:45 final size:45
Alignment explanation
Indices: 75410--75565 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 45
75400 AAAAAAGTGC
* *
75410 GTCCTGCTCTTTAAGGATAAAAGGAGAAAGAATGAAATGAAATGT
1 GTCCTACTCTTTAAGGATAAAAGGAGAAAGAAGGAAATGAAATGT
* * * * *
75455 GTCCTGCTCTTTGAGGACAAAA-GAGAAAAGAAGGAAATGAAGTGC
1 GTCCTACTCTTTAAGGATAAAAGGAG-AAAGAAGGAAATGAAATGT
* * * *
75500 ATCCTACTCTTTGAGGA-CAAAGGA-AAA-AAGGAAATGAGAAAAGT
1 GTCCTACTCTTTAAGGATAAAAGGAGAAAGAAGGAAAT--GAAATGT
*
75544 GTCCTACTCCTTAAGGACTAAA
1 GTCCTACTCTTTAAGGA-TAAA
75566 TGCTGCCACC
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 8 0.09
43 3 0.03
44 24 0.27
45 53 0.59
46 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (45 bp):
GTCCTACTCTTTAAGGATAAAAGGAGAAAGAAGGAAATGAAATGT
Found at i:75647 original size:62 final size:62
Alignment explanation
Indices: 75569--76099 Score: 616
Period size: 62 Copynumber: 8.6 Consensus size: 62
75559 GACTAAATGC
* * ** * * *
75569 TGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAGTTGTGCTGCTCCTTGAGGACTAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* * * * * *
75631 TGCTACCAACTCATGTGCGCTTTGAAAA-AAAAGGGTGTCCTACTCTTTGAGGACCAAAAGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* * * * *
75692 TGCCACCAACTCGTGTGGGCTTTGTAAAGAAAAAGGCATCCTGCTCCTTGAAGACCAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* **
75754 TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTATTCTTTGAGGACCAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
** * *
75816 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGCTCTTTAAGGACCAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* *
75878 TGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCGTCCTGCTCTTTAAGGACCAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* * * * *
75940 TGCCACCAACTCATGTAGGCTTT-AAAAAAAAAACGCATCCTGCTCTTTGAGGACTAAAGGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* * ** * ** * * * *
76001 TGCCAACAACTCTTGTGAACTTTGAAAAGAAAAAGGCATTATTCTTTTTGAGGACTAAAAGG
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
* * * * *
76063 TGCCACCAATTCGTATTGGTTTTGAAAAGAAAAAGGC
1 TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
76100 ATGTGCCACC
Statistics
Matches: 403, Mismatches: 64, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
61 101 0.25
62 302 0.75
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (62 bp):
TGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACCAAAGGG
Found at i:75847 original size:124 final size:124
Alignment explanation
Indices: 75544--76101 Score: 620
Period size: 123 Copynumber: 4.5 Consensus size: 124
75534 TGAGAAAAGT
* * * * * * * *** *
75544 GTCCTACTCCTTAAGGACTAAATGCTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAGTTGTG
1 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATC
* * * * * *
75609 CTGCTCCTTGAGGACTAAAGGGTGCTACCAACTCATGTGCGCTTTGAAAA-AAAAGGGT
66 CTGCTCCTTGAAGACCAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
* *
75667 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGTAAAGAAAAAGGCATC
1 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATC
*
75732 CTGCTCCTTGAAGACCAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
66 CTGCTCCTTGAAGACCAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
* * *
75791 GTCCTATTCTTTGAGGACCAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
1 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATC
* * *
75856 ATGCT-CTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGC
66 CTGCTCCTTGAA-GACCAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
* * * ** * * *
75915 GTCCTGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTAGGCTTT-AAAAAAAAAACGCATC
1 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATC
* * * * * **
75979 CTGCTCTTTGAGGACTAAAGGGTGCCAACAACTCTTGTGAACTTTGAAAAGAAAAAGGC
66 CTGCTCCTTGAAGACCAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
* ** * * * * * *
76038 ATTATTCTTTTTGAGGACTAAAAGGTGCCACCAA-TTCGTATTGGTTTTGAAAAGAAAAAGGCAT
1 GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTT-GTGTGGGCTTTGAAAAGAAAAAGGCAT
76102 GTGCCACCGA
Statistics
Matches: 367, Mismatches: 63, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
122 1 0.00
123 193 0.53
124 173 0.47
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (124 bp):
GTCCTACTCTTTGAGGACCAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATC
CTGCTCCTTGAAGACCAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
Found at i:76092 original size:185 final size:184
Alignment explanation
Indices: 75544--76099 Score: 650
Period size: 185 Copynumber: 3.0 Consensus size: 184
75534 TGAGAAAAGT
* * * * * * * *
75544 GTCCTACTCCTTAAGGACTAAATGCTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAGTTGTG
1 GTCCTGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAA-AAAAAG-CGTC
* * * * * * *
75609 CTGCTCCTTGAGGACTAAAGGGTGCTACCAACTCATGTGCGCTTTGAAAA-AAAAGGGTGTCCTA
64 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCGTCATA
*
75673 CTCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGTAAAGAAAAAGGC
129 CTCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
75729 ATCCTGCTCCTTGAA-GACCAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGT
1 GTCCTGCT-CTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTT-AAAA-AAAAAAGCGT
** * *
75793 CCTATTCTTTGAGGACCAAAGGGTGCCACCAACT-TGTGTGGGCTTTGAAAAGAAAAAGGCGTCA
63 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCT-TGTGAGCTTTGAAAAGAAAAAGGCGTCA
* * * * *
75857 TGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGC
127 TACTCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* *
75915 GTCCTGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTAGGCTTTAAAAAAAAAACGCATCC
1 GTCCTGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAAAAAA-GCGTCC
* * * * *
75980 TGCTCTTTGAGGACTAAAGGGTGCCAACAACTCTTGTGAACTTTGAAAAGAAAAAGGCATTATTC
65 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCGTCATAC
* * * * * *
76045 TTTTTGAGGACTAAAAGGTGCCACCAATTCGTATTGGTTTTGAAAAGAAAAAGGC
130 TCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
76100 ATGTGCCACC
Statistics
Matches: 310, Mismatches: 53, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
184 5 0.02
185 191 0.62
186 113 0.36
187 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (184 bp):
GTCCTGCTCTTTAAGGACCAAAGGGTGCCACCAACTCATGTGGGCTTTAAAAAAAAAAGCGTCCT
GCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCGTCATACT
CTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
Found at i:79396 original size:35 final size:35
Alignment explanation
Indices: 79350--79425 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
79340 TATCTTAGCA
*
79350 TCTTTTGGTAATACTTACGAAGGTGAGCTGTGGGG
1 TCTTTTGGTAATACTTACGAAGGTGAGCCGTGGGG
79385 TCTTTTGGTAATACTTACGAAGGTGAGCCGTGGGG
1 TCTTTTGGTAATACTTACGAAGGTGAGCCGTGGGG
*
79420 CCTTTT
1 TCTTTT
79426 TTTCAAAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (35 bp):
TCTTTTGGTAATACTTACGAAGGTGAGCCGTGGGG
Found at i:82512 original size:80 final size:79
Alignment explanation
Indices: 82411--82661 Score: 292
Period size: 80 Copynumber: 3.2 Consensus size: 79
82401 AAATTTGATA
* * * * *
82411 TTTTGGAGATAAAAATGGGGTTGGAGTATCCCTTCAAAAATGACAGGGTTAGAGTATCCCCGATG
1 TTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATG
*
82476 GTGGAAAATTAATG
66 GTGGAAAATTAGTG
* * *
82490 TTTTGGAAATAAAAATTAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGACTATCTCCAAT
1 TTTTGGAAATAAAAA-TAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGAT
** *
82555 GGTAAAAAATCAGTG
65 GGTGGAAAATTAGTG
* * * *
82570 TTCT--AAA-AAAAATCGAGGTTGGAGTATCCCCTCATAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAAAAATAG-GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGAT
* *
82632 GGTGGAAAATTGGTA
65 GGTGGAAAATTAGTG
*
82647 TTTTAGAAATAAAAA
1 TTTTGGAAATAAAAA
82662 CATCGATGAA
Statistics
Matches: 142, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
76 2 0.01
77 59 0.42
78 3 0.02
79 17 0.12
80 61 0.43
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
TTTTGGAAATAAAAATAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATG
GTGGAAAATTAGTG
Found at i:82641 original size:77 final size:78
Alignment explanation
Indices: 82419--82641 Score: 270
Period size: 77 Copynumber: 2.8 Consensus size: 78
82409 TATTTTGGAG
* * * *
82419 ATAAAAATGGGGTTGGAGTATCCCTTCAAAAATGACAGGGTTAGAGTATCCCCGATGGTGGAAAA
1 ATAAAAATGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAA
* *
82484 TTAATGTTTTGGAA
66 TCAATGTTCT-GAA
* * * * **
82498 ATAAAAATTAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGACTATCTCCAATGGTAAAAA
1 ATAAAAATGA-GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAA
*
82563 ATCAGTGTTCT-AA
65 ATCAATGTTCTGAA
* *
82576 A-AAAAATCGAGGTTGGAGTATCCCCTCATAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAA
1 ATAAAAAT-GAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAA
82640 AT
65 AT
82642 TGGTATTTTA
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
77 55 0.45
78 4 0.03
79 8 0.07
80 54 0.45
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (78 bp):
ATAAAAATGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAA
TCAATGTTCTGAA
Found at i:86105 original size:10 final size:10
Alignment explanation
Indices: 86090--86119 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
86080 AAATCTTAAA
86090 AGATTTTTTT
1 AGATTTTTTT
86100 AGATTTTTTT
1 AGATTTTTTT
86110 AGTATTTTTT
1 AG-ATTTTTT
86120 CTGTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
AGATTTTTTT
Done.