Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2654
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: 167925
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:109 original size:16 final size:16
Alignment explanation
Indices: 88--119 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78 GATAAAGTGT
88 TTGAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAA
104 TTGAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAA
120 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
TTGAAAAAAAAAAAAA
Found at i:151 original size:21 final size:21
Alignment explanation
Indices: 127--183 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
117 AAAAAATTTA
127 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
148 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
169 AATGTATCGATACAT
1 AATGTATCGATACAT
184 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:263 original size:19 final size:19
Alignment explanation
Indices: 239--306 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
229 AATTCAACAA
239 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
258 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
273 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
290 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
307 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:278 original size:13 final size:13
Alignment explanation
Indices: 260--284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250 ACATAAGTTT
260 TGTATCGATACAA
1 TGTATCGATACAA
273 TGTATCGATACA
1 TGTATCGATACA
285 TAAGTATTGT
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:282 original size:32 final size:32
Alignment explanation
Indices: 241--303 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
231 TTCAACAATT
*
241 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
273 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
304 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:364 original size:13 final size:13
Alignment explanation
Indices: 346--371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
336 CATTTTTCTG
346 TGTATCGATACAT
1 TGTATCGATACAT
359 TGTATCGATACAT
1 TGTATCGATACAT
372 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:368 original size:33 final size:33
Alignment explanation
Indices: 326--392 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
316 GCCAAGGAAA
***
326 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
359 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
392 T
1 T
393 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:2910 original size:28 final size:27
Alignment explanation
Indices: 2843--2913 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
2833 CTTCACAATC
* *
2843 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2870 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2898 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
2914 GACTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:3087 original size:28 final size:27
Alignment explanation
Indices: 3052--3131 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
3042 TTTTCACAAT
3052 CGAG-GATACTCCAACCTCGTTATTTC
1 CGAGAGATACTCCAACCTCGTTATTTC
* *
3078 ATCG-GAGATACTCCAACCCCGTTACTTC
1 --CGAGAGATACTCCAACCTCGTTATTTC
* *
3106 CGAGGGAACACTCCAACCTCGTTATT
1 CGAGAG-ATACTCCAACCTCGTTATT
3132 ATCTCCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 38 0.88
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (27 bp):
CGAGAGATACTCCAACCTCGTTATTTC
Found at i:5726 original size:13 final size:13
Alignment explanation
Indices: 5708--5732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5698 CAATGAACAG
5708 GTATCGATACAAT
1 GTATCGATACAAT
5721 GTATCGATACAA
1 GTATCGATACAA
5733 AGCATGACGT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:7656 original size:14 final size:14
Alignment explanation
Indices: 7624--7657 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7614 ACAACCTTCA
*
7624 ATGAAGGTTTGATT
1 ATGAAGGTTTGATG
*
7638 TTGAAGGTTTGATG
1 ATGAAGGTTTGATG
7652 ATGAAG
1 ATGAAG
7658 CACCTCGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (14 bp):
ATGAAGGTTTGATG
Found at i:12972 original size:20 final size:20
Alignment explanation
Indices: 12947--13084 Score: 107
Period size: 20 Copynumber: 6.7 Consensus size: 20
12937 TTTTACCTAG
12947 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
12967 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * * * *
12987 ATGCATCGATTCATGTATGA
1 ATGTATCGATACATTTTTCA
*
13007 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
** *
13027 ATGTATCTCTGTC-TTTTTACCCA
1 ATGTATCGAT-ACATTTTT---CA
*
13050 GATGTATCGATATATTTTTCA
1 -ATGTATCGATACATTTTTCA
13071 ATGTATCGATACAT
1 ATGTATCGATACAT
13085 CTAGTTAAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
20 74 0.80
21 3 0.03
23 2 0.02
24 13 0.14
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:13982 original size:20 final size:22
Alignment explanation
Indices: 13942--13982 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13932 TGGCCTTTCA
*
13942 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
13964 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
13983 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:17753 original size:48 final size:48
Alignment explanation
Indices: 17692--17814 Score: 138
Period size: 48 Copynumber: 2.6 Consensus size: 48
17682 GAGGAGTGCT
** * * *
17692 AATGTGCCAATTCAAGGCCAATGACATCGAGCAAAGGGAAAAGTGGAC
1 AATGTGCTGATTCAAGGCCAACGACATCGAGCAAAGGGAAAAGAGAAC
* * * *
17740 AATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGAGAAC
1 AATGTGCTGATTCAAGGCCAACGACATCGAGCAAAGGGAAAAGAGAAC
* * *
17788 AATGTACTGATTAAAGGCCAGCGACAT
1 AATGTGCTGATTCAAGGCCAACGACAT
17815 TAAGCTAATA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (48 bp):
AATGTGCTGATTCAAGGCCAACGACATCGAGCAAAGGGAAAAGAGAAC
Found at i:17815 original size:48 final size:48
Alignment explanation
Indices: 17705--17822 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 48
17695 GTGCCAATTC
** * * * * * *
17705 AAGGCCAATGACATCGAGCAAAGGGAAAAGTGGACAATGTGCTGATTC
1 AAGGCCAGCGACATTGAGCTAAGGGAAAAGAGAACAATGTACTGATTA
*
17753 AAGGCTAGCGACATTGAGCTAAGGGAAAAGAGAACAATGTACTGATTA
1 AAGGCCAGCGACATTGAGCTAAGGGAAAAGAGAACAATGTACTGATTA
*
17801 AAGGCCAGCGACATTAAGCTAA
1 AAGGCCAGCGACATTGAGCTAA
17823 TAAGGGTGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.17
Consensus pattern (48 bp):
AAGGCCAGCGACATTGAGCTAAGGGAAAAGAGAACAATGTACTGATTA
Found at i:18011 original size:28 final size:28
Alignment explanation
Indices: 17970--18754 Score: 658
Period size: 28 Copynumber: 26.7 Consensus size: 28
17960 CACCGACTTG
* *
17970 TGTGGGCTTCGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
17998 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
18026 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
18054 TGTGGGCTTTGAAAAGG-TGCCACTGATT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
18082 TGTATGGGCTTTGAGAAGGATGCCATTGACT
1 TG--TGGGCTTTGA-AAGGATGCCACTGACT
18113 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
18142 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
18170 TGTGAGCTTTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
18198 TGTGCTGGATTTGAAAAGGATGCCACTAACT
1 TGTG--GGCTTTG-AAAGGATGCCACTGACT
* * *
18229 TATGGGCTTTGAGAAGGATACCACTTACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
18258 TATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
18287 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
18315 TGTGAGCTTTGAAATGGGTTACCACCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * *
18346 ATGTGGGCTTTGAAAAGGGTTGTCACCGACTT
1 -TGTGGGCTTTG-AAA-GGATGCCACTGAC-T
* * **
18378 GTGTGGGCTTTTAAATGAGTTGCCGTTGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* *
18410 GTGTGGGCTTGGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
18439 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
18467 TGTGGGCTTTGGAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
18495 TGTGTGAGCTTTGAGAAGGATGCCACTAACT
1 TGTG-G-GCTTTGA-AAGGATGCCACTGACT
* * *
18526 TGTGGGCTTTGAAATGGGTTGCCGCCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
18557 GTGTGGGCTTTGAAATGAGTTGCCATTGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* *
18589 GTGTGGGCTTTTAAATGAGTTGCCACCT-ACTT
1 -TGTGGGCTTTGAAA-G-GATGCCA-CTGAC-T
** *
18621 GTGTGGGCTTTGAAATAATGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
18650 TGTGGGCTTAAAAAGGGGTGCCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* ** *
18679 TGTGGGC-TTAAAAGGGATGCCACAAAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * * *
18707 TATAGACTTTGGAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
18735 TGTGGGCTTAGAAAGGATGC
1 TGTGGGCTTTGAAAGGATGC
18755 AACGAAGTTG
Statistics
Matches: 641, Mismatches: 89, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
28 264 0.41
29 135 0.21
30 60 0.09
31 54 0.08
32 124 0.19
33 4 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:18149 original size:116 final size:115
Alignment explanation
Indices: 17958--18754 Score: 652
Period size: 116 Copynumber: 6.8 Consensus size: 115
17948 GGGCTTTGAA
* * *
17958 GCCACCGACTTGTGTGGGCTTCGAAAAGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACT
1 GCCACTGACTTGT-TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACT
*
18022 GACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-T
65 GACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGAT
* *
18072 GCCACTGATTTGTATGGGCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAGAAGGATGCCAC
1 GCCACTGACTTGT-TGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCAC
* * *
18137 TGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGAGCTTTG-AAAGGAT
64 TGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGAT
* * * * *
18188 GCCACTGATTTG-TGCTGGATTTGAAAAGGATGCCACTAACTTATGGGCTTTGAGAAGGATACCA
1 GCCACTGACTTGTTG--GGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCA
* * *
18252 CTTACTTATGGGCTTTGAGAAGGATGCCACTAACTTGTAGGCTTTG-AAAGGAT
63 CTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAAAAGGAT
* * * * * * *
18305 GCCACTGACTTG-TGAGCTTTGAAATGGGTTACCACCGACTTATGTGGGCTTTGAAAAGGGTTGT
1 GCCACTGACTTGTTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAGAA-GGATGC
* * * ** * * *
18369 CACCGACTTGTGTGGGCTTTTAAATGAGTTGCCGTTGACTTGTGTGGGC-TTGGAAAGGGT
61 CACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACTAAC-T-TGTGGGCTTTGAAAAGGAT
* * *
18429 GCCACTGACTTG-TGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTG-GAAGGGTGCCACTG
1 GCCACTGACTTGTTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTG
* * *
18492 ATTTGTGTGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTT
66 ACTTGTG-G-GCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAAA-AGGAT
* * * * * *
18546 GCCGCCGACTTGTGTGGGCTTTGAAATGAGTTGCCATTGACTTGTGTGGGCTTTTA-AATGAGTT
1 GCCACTGACTTGT-TGGGCTTTGAAA-G-GATGCCACTGAC-T-TGTGGGCTTTGAGAA-G-GAT
** * *
18610 GCCACCT-ACTTGTGTGGGCTTTGAAATAATGCCACTAACTTGTGGGC-TTAAAAAGGGGT
59 GCCA-CTGAC-T-TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GGAT
* * ** * * * * *
18669 GCCACTAACTTG-TGGGC-TTAAAAGGGATGCCACAAAGTTATAGACTTTG-GAAGGGTGCCACT
1 GCCACTGACTTGTTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACT
* *
18731 AACTTGTGGGCTTAGAAAGGATGC
65 GACTTGTGGGCTTTGAAAGGATGC
18755 AACGAAGTTG
Statistics
Matches: 554, Mismatches: 90, Indels: 79
0.77 0.12 0.11
Matches are distributed among these distances:
113 17 0.03
114 28 0.05
115 51 0.09
116 143 0.26
117 77 0.14
118 30 0.05
119 30 0.05
120 21 0.04
121 27 0.05
122 19 0.03
123 33 0.06
124 56 0.10
125 14 0.03
126 4 0.01
127 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (115 bp):
GCCACTGACTTGTTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTG
ACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGAT
Found at i:18394 original size:64 final size:63
Alignment explanation
Indices: 17958--18682 Score: 411
Period size: 59 Copynumber: 12.2 Consensus size: 63
17948 GGGCTTTGAA
* * * *
17958 GCCACCGACTTGTGTGGGCTTCGAAA--AGATGCCACTGAC-TTGTGGGCTTTG-AAA-GGAT
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* *
18016 GCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-TTGTGGGCTTTGAAAA-GG-T
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * * * * *
18072 GCCACTGATTTGTATGGGCTTTGAGAA--GGATGCCATTGAC-TTGTGGGCTTTGAGAA-GGAT
1 GCCACCGACTTGTGTGGGCTTTGA-AATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * * *
18132 GCCACTGAC-T-TGTGGGCTTTGAAA--AGATGCCACTGAC-TTGTGAGCTTTG-AAA-GGAT
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * * * * * * *
18188 GCCACTGATTTGTGCT-GGATTTGAAA-AGGATGCCACTAAC-TTATGGGCTTTGAGAA-GGAT
1 GCCACCGACTTGTG-TGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* ** * * * * *
18248 ACCACTTAC-T-TATGGGCTTTGAGAA--GGATGCCACTAAC-TTGTAGGCTTTG-AAA-GGAT
1 GCCACCGACTTGTGTGGGCTTTGA-AATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * *
18305 GCCACTGAC-T-TGTGAGCTTTGAAATGGGTTACCACCGACTTATGTGGGCTTTGAAAAGGGTT
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTT-TGTGGGCTTTGAAAAGGGTT
* * * ** *
18367 GTCACCGACTTGTGTGGGCTTTTAAATGAGTTGCCGTTGACTTGTGTGGGC-TTGGAAAGGG-T
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTT-TGTGGGCTTTGAAAAGGGTT
* * *
18429 GCCACTGAC-T-TGTGGGCTTT-AAAAGGG-TGCCACTGAC-TTGTGGGCTTTG-GAAGGG-T
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * * * *
18485 GCCACTGATTTGTGTGAGCTTTGAGAA--GGATGCCACTAAC-TTGTGGGCTTTGAAATGGGTT
1 GCCACCGACTTGTGTGGGCTTTGA-AATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
* * * * * *
18546 GCCGCCGACTTGTGTGGGCTTTGAAATGAGTTGCCATTGACTTGTGTGGGCTTTTAAATGAGTT
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTT-TGTGGGCTTTGAAAAGGGTT
* ** * * *
18610 GCCACCTACTTGTGTGGGCTTTGAAAT--AATGCCACTAAC-TTGTGGGC-TTAAAAAGGGGT
1 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
**
18669 GCCACTAACTTGTG
1 GCCACCGACTTGTG
18683 GGCTTAAAAG
Statistics
Matches: 552, Mismatches: 83, Indels: 63
0.79 0.12 0.09
Matches are distributed among these distances:
56 83 0.15
57 62 0.11
58 100 0.18
59 105 0.19
60 56 0.10
61 26 0.05
62 35 0.06
63 11 0.02
64 74 0.13
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (63 bp):
GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTTGTGGGCTTTGAAAAGGGTT
Found at i:18537 original size:211 final size:207
Alignment explanation
Indices: 17958--18748 Score: 822
Period size: 211 Copynumber: 3.8 Consensus size: 207
17948 GGGCTTTGAA
* *
17958 GCCACCGACTTGTGTGGGCTTCGAAA-AGATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCA
1 GCCACCGACTTGTGTGGGCTTTGAAAGAGATGCCACTGACTTGTGTGGGCTTGGAAAGGATGCCA
* * * *
18020 CTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGATTTGT
66 CTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGT
* * * * *
18085 ATGGGCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAGAA--GGATGCCACTGAC-TTGTGG
131 A-GAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGA-AATGGGTTGCCACCGACTTTGTGG
*
18147 GCTTTGAAAA-GAT
194 GCTTTGAAAAGGTT
* * * ** *
18160 GCCACTGAC-T-TGTGAGCTTTGAAAG-GATGCCACTGATTTGTGCTGGATTTGAAAAGGATGCC
1 GCCACCGACTTGTGTGGGCTTTGAAAGAGATGCCACTGACTTGTG-TGGGCTTGGAAAGGATGCC
* * * * * * *
18222 ACTAACTTATGGGCTTTGAGAAGGATACCACTTACTTATGGGCTTTGAGAAGGATGCCACTAACT
65 ACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAATT
* * *
18287 TGTAG-GCTTTGA-AAGGATGCCACTGACTTGTGAGCTTTGAAATGGGTTACCACCGACTTATGT
128 TGTAGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTT-TGT
18350 GGGCTTTGAAAAGGGTT
192 GGGCTTTGAAAA-GGTT
* * * ** *
18367 GTCACCGACTTGTGTGGGCTTTTAAATGAGTTGCCGTTGACTTGTGTGGGCTTGGAAAGGGTGCC
1 GCCACCGACTTGTGTGGGCTTTGAAA-GAGATGCCACTGACTTGTGTGGGCTTGGAAAGGATGCC
* * * *
18432 ACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGATTTG
65 ACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTG
* *
18497 TGTGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCGCCGACTTGTGTG
130 T-AGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTT-TGTG
*
18562 GGCTTTGAAATGAGTT
193 GGCTTTGAAAAG-GTT
** * * * **
18578 GCCATTGACTTGTGTGGGCTTTTAAATGAGTTGCCACCT-ACTTGTGTGGGCTTTGAAATAATGC
1 GCCACCGACTTGTGTGGGCTTTGAAA-GAGATGCCA-CTGACTTGTGTGGGCTTGGAAAGGATGC
* * * * * *
18642 CACTAACTTGTGGGCTTAAAAAGGGGTGCCACTAACTTGTGGGC-TTAAAAGGGATGCCACAAAG
64 CACTAACTTGTGGGCTTTAAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGG-TGCCACTAAT
* * *
18706 TTATAGA-CTTTG-GAAGGGTGCCACTAACTTGTGGGCTTAGAAA
127 TTGTAGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAA
18749 GGATGCAACG
Statistics
Matches: 490, Mismatches: 76, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
200 23 0.05
201 4 0.01
202 36 0.07
203 47 0.10
204 27 0.06
205 31 0.06
207 9 0.02
208 17 0.03
209 66 0.13
210 44 0.09
211 155 0.32
212 31 0.06
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (207 bp):
GCCACCGACTTGTGTGGGCTTTGAAAGAGATGCCACTGACTTGTGTGGGCTTGGAAAGGATGCCA
CTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATTTGT
AGAGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTTGTGGGC
TTTGAAAAGGTT
Found at i:18790 original size:27 final size:27
Alignment explanation
Indices: 18734--19107 Score: 401
Period size: 27 Copynumber: 13.7 Consensus size: 27
18724 TGCCACTAAC
* * *
18734 TTGTGGGCTTAGAAAGGATGCAACGAAG
1 TTGTGGACTTA-AAAGGATGCCACGGAG
* * *
18762 TTGTGCACTTAAAAGGATACCATGGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* *
18789 TTGTGGACTTAAAA-GAGTGCCATGAAG
1 TTGTGGACTTAAAAGGA-TGCCACGGAG
* *
18816 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* * * *
18843 GTATGGACTTTAAAAGAATGCCACGGAT
1 TTGTGGAC-TTAAAAGGATGCCACGGAG
*
18871 TTGTGGACTTGAAACGGATGCCACGGAG
1 TTGTGGACTT-AAAAGGATGCCACGGAG
* *
18899 TTGTGTACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* *
18926 TTGTGGACTTAAAAGGATGTCACAGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* *
18953 TTGTGGACTTAAAAGGATGTCACAGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* *
18980 TTGTGAACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* * * *
19007 TGGTGGACTTTAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
* * *
19034 TTATGGACTTAAATGGATGCCACGAAG
1 TTGTGGACTTAAAAGGATGCCACGGAG
19061 TTGTGGACTTTAAAAAGG-TGCCACGGAG
1 TTGTGGAC-TT-AAAAGGATGCCACGGAG
19089 TTGTGGACTTTAAAAGGAT
1 TTGTGGAC-TTAAAAGGAT
19108 TGTTAGGATC
Statistics
Matches: 290, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 206 0.71
28 77 0.27
29 5 0.02
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGATGCCACGGAG
Found at i:18875 original size:137 final size:134
Alignment explanation
Indices: 18678--19105 Score: 432
Period size: 137 Copynumber: 3.1 Consensus size: 134
18668 TGCCACTAAC
* * * ** ** *
18678 TTGTGGGCTTAAAAGGGATGCCACAAAGTTATAGACTTTGGAAGGGTGCCACTAACTTGTGGGCT
1 TTGTGGACTTAAAAGGG-TGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGACTTGTGGACT
* * *
18743 TAGAAAGGATGCAACGAAGTTGTGCACTTAAAAGGATACCATGGAGTTGTGGACTTAAAAGAGTG
65 T-GAAAGGATGCCACGAAGTTGTGCACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTG
18808 CCATGAAG
129 CCA-G-AG
* ** *
18816 TTGTGGACTTAAAAGGGTGCCACAGAGGTATGGACTTTAAAAGAATGCCACGGATTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGACTTGTGGACTT
* * *
18881 GAAACGGATGCCACGGAGTTGTGTACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GATG
66 GAAA-GGATGCCACGAAGTTGTGCACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAG-TG
18945 TCACAGAG
129 -C-CAGAG
* * * * * *
18953 TTGTGGACTTAAAAGGATGTCACAGAGTTGTGAAC-TTAAAAGGGTGCCACGGAGTGGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGACTTGTGGACTT
* * * * * *
19017 TAAAGGGTGCCAC-AGAGTTATGGACTTAAATGGATGCCACGAAGTTGTGGACTTTAAAA-AGGT
66 GAAAGGATGCCACGA-AGTTGTGCACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGA-GT
19080 GCCACGGAG
128 GCCA--GAG
19089 TTGTGGACTTTAAAAGG
1 TTGTGGAC-TTAAAAGG
19106 ATTGTTAGGA
Statistics
Matches: 244, Mismatches: 35, Indels: 23
0.81 0.12 0.08
Matches are distributed among these distances:
134 2 0.01
135 41 0.17
136 52 0.21
137 129 0.53
138 18 0.07
139 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (134 bp):
TTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGGTGCCACGGACTTGTGGACTT
GAAAGGATGCCACGAAGTTGTGCACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCC
AGAG
Found at i:18996 original size:81 final size:82
Alignment explanation
Indices: 18649--19107 Score: 426
Period size: 81 Copynumber: 5.5 Consensus size: 82
18639 TGCCACTAAC
* ** * * * * *
18649 TTGTGGGCTTAAAAAGGGGTGCCACTAACTTGTGGGCTTAAAAGGGATGCCACAAAGTTATAGAC
1 TTGTGGACTT-AAAA-GGGTGCCACGGAGTTGTGGACTTAAAA-GGATGCCACAGAGTTGTGGAC
** * * *
18714 TTTGGAAGGGTGCCAC-TAAC
63 -TTAAAAGGATGCCACAGAAG
* * * * * * **
18734 TTGTGGGCTTAGAAAGGATGCAACGAAGTTGTGCACTTAAAAGGATACCATGGAGTTGTGGACTT
1 TTGTGGACTTA-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
*
18799 AAAA-GAGTGCCA-TGAAG
65 AAAAGGA-TGCCACAGAAG
* * * * * *
18816 TTGTGGACTTAAAAGGGTGCCACAGAGGTATGGACTTTAAAAGAATGCCACGGATTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT
* *
18881 GAAACGGATGCCAC-GGAG
65 -AAAAGGATGCCACAGAAG
* *
18899 TTGTGTACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGTCACAGAGTTGTGGACTTA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTA
*
18964 AAAGGATGTCACAG-AG
66 AAAGGATGCCACAGAAG
* * * * *
18980 TTGTGAACTTAAAAGGGTGCCACGGAGTGGTGGACTTTAAAGGGTGCCACAGAGTTATGGACTTA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTA
*
19045 AATGGATGCCAC-GAAG
66 AAAGGATGCCACAGAAG
*
19061 TTGTGGACTTTAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAT
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAT
19108 TGTTAGGATC
Statistics
Matches: 309, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
80 1 0.00
81 109 0.35
82 97 0.31
83 65 0.21
84 24 0.08
85 13 0.04
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (82 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTA
AAAGGATGCCACAGAAG
Found at i:19548 original size:13 final size:13
Alignment explanation
Indices: 19530--19555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19520 TGCACACAAG
19530 ATGTATCGATACA
1 ATGTATCGATACA
19543 ATGTATCGATACA
1 ATGTATCGATACA
19556 TCCCAAAATG
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:19571 original size:33 final size:32
Alignment explanation
Indices: 19512--19575 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
19502 CTTAACTATT
* *
19512 TGTATCGATGCACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
19544 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
19576 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:25687 original size:20 final size:20
Alignment explanation
Indices: 25646--25687 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
25636 AAAATTCTAG
* *
25646 AATGTATCGATACATGTTGA
1 AATGTATCGATACATCTGGA
25666 AATGTATCGATACATCTGGA
1 AATGTATCGATACATCTGGA
25686 AA
1 AA
25688 ACTCAGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATCTGGA
Found at i:28179 original size:13 final size:13
Alignment explanation
Indices: 28163--28220 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
28153 ATATTACACA
28163 GTATCGATACATT
1 GTATCGATACATT
28176 GTATCGATACA-T
1 GTATCGATACATT
*
28188 G-A-CCA-A-A-T
1 GTATCGATACATT
28196 GTATCGATACATT
1 GTATCGATACATT
*
28209 ATATCGATACAT
1 GTATCGATACAT
28221 GACCAAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 4 0.11
11 2 0.05
12 3 0.08
13 23 0.62
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:28184 original size:33 final size:33
Alignment explanation
Indices: 28142--28242 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 33
28132 CACCTTCAAA
*
28142 TGTATCGATACAT-ATTACACA-GTATCGATACAT
1 TGTATCGATACATGA--ACAAATGTATCGATACAT
*
28175 TGTATCGATACATGACCAAATGTATCGATACAT
1 TGTATCGATACATGAACAAATGTATCGATACAT
* *
28208 TATATCGATACATGACCAAATGTATCGATAC-T
1 TGTATCGATACATGAACAAATGTATCGATACAT
28240 TGT
1 TGT
28243 TAAGAATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
32 6 0.10
33 55 0.89
34 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGAACAAATGTATCGATACAT
Found at i:28200 original size:20 final size:20
Alignment explanation
Indices: 28175--28238 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
28165 ATCGATACAT
28175 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
28195 TGTATCGATACAT-------
1 TGTATCGATACATGACCAAA
*
28208 TATATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
28228 TGTATCGATAC
1 TGTATCGATAC
28239 TTGTTAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 12 0.34
20 23 0.66
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:28338 original size:13 final size:13
Alignment explanation
Indices: 28320--28345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28310 TATACACAAG
28320 ATGTATCGATACA
1 ATGTATCGATACA
28333 ATGTATCGATACA
1 ATGTATCGATACA
28346 TCCCAAAATG
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:28362 original size:33 final size:32
Alignment explanation
Indices: 28302--28365 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
28292 CTTAACTGTT
* *
28302 TGTATCGATATACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
28334 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
28366 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:29138 original size:27 final size:27
Alignment explanation
Indices: 29096--29147 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
29086 TTGAGCTTTC
*
29096 AAGGATGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACAGAGTTATGGACTTAA
**
29123 AAGGATGCCATGGAGTTATGGACTT
1 AAGGATGCCACAGAGTTATGGACTT
29148 TGAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (27 bp):
AAGGATGCCACAGAGTTATGGACTTAA
Found at i:30459 original size:45 final size:46
Alignment explanation
Indices: 30409--30509 Score: 111
Period size: 46 Copynumber: 2.2 Consensus size: 46
30399 GCATTCATGT
* * *
30409 CTTTTTTTTGGATTTTTGTTGTTCCT-TTTT-TA-TTTTGCTTTTG-C
1 CTTTTTTTTGG-TTTTTCTT-TTCATATTTTGTACTTTTACTTTTGAC
*
30453 ACTTTTTTTTTGTTTTTCTTTTCATATTTTGTACTTTTACTTTTGAC
1 -CTTTTTTTTGGTTTTTCTTTTCATATTTTGTACTTTTACTTTTGAC
30500 CTTTTTTTTG
1 CTTTTTTTTG
30510 TCATTTTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.09
44 11 0.23
45 12 0.26
46 19 0.40
47 1 0.02
ACGTcount: A:0.08, C:0.12, G:0.10, T:0.70
Consensus pattern (46 bp):
CTTTTTTTTGGTTTTTCTTTTCATATTTTGTACTTTTACTTTTGAC
Found at i:31267 original size:13 final size:13
Alignment explanation
Indices: 31249--31276 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31239 ATTACTCAAA
31249 TGTATCGATACAT
1 TGTATCGATACAT
31262 TGTATCGATACAT
1 TGTATCGATACAT
31275 TG
1 TG
31277 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40442 original size:20 final size:20
Alignment explanation
Indices: 40414--40460 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
40404 ATGTTTTTTA
* * *
40414 CTTTTTTTTTCTTTTTCTTC
1 CTTTCTTTTTCATCTTCTTC
*
40434 CTTTCTTTTTCATCTTCTTT
1 CTTTCTTTTTCATCTTCTTC
40454 CTTTCTT
1 CTTTCTT
40461 ACCTAACCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTTTCATCTTCTTC
Found at i:54163 original size:13 final size:13
Alignment explanation
Indices: 54145--54170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54135 TACAGCAAGT
54145 ATGTATCGATACA
1 ATGTATCGATACA
54158 ATGTATCGATACA
1 ATGTATCGATACA
54171 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:56423 original size:21 final size:22
Alignment explanation
Indices: 56385--56431 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
56375 TTGCAAGTTG
* *
56385 AAATAAAGAAGTTGGCTAATAA
1 AAATAAAGAAGTTAGCTAAGAA
*
56407 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAGAA
56428 AAAT
1 AAAT
56432 GAAAACTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAAGAA
Found at i:58253 original size:15 final size:15
Alignment explanation
Indices: 58233--58263 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58223 TAAAAATGTC
*
58233 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
58248 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
58263 C
1 C
58264 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:60350 original size:13 final size:13
Alignment explanation
Indices: 60332--60357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60322 ACATTTTTCT
60332 TTGTATCGATACA
1 TTGTATCGATACA
60345 TTGTATCGATACA
1 TTGTATCGATACA
60358 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:60521 original size:20 final size:20
Alignment explanation
Indices: 60478--60523 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
60468 AAATCTTTTG
60478 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
60499 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
60519 CAAAA
1 CAAAA
60524 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:63982 original size:9 final size:8
Alignment explanation
Indices: 63945--64017 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
63935 TCCTTCGTAC
63945 CAAACAAAA
1 CAAA-AAAA
63954 -AAAAAAA
1 CAAAAAAA
*
63961 CAAAAATA
1 CAAAAAAA
*
63969 TAAAAGAAA
1 CAAAA-AAA
63978 CAAAAAAAA
1 C-AAAAAAA
*
63987 TTAAAAAAA
1 -CAAAAAAA
*
63996 CCAAAAAA
1 CAAAAAAA
*
64004 CAAACAAA
1 CAAAAAAA
64012 CAAAAA
1 CAAAAA
64018 TATAAGGGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
7 4 0.08
8 30 0.60
9 12 0.24
10 4 0.08
ACGTcount: A:0.81, C:0.12, G:0.01, T:0.05
Consensus pattern (8 bp):
CAAAAAAA
Found at i:63983 original size:18 final size:18
Alignment explanation
Indices: 63950--64003 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
63940 CGTACCAAAC
*
63950 AAAAAAAAAAACAAAAATAT
1 AAAAAAACAAA-AAAAAT-T
63970 AAAAGAAACAAAAAAAATT
1 AAAA-AAACAAAAAAAATT
63989 AAAAAAACCAAAAAA
1 AAAAAAA-CAAAAAA
64004 CAAACAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 12 0.39
20 10 0.32
21 6 0.19
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (18 bp):
AAAAAAACAAAAAAAATT
Found at i:63984 original size:19 final size:18
Alignment explanation
Indices: 63950--64003 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
63940 CGTACCAAAC
*
63950 AAAAAAAAAAACAAAAATAT
1 AAAAAAACAAA-AAAAAT-T
63970 AAAAGAAACAAAAAAAATT
1 AAAA-AAACAAAAAAAATT
*
63989 AAAAAAACCAAAAAA
1 AAAAAAACAAAAAAA
64004 CAAACAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 10 0.32
19 5 0.16
20 10 0.32
21 6 0.19
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (18 bp):
AAAAAAACAAAAAAAATT
Found at i:65247 original size:28 final size:28
Alignment explanation
Indices: 65173--65583 Score: 288
Period size: 28 Copynumber: 14.6 Consensus size: 28
65163 CTTGACCCTT
* *
65173 TTCAAAGCCCATAAGTTAGTGGCATCCTTC
1 TTCAAAGCCCACAAGTCAGTGGCAT--TTC
*
65203 -TCAAAGCCCATAAGTCAGTGGCATTTC
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
* * *
65230 TTCAAAGCCCATAGGTCAGTGGCATCGT-
1 TTCAAAGCCCACAAGTCAGTGGCAT-TTC
** *
65258 TTCAAAGTTCACAAGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
* *
65286 TTCGAAGCCCACAAGTCAGTGGCAACCCTT-
1 TTCAAAGCCCACAAGTCAGTGGC-A--TTTC
*
65316 TTCAAAGCCCACAAGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
* * *
65344 TTCAAAACCCACAAGTTAGTGGCA-TCC
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
** * *
65371 TTTCAAAGCTGACATGTCAGTGGCATCTC
1 -TTCAAAGCCCACAAGTCAGTGGCATTTC
*
65400 TTCAAAGCCCACAAGTCAGTGGCATTTT
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
* *
65428 TTCAAAGCCCACAGGTCAGTGGCACCCTT-
1 TTCAAAGCCCACAAGTCAGTGGCA--TTTC
* * ** *
65457 TT-GAAGCGCACAAGTTGGTGGCA-CTC
1 TTCAAAGCCCACAAGTCAGTGGCATTTC
* * * *
65483 TTCCAAAACTCACAAGTAAGTGGCAGCCTT-
1 TT-CAAAGCCCACAAGTCAGTGGCA--TTTC
* *
65513 TTC--AGCCCACAAGTTAGTGGCACTAT-
1 TTCAAAGCCCACAAGTCAGTGGCA-TTTC
* *
65539 TTCAAAGCCCACAAGATTAGTGGCATCAT-
1 TTCAAAGCCCACAAG-TCAGTGGCAT-TTC
65568 TTCAAAGCCCACAAGT
1 TTCAAAGCCCACAAGT
65584 TAGTAAAGCC
Statistics
Matches: 309, Mismatches: 51, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.00
26 7 0.02
27 22 0.07
28 195 0.63
29 56 0.18
30 26 0.08
31 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATTTC
Found at i:65288 original size:56 final size:56
Alignment explanation
Indices: 65173--66828 Score: 1196
Period size: 56 Copynumber: 29.9 Consensus size: 56
65163 CTTGACCCTT
* * * *
65173 TTCAAAGCCCATAAGTTAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATTTC
1 TTCAAAGCCCACAAGTTAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * **
65230 TTCAAAGCCCATAGGTCAGTGGCATCGTTTCAAAGTTCACAAGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * *
65286 TTCGAAGCCCACAAGTCAGTGGCAACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * ** *
65344 TTCAAAACCCACAAGTTAGTGGCATCCTTTCAAAGCTGACATGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * *
65400 TTCAAAGCCCACAAGTCAGTGGCATTTTTTCAAAGCCCACAGGTCAGTGGCA-CCC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
** * * * * * * * *
65455 TTTTGAAGCGCACAAGTTGGTGGCA-CTCTTCCAAAACTCACAAGTAAGTGGCAGCCTT
1 -TTCAAAGCCCACAAGTTAGTGGCATCT-TTTCAAAGCCCACAAGTCAGTGGCA-TCTC
*
65513 TTC--AGCCCACAAGTTAGTGGCA-CTATTTCAAAGCCCACAAGATTAGTGGCATCAT-
1 TTCAAAGCCCACAAGTTAGTGGCATCT-TTTCAAAGCCCACAAG-TCAGTGGCATC-TC
* * *
65568 TTCAAAGCCCACAAGTTA---G-------T-AAAGCCCAGAAGTTAATGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * **
65613 TTTAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAGGTCAGTACCATC-C
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * *
65668 TTTCAAAGCCCACAAGTTAGTGGCACCTTTTTTAAA-CCCATAAGTCGGTGGCA-CCC
1 -TTCAAAGCCCACAAGTTAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCATCTC
* ** * *
65724 TTCCAAAGCCCATAAGCAAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA-CTAT
1 TT-CAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCT-C
* * *
65782 TTCAAAGCCCCCAAGTTAGTGGCATCATTTCAAAGCCCATAAGTCAGTGGCATC-C
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * *
65837 TTTCAAAGTCCATAAGTAAGTGGCACCCTTTT-TAAGCCCACAAGT-AGTGGCA-C-C
1 -TTCAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* ** * *
65891 TTCAAAAGCCCATAAGCAAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCA-CTAT
1 TTC-AAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCT-C
* * *
65949 TTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCGACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * *
66005 TTCAAAGCCAACAAGTTAGTGACACCATTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * * *
66061 TTCAAAGTCAACAAGGTAGTGGCATCCTTTCAAAGCTCACAAGTTAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * * *
66117 TTCAAAGGCCACAGGTCAGTGGCATC----C----CCCATAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * *
66165 TTCAAAGCCCACAGGTTAGTGGCATC----C----CCCATAAGTCAGTAGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * *
66213 TTTAAAGCCCACAAGTCAGTGGCAACCCTTTTCAAAGCCCATAAGTCAATGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * *
66271 TTTAAAACCCATAGGTCAGTGGCAT-TCTTTCAAAGCCCACAAGTCAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCT-TTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * * * * *
66327 TTCAAAACCCATAGGTTAGTGGCA-----TCAAAGACCATAGGTGAGTGGCATCCC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
** * * ** * * * * *
66378 TTTTAATCCCACTAGTCGGTGGCACCCTTCCAAAGCGCACAAG-CAAGTGGCA-CCC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTC-AGTGGCATCTC
* *
66433 TTTCCAAAGCTCACAAGTTAGTGGCA-CTATTTTAAAGCCCACAAGGT-AGTGGCATCAT-
1 -TT-CAAAGCCCACAAGTTAGTGGCATCT-TTTCAAAGCCCACAA-GTCAGTGGCATC-TC
*
66491 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * ** *
66547 CTCAAAGCCCACAGGTTAGTGGCATCTATT-AGAAGCCCACGGGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCA-AAGCCCACAAGTCAGTGGCATCTC
* * * ** * * *
66603 TTCAAAGTCCACAAGTCAGTGGCACCTTTTTTAAGCCCATAAGTC-GATGACA-CCC
1 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAG-TGGCATCTC
* ** * *
66658 TTCCAAAGTCCACAAGCAAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TT-CAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
* * * * * * *
66716 TTCAAAGCCAACAAG-TCGATGGCACCATTTCAAAACCCACAAGTCAATGGCATACCC
1 TTCAAAGCCCACAAGTTAG-TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTC
** *
66773 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCTACACAAGTTAGTG
1 -TTCAAAG-CC-CACAAGTTAGTGGC-A-TCTTTTCAAAGCC--CACAAGTCAGTG
66829 ACACCTTTTT
Statistics
Matches: 1292, Mismatches: 225, Indels: 157
0.77 0.13 0.09
Matches are distributed among these distances:
44 1 0.00
45 26 0.02
46 11 0.01
47 1 0.00
48 82 0.06
49 1 0.00
50 1 0.00
51 38 0.03
52 1 0.00
53 3 0.00
54 27 0.02
55 75 0.06
56 700 0.54
57 186 0.14
58 106 0.08
59 2 0.00
60 9 0.01
61 2 0.00
62 10 0.01
64 10 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTC
Found at i:65439 original size:84 final size:84
Alignment explanation
Indices: 65170--66837 Score: 1172
Period size: 84 Copynumber: 20.1 Consensus size: 84
65160 CATCTTGACC
* * *
65170 CTTTTCAAAGCCCATAAGTTAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATTTCTTCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* *
65235 AGCCCATAGGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* ** * * * *
65255 CGTTTCAAAGTTCACAAGTCAGTGGCAT-CTCTTCGAAGCCCACAAGTCAGTGGCAACCCTTTTC
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGC-A-TCTCTTC
65319 AAAGCCCACAAGTCAGTGGCAT
63 AAAGCCCACAAGTCAGTGGCAT
* * ** *
65341 CTCTTCAAAACCCACAAGTTAGTGGCATCCTTTCAAAGCTGACATGTCAGTGGCATCTCTTCAAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
65406 GCCCACAAGTCAGTGGCAT
66 GCCCACAAGTCAGTGGCAT
* * * * ** * **
65425 TTTTTCAAAGCCCACAGGTCAGTGGCACCCTTTTGAAGCGCACAAGTTGGTGGCA-CTCTTCCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTT-CAA
* * * *
65489 AACTCACAAGTAAGTGGCAGC
65 AGCCCACAAGTCAGTGGCA-T
* *
65510 CTTTTC--AGCCCACAAGTTAGTGGCA-CTATTTCAAAGCCCACAAGATTAGTGGCATCAT-TTC
1 CTTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAG-TCAGTGGCATC-TCTTC
65571 AAAGCCCACAAGT---T---A-
63 AAAGCCCACAAGTCAGTGGCAT
* * * * *
65586 ---GT-AAAGCCCAGAAGTTAATGGCATCTCTTT-AAAGCCCACAAGTCAGTGGCACCTTTTCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* **
65646 AGCCCACAGGTCAGTACCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * *
65666 CCTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTTTAAA-CCCATAAGTCGGTGGCA-CCCTTCC
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCC--TTTCAAAGCCCACAAGTCAGTGGCATCTCTT-C
* *
65728 AAAGCCCATAAG-CAAGTGGCACC
63 AAAGCCCACAAGTC-AGTGGCA-T
* * * *
65751 CTTTTCAAAGCCCACAAGTCAGTGGCA-CTATTTCAAAGCCCCCAAGTTAGTGGCATCAT-TTCA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATC-TCTTCA
*
65814 AAGCCCATAAGTCAGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * * * * **
65835 CCTTTCAAAGTCCATAAGTAAGTGGCACCCTTTTTAAGCCCACAAGT-AGTGGCA-C-CTTCAAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTC-AA
*
65897 AGCCCATAAG-CAAGTGGCATT
65 AGCCCACAAGTC-AGTGGCA-T
* * * *
65918 TTTTTCAAAGCCCACAAGTCAGTGGCA-CTATTTCAAAGCCCACAAGTTAGTGGCATCAT-TTCA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATC-TCTTCA
*
65981 AAGCCGACAAGTCAGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * *
66002 CTTTTCAAAGCCAACAAGTTAGTGACA-CCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* *
66066 AGTCAACAAGGT-AGTGGCAT
65 AGCCCACAA-GTCAGTGGCAT
* * * *
66086 CCTTTCAAAGCTCACAAGTTAGTGGCAT-CTCTTCAAAGGCCACAGGTCAGTGGCA--TC--C--
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* *
66144 --CCCATAAGTTAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * * *
66162 CTTTTCAAAGCCCACAGGTTAGTGGCAT-C---C----CCCATAAGTCAGTAGCATCTCTTTAAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
*
66219 GCCCACAAGTCAGTGGCAACC
66 GCCCACAAGTCAGTGGC-A-T
* * * * * *
66240 CTTTTCAAAGCCCATAAGTCAATGGCATCTCTTT-AAAACCCATAGGTCAGTGGCAT-TCTTTCA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCTC-TTCA
66303 AAGCCCACAAGTCAGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * * * * * * * * **
66324 CTCTTCAAAACCCATAGGTTAGTGGCA-----TCAAAGACCATAGGTGAGTGGCATCCCTTTTAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
* * * *
66384 TCCCACTAGTCGGTGGCAC
66 GCCCACAAGTCAGTGGCAT
* * * ** * * * * *
66403 CCTTCCAAAGCGCACAAGCAAGTGGCACCCTTTCCAAAGCTCACAAGTTAGTGGCA-CTATTTTA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTT-CAAAGCCCACAAGTCAGTGGCATCT-CTTCA
66467 AAGCCCACAAGGT-AGTGGCAT
64 AAGCCCACAA-GTCAGTGGCAT
* * * *
66488 CATTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCATCTCCTCAAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
* *
66553 GCCCACAGGTTAGTGGCAT
66 GCCCACAAGTCAGTGGCAT
* ** * * * * * **
66572 CTATT-AGAAGCCCACGGGTCAGTGGCATCTTTTCAAAGTCCACAAGTCAGTGGCACCTTTTTTA
1 CTTTTCA-AAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* * *
66636 AGCCCATAAGTC-GATGACAC
65 AGCCCACAAGTCAG-TGGCAT
* * * ** * *
66656 CCTTCCAAAGTCCACAAGCAAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAA
* *
66721 AGCCAACAAGTC-GATGGCAC
65 AGCCCACAAGTCAG-TGGCAT
* * * * * *
66741 CATTTCAAAACCCACAAGTCAATGGCATACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 CTTTTCAAAGCCCACAAGTTAGTGGCAT--CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTC
* * *
66806 TTCAAAGCCTACACAAGTTAGTGACAC
60 TTCAAAGCC--CACAAGTCAGTGGCAT
66833 CTTTT
1 CTTTT
66838 TTTTTAAACC
Statistics
Matches: 1255, Mismatches: 230, Indels: 189
0.75 0.14 0.11
Matches are distributed among these distances:
68 13 0.01
70 2 0.00
72 2 0.00
73 25 0.02
74 29 0.02
75 7 0.01
76 53 0.04
77 1 0.00
78 26 0.02
79 57 0.05
80 3 0.00
81 5 0.00
82 24 0.02
83 92 0.07
84 495 0.39
85 250 0.20
86 122 0.10
87 6 0.00
88 13 0.01
89 1 0.00
90 13 0.01
92 15 0.01
93 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (84 bp):
CTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
GCCCACAAGTCAGTGGCAT
Found at i:65620 original size:45 final size:46
Alignment explanation
Indices: 65542--65628 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
65532 GCACTATTTC
*
65542 AAAGCCCACAAGATTAGTGGCATCATTTCAAAGCCCACAAGTTAGT
1 AAAGCCCACAAGATTAATGGCATCATTTCAAAGCCCACAAGTTAGT
* *
65588 AAAGCCCAGAAG-TTAATGGCATC-TCTTTAAAGCCCACAAGT
1 AAAGCCCACAAGATTAATGGCATCAT-TTCAAAGCCCACAAGT
65629 CAGTGGCACC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 1 0.03
45 25 0.68
46 11 0.30
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (46 bp):
AAAGCCCACAAGATTAATGGCATCATTTCAAAGCCCACAAGTTAGT
Found at i:65628 original size:28 final size:28
Alignment explanation
Indices: 65587--66806 Score: 629
Period size: 28 Copynumber: 44.0 Consensus size: 28
65577 CACAAGTTAG
* * *
65587 TAAAGCCCAGAAGTTAATGGCATCTCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
*
65615 TAAAGCCCACAAGTCAGTGGCACCT-TT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* **
65642 TCAAAGCCCACAGGTCAGTACCATC-CTT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * *
65670 TCAAAGCCCACAAGTTAGTGGCACCTTTTT
1 T-AAAGCCCACAAGTCAGTGGCATC-TCTT
* * *
65700 TAAA-CCCATAAGTCGGTGGCA-CCCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * *
65726 CCAAAGCCCATAAG-CAAGTGGCA-CCCTTT
1 -TAAAGCCCACAAGTC-AGTGGCATCTC-TT
*
65755 TCAAAGCCCACAAGTCAGTGGCA-CTATT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* *
65783 TCAAAGCCCCCAAGTTAGTGGCATCAT-TT
1 T-AAAGCCCACAAGTCAGTGGCATC-TCTT
* *
65812 CAAAGCCCATAAGTCAGTGGCATC-CTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * * *
65839 TCAAAGTCCATAAGTAAGTGGCA-CCCTTT
1 T-AAAGCCCACAAGTCAGTGGCATCTC-TT
*
65868 TTAAGCCCACAAGT-AGTGGCA-C-CTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * * *
65893 CAAAAGCCCATAAG-CAAGTGGCATTTTTT
1 -TAAAGCCCACAAGTC-AGTGGCATCTCTT
*
65922 TCAAAGCCCACAAGTCAGTGGCA-CTATT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
*
65950 TCAAAGCCCACAAGTTAGTGGCATCAT-TT
1 T-AAAGCCCACAAGTCAGTGGCATC-TCTT
* *
65979 CAAAGCCGACAAGTCAGTGGCATCT-TT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * *
66006 TCAAAGCCAACAAGTTAGTGACA-C-CATT
1 T-AAAGCCCACAAGTCAGTGGCATCTC-TT
66034 TCAAAGCCCACAAGTCAGTGGCATCT-TT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* *
66062 TCAAAGTCAACAAGGT-AGTGGCATC-CTT
1 T-AAAGCCCACAA-GTCAGTGGCATCTCTT
* *
66090 TCAAAGCTCACAAGTTAGTGGCATCTCTT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * *
66119 CAAAGGCCACAGGTCAGTGGCATC-C--
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* *
66144 -----CCCATAAGTTAGTGGCATCT-TT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* *
66166 TCAAAGCCCACAGGTTAGTGGCATC-C--
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* *
66192 -----CCCATAAGTCAGTAGCATCTCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* *
66215 TAAAGCCCACAAGTCAGTGGCAACCCTTT
1 TAAAGCCCACAAGTCAGTGGCATCTC-TT
* *
66244 TCAAAGCCCATAAGTCAATGGCATCTCTT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * *
66273 TAAAACCCATAGGTCAGTGGCAT-TCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
66300 TCAAAGCCCACAAGTCAGTGGCATCTCTT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * * * *
66329 CAAAACCCATAGGTTAGTGGCA--TC--
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * * * *
66353 -AAAGACCATAGGTGAGTGGCATCCCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * * * *
66380 TTAATCCCACTAGTCGGTGGCA-CCCTT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* * *
66407 CCAAAGCGCACAAG-CAAGTGGCA-CCCTT
1 -TAAAGCCCACAAGTC-AGTGGCATCTCTT
* * *
66435 TCCAAAGCTCACAAGTTAGTGGCA-CTATTT
1 T--AAAGCCCACAAGTCAGTGGCATCT-CTT
66465 TAAAGCCCACAAGGT-AGTGGCATCAT-TT
1 TAAAGCCCACAA-GTCAGTGGCATC-TCTT
* *
66493 CAAAGCCCACAAGTTAGTGGCATCT-TT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
* *
66520 TCAAAGCCCACAAGTTAGTGGCATCTCCT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * * *
66549 CAAAGCCCACAGGTTAGTGGCATCT-AT
1 TAAAGCCCACAAGTCAGTGGCATCTCTT
**
66576 TAGAAGCCCACGGGTCAGTGGCATCT-TT
1 TA-AAGCCCACAAGTCAGTGGCATCTCTT
* * *
66604 TCAAAGTCCACAAGTCAGTGGCACCTTTT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
* * * *
66633 TTAAGCCCATAAGTC-GATGACA-CCCTT
1 TAAAGCCCACAAGTCAG-TGGCATCTCTT
* * *
66660 CCAAAGTCCACAAG-CAAGTGGCA-CCCTTT
1 -TAAAGCCCACAAGTC-AGTGGCATCTC-TT
66689 TCAAAGCCCACAAGTCAGTGGCATCT-TT
1 T-AAAGCCCACAAGTCAGTGGCATCTCTT
*
66717 TCAAAGCCAACAAGTC-GATGGCA-C-CATT
1 T-AAAGCCCACAAGTCAG-TGGCATCTC-TT
* * *
66745 TCAAAACCCACAAGTCAATGGCATACCCTT
1 T-AAAGCCCACAAGTCAGTGGCAT-CTCTT
* *
66775 TCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 T-AAAG-CC-CACAAGTCAGTGGCATCTCTT
66806 T
1 T
66807 TCAAAGCCTA
Statistics
Matches: 942, Mismatches: 157, Indels: 183
0.73 0.12 0.14
Matches are distributed among these distances:
20 30 0.03
21 1 0.00
23 18 0.02
25 3 0.00
26 15 0.02
27 58 0.06
28 637 0.68
29 117 0.12
30 42 0.04
31 8 0.01
32 13 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (28 bp):
TAAAGCCCACAAGTCAGTGGCATCTCTT
Found at i:66177 original size:48 final size:48
Alignment explanation
Indices: 66101--66236 Score: 202
Period size: 48 Copynumber: 2.8 Consensus size: 48
66091 CAAAGCTCAC
* *
66101 AAGTTAGTGGCATCTCTTCAAAGGCCACAGGTCAGTGGCATCCCCCAT
1 AAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCCCCAT
*
66149 AAGTTAGTGGCATCTTTTCAAAGCCCACAGGTTAGTGGCATCCCCCAT
1 AAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCCCCAT
* * *
66197 AAGTCAGTAGCATCTCTTT-AAAGCCCACAAGTCAGTGGCA
1 AAGTTAGTGGCATCT-TTTCAAAGCCCACAGGTCAGTGGCA
66237 ACCCTTTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 77 0.96
49 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (48 bp):
AAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCCCCAT
Found at i:68038 original size:10 final size:10
Alignment explanation
Indices: 68023--68060 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
68013 TCTCATTGGT
68023 ATATTTTCTA
1 ATATTTTCTA
68033 ATATTTTCTA
1 ATATTTTCTA
68043 ATATTTTCTA
1 ATATTTTCTA
68053 ATATTTTC
1 ATATTTTC
68061 ACTTTCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTTCTA
Found at i:72510 original size:19 final size:20
Alignment explanation
Indices: 72465--72518 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
72455 CTGCCAGTTT
**
72465 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
72485 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
72504 CATGTATCGATACAA
1 CATGTATCGATACAA
72519 AGCATGATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:73682 original size:20 final size:21
Alignment explanation
Indices: 73657--73710 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
73647 CATTTTAGGC
73657 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
73677 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
73698 TTGTATCAATACA
1 ATGTATCGATACA
73711 AACTATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:74510 original size:20 final size:20
Alignment explanation
Indices: 74487--74540 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
74477 CACATCCAGA
74487 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
74507 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
74527 TGTATCGATACATT
1 TGTATCGATACATT
74541 GTATCGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:74544 original size:13 final size:13
Alignment explanation
Indices: 74526--74552 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74516 ACATTATGCT
74526 TTGTATCGATACA
1 TTGTATCGATACA
74539 TTGTATCGATACA
1 TTGTATCGATACA
74552 T
1 T
74553 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:74548 original size:33 final size:32
Alignment explanation
Indices: 74506--74568 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
74496 ACATTATGCT
*
74506 TTGTATCGATACATTATGCTTTGTATCGATACA
1 TTGTATCGATACA-TATGCATTGTATCGATACA
*
74539 TTGTATCGATACATATTCATTGTATCGATA
1 TTGTATCGATACATATGCATTGTATCGATA
74569 TATGCATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (32 bp):
TTGTATCGATACATATGCATTGTATCGATACA
Found at i:74585 original size:52 final size:52
Alignment explanation
Indices: 74487--74591 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 52
74477 CACATCCAGA
* *
74487 TGTATCGATACATTATGCTTTGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATA-ATTATGCTTTCTATCGATACAT
*
74540 TGTATCGATACA-TATTCATTGTATCGAT-A-TATGCATAATTCTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATAATTATGC-T--TTCTATCGATACAT
74592 GAAACTGGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
49 5 0.11
50 2 0.04
52 27 0.59
53 12 0.26
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (52 bp):
TGTATCGATACATTATGCATTGTATCGATAATTATGCTTTCTATCGATACAT
Found at i:81038 original size:20 final size:20
Alignment explanation
Indices: 81013--81134 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
81003 TACCCAGATA
81013 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
*
81033 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
*
81053 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
81073 TATCGATACATTCTGTCTTTTTACCCAGATG
1 TATCGATACA-------TTTTT---CA-ATG
81104 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
81124 TATCGATACAT
1 TATCGATACAT
81135 CTAGTTTAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 22
0.79 0.02 0.19
Matches are distributed among these distances:
20 63 0.71
21 2 0.02
24 5 0.06
27 4 0.04
30 2 0.02
31 13 0.15
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:86117 original size:33 final size:33
Alignment explanation
Indices: 86080--86146 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
86070 CAAAAGTTGA
*
86080 TCACTTCACTTTCGTAGCACATGAATGAGCACT
1 TCACTTCACTCTCGTAGCACATGAATGAGCACT
86113 TCACTTCACTCTCGTAGCACATGAATGAGCACT
1 TCACTTCACTCTCGTAGCACATGAATGAGCACT
86146 T
1 T
86147 TAGTGCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTCGTAGCACATGAATGAGCACT
Found at i:91398 original size:33 final size:32
Alignment explanation
Indices: 91360--91426 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
91350 GTTACAAGCT
91360 ATGTATCGATACAATTCAT-CATGTATCGATACA
1 ATGTATCGATAC-ATT-ATACATGTATCGATACA
91393 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATA-CATGTATCGATACA
91426 A
1 A
91427 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 27 0.84
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
ATGTATCGATACATTATACATGTATCGATACA
Found at i:91411 original size:20 final size:20
Alignment explanation
Indices: 91388--91425 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
91378 TCATGTATCG
91388 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
91408 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
91426 AATAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:91424 original size:13 final size:13
Alignment explanation
Indices: 91380--91405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91370 ACAATTCATC
91380 ATGTATCGATACA
1 ATGTATCGATACA
91393 ATGTATCGATACA
1 ATGTATCGATACA
91406 TTATACCATG
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:91496 original size:63 final size:63
Alignment explanation
Indices: 91393--91552 Score: 268
Period size: 63 Copynumber: 2.5 Consensus size: 63
91383 TATCGATACA
* *
91393 ATGTATCGATAC-ATTATACCATGTATCGATACAAATAGTGGTAGGGTAGCTACTGCCAATCTC
1 ATGTATCGATACAATTGT-CCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
* *
91456 CTGTATCGATACAATTGTCCATGTATCGATACAAACAGTGGTAGGGTAGCTATTGCCAATCTC
1 ATGTATCGATACAATTGTCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
91519 ATGTATCGATACAATTGTCCATGTATCGATACAA
1 ATGTATCGATACAATTGTCCATGTATCGATACAA
91553 TTAACATGTA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
63 87 0.96
64 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (63 bp):
ATGTATCGATACAATTGTCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
Found at i:91543 original size:20 final size:20
Alignment explanation
Indices: 91518--91575 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
91508 TTGCCAATCT
*
91518 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
91538 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGTA
91557 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
91576 TCAATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 14 0.41
20 17 0.50
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:100163 original size:19 final size:19
Alignment explanation
Indices: 100119--100190 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
100109 CTTCCAATCT
**
100119 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATT-AA
100139 CATGTATCGATACAATTAA
1 CATGTATCGATACAATTAA
100158 CATGTATCGATACAATTAA
1 CATGTATCGATACAATTAA
100177 CATGTATCGATACA
1 CATGTATCGATACA
100191 TTGTATCGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 33 0.66
20 17 0.34
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATTAA
Found at i:100197 original size:13 final size:13
Alignment explanation
Indices: 100179--100203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100169 ACAATTAACA
100179 TGTATCGATACAT
1 TGTATCGATACAT
100192 TGTATCGATACA
1 TGTATCGATACA
100204 AAGCATAATG
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:101945 original size:34 final size:34
Alignment explanation
Indices: 101900--101987 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
101890 TCCTCTAAAT
* *
101900 AAGAAACAACAAAAGAAAA-AAGAAAAAGGAAAAA
1 AAGAAA-AACAAAAGAAAACAAAAAAAAGCAAAAA
* *
101934 AATGAAAAACAAAAAAAAACAAAAAAAAGCAATAA
1 AA-GAAAAACAAAAGAAAACAAAAAAAAGCAAAAA
*
101969 AAGAAAAAGAAAAAGAAAA
1 AAGAAAAA-CAAAAGAAAA
101988 GTGTCAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 19 0.42
35 26 0.58
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (34 bp):
AAGAAAAACAAAAGAAAACAAAAAAAAGCAAAAA
Found at i:101957 original size:16 final size:16
Alignment explanation
Indices: 101900--102027 Score: 69
Period size: 16 Copynumber: 7.2 Consensus size: 16
101890 TCCTCTAAAT
101900 AAGAAACAACAAAAGAAAA
1 AAGAAA-AAC-AAA-AAAA
**
101919 AAGAAAAAGGAAAAAA
1 AAGAAAAACAAAAAAA
*
101935 ATGAAAAACAAAAAAA
1 AAGAAAAACAAAAAAA
*
101951 AACAAAAA-AAAGCAATAA
1 AAGAAAAACAAA--AA-AA
*
101969 AAGAAAAAGAAAAAGAA
1 AAGAAAAACAAAAA-AA
*
101986 AAGTGTCAAATAGCAAGAAAAA
1 AA--G--AAA-AACAA-AAAAA
*
102008 GAGAAAAACAAAAAAA
1 AAGAAAAACAAAAAAA
102024 AAGA
1 AAGA
102028 TGACGAAATG
Statistics
Matches: 85, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
15 3 0.04
16 31 0.36
17 14 0.16
18 14 0.16
19 10 0.12
20 1 0.01
21 3 0.04
22 6 0.07
23 3 0.04
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (16 bp):
AAGAAAAACAAAAAAA
Found at i:101988 original size:5 final size:6
Alignment explanation
Indices: 101910--101987 Score: 52
Period size: 6 Copynumber: 12.5 Consensus size: 6
101900 AAGAAACAAC
* * * * *
101910 AAAAGAA AAAAGA AAAAG- GAAA-A AAATGA AAAACA AAAAAA AACAAAA
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA
101958 AAAAGCAA TAAAAGA AAAAGA AAAAGA AAA
1 AAAAG--A -AAAAGA AAAAGA AAAAGA AAA
101988 GTGTCAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
5 5 0.09
6 35 0.60
7 12 0.21
8 1 0.02
9 5 0.09
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:103237 original size:26 final size:26
Alignment explanation
Indices: 103208--103260 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
103198 GCATCATTTC
*
103208 ATACGTATCTACATTTTAAATGACAT
1 ATACATATCTACATTTTAAATGACAT
103234 ATACATATCTACATTTTAAATGACAT
1 ATACATATCTACATTTTAAATGACAT
103260 A
1 A
103261 AGTGTTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (26 bp):
ATACATATCTACATTTTAAATGACAT
Found at i:107841 original size:20 final size:20
Alignment explanation
Indices: 107762--107851 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 20
107752 GCATGTATAT
* *
107762 ATACATTGAAGAATGTATTG
1 ATACATTTAAGAATGTATCG
* * *
107782 ACACA-ATGAGAAATGTATCG
1 ATACATTTAAG-AATGTATCG
*
107802 ATACAATTGTAAGCATGTATCG
1 ATAC-ATT-TAAGAATGTATCG
**
107824 ATACATTTACTAATGTATCG
1 ATACATTTAAGAATGTATCG
*
107844 ATATATTT
1 ATACATTT
107852 CCTTGGCAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.04
20 32 0.60
21 4 0.08
22 12 0.23
23 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
ATACATTTAAGAATGTATCG
Found at i:107920 original size:20 final size:21
Alignment explanation
Indices: 107895--107949 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
107885 ACATTTTAGG
*
107895 TATGTATTGATAAATTCACT-
1 TATGTATCGATAAATTCACTA
* *
107915 TATGTATCGATACATTTACTA
1 TATGTATCGATAAATTCACTA
*
107936 TATGTATGGATAAA
1 TATGTATCGATAAA
107950 ATTGTAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (21 bp):
TATGTATCGATAAATTCACTA
Found at i:107941 original size:21 final size:21
Alignment explanation
Indices: 107876--107947 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
107866 AGGGTGGTTT
107876 TGTATCGATACATTT--TAGGTA
1 TGTATCGATACATTTACTA--TA
* * *
107897 TGTATTGATAAATTCACT-TA
1 TGTATCGATACATTTACTATA
107917 TGTATCGATACATTTACTATA
1 TGTATCGATACATTTACTATA
*
107938 TGTATGGATA
1 TGTATCGATA
107948 AAATTGTAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.41
21 23 0.56
23 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (21 bp):
TGTATCGATACATTTACTATA
Found at i:108760 original size:52 final size:52
Alignment explanation
Indices: 108615--109158 Score: 299
Period size: 52 Copynumber: 10.4 Consensus size: 52
108605 TAATGACATT
* ** * * * *
108615 GGAC-TAAAGATGA-GAAGAATGCCAACGTGCTGATTCAAGGCTAGCGACATT
1 GGACTTAAAGATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAGCAATATA
* *
108666 GGACTTAAACATGATAATAGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATC
1 GGACTTAAAGATGATAA-AG-A-TGCCAATATGCTGATTCAAGGCCAGCAATATA
* * * * * * *
108721 GAACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCTAGCGACATT
1 GGACTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATA
* ** *
108773 GGACTTAAAGATGAT-AAGAATGCCAATGTGCTGATTCAAGGTTAGCAACATTA
1 GGACTTAAAGATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAGCAATA-TA
* * * * * * *
108826 -GACATAAACATAATAAA-ATGGCCAATGTGCTAATTCAAGGCTAGTGACAT-TA
1 GGACTTAAAGATGATAAAGAT-GCCAATATGCTGATTCAAGGCCAG-CA-ATATA
* * * *
108878 -GA-TGTAAAAAT--TAGATGAATGCCAATGTGCTGATTCAAGGCCAGCGATAGTA
1 GGACT-TAAAGATGATA-AAG-ATGCCAATATGCTGATTCAAGGCCAGCAATA-TA
** * * * *
108930 -GACTCGAAGATGA-GAAGAATGCCAATGTGCTAATTCAAGGCCAGTGACAT-TA
1 GGACTTAAAGATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAG-CA-ATATA
** * * ** *
108982 GG-CTT-GGGAATGACAAAGATGCCAATATGCTGATACAAGGCCAGTGATATC
1 GGACTTAAAG-ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATA
* * * *
109033 GGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 GGACTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATA
* * * ** * * *
109085 GGACTTAGAGATGGTAAAGGTAACAATATGCTGATTCAAGGCTAGCAACATC
1 GGACTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATA
* * *
109137 GAACTTACAGATGATGAAGATG
1 GGACTTAAAGATGATAAAGATG
109159 AGAAGAGTGT
Statistics
Matches: 390, Mismatches: 76, Indels: 53
0.75 0.15 0.10
Matches are distributed among these distances:
50 6 0.02
51 14 0.04
52 308 0.79
53 13 0.03
54 9 0.02
55 40 0.10
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (52 bp):
GGACTTAAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATA
Found at i:108866 original size:104 final size:104
Alignment explanation
Indices: 108634--109244 Score: 339
Period size: 104 Copynumber: 5.8 Consensus size: 104
108624 ATGAGAAGAA
* * *
108634 TGCCAACGTGCTGATTCAAGGCTAGCGACATTGGACTTAAACATGATAATAGAAGTGCCAATATG
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATGAT-A-AGAA-TGCCAATGTG
* * * * * *
108699 CTGATTCAAGGCCAGCAATATCGAACTTAAAGATGACAAAGG
63 CTGATTCAAGGCCAGCAACATAGAACATAAACATAAAAAAGG
* *
108741 TGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGATAAGAATGCCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATGATAAGAATGCCAATGTGCTG
** *
108806 ATTCAAGGTTAGCAACATTAG-ACATAAACATAATAAAATG
66 ATTCAAGGCCAGCAACA-TAGAACATAAACATAA-AAAAGG
* * * * * *
108846 -GCCAATGTGCTAATTCAAGGCTAGTGACATTAGA-TGTAAAAATTAGATGAATGCCAATGTGCT
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACT-TAAAAATGATAAGAATGCCAATGTGCT
* * * * *
108909 GATTCAAGGCCAGCGATAGTAG-AC-TCGAAGATGAGAAGAA--
65 GATTCAAGGCCAGCAACA-TAGAACAT-AAACAT-A-AAAAAGG
* * * *** * *
108949 TGCCAATGTGCTAATTCAAGGCCAGTGACATTAGG-CTTGGGAATGACAA-AGATGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATT-GGACTTAAAAATGATAAGA-ATGCCAATGTGC
* ** * * * * * * *
109012 TGATACAAGGCCAGTGATATCGGACTTAAAGATGACAAAGG
64 TGATTCAAGGCCAGCAACATAGAACATAAACATAAAAAAGG
* * * * * * * ** *
109053 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATGGTAA-AGGTAACAATATGCT
1 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATGATAAGA-ATGCCAATGTGCT
* * * *
109117 GATTCAAGGCTAGCAACATCGAACTTACAGATGATGAAGATGAGAAGAG
65 GATTCAAGGCCAGCAACATAGAACATA-A-A-CAT-AA-A--A-AAG-G
* * * ** *
109166 TGTCAATGTGCTAATTCAAGG-TAAGCGACGTTGGACTTAAAAATGCGAAGAATG--ATATATGC
1 TGCCAATGTGCTGATTCAAGGCT-AGCGACATTGGACTTAAAAATGATAAGAATGCCA-ATGTGC
*
109228 TAATTCAAGGCCAGCAA
64 TGATTCAAGGCCAGCAA
109245 TATCAAACTT
Statistics
Matches: 398, Mismatches: 79, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
102 3 0.01
103 7 0.02
104 252 0.63
105 18 0.05
106 3 0.01
107 47 0.12
108 1 0.00
111 2 0.01
112 24 0.06
113 40 0.10
114 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (104 bp):
TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAAATGATAAGAATGCCAATGTGCTG
ATTCAAGGCCAGCAACATAGAACATAAACATAAAAAAGG
Found at i:108924 original size:156 final size:158
Alignment explanation
Indices: 108582--109135 Score: 452
Period size: 156 Copynumber: 3.5 Consensus size: 158
108572 GATGAGAAGG
* * ** *
108582 GTGCCAATGAGTTGATTCAAGGCTAATGACATTGGAC-TAAAGATGAGAAGAATGCCAACGTGCT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGCCAATGTGCT
* * * * *
108646 GATTCAAGGCTAGCGACATTGGACTTAAACATGATAATAGAAGTGCCAATATGCTGATTCAAGGC
66 GATTCAAGGCTAGCAACATTAGACATAAACATAATAATAGAAGTGCCAATATGCTAATTCAAGGC
* *
108711 CAGCAATATCGAACTTAAAGATGACAAA
131 CAGCAATATAGAACTTAAAAATGACAAA
* *
108739 GGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGATAAGAATGCCAATGTGC
1 -GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGCCAATGTGC
* * *
108804 TGATTCAAGGTTAGCAACATTAGACATAAACATAATAA-A-ATG-GCCAATGTGCTAATTCAAGG
65 TGATTCAAGGCTAGCAACATTAGACATAAACATAATAATAGAAGTGCCAATATGCTAATTCAAGG
* * **
108866 CTAGTGACAT-TAG-A-TGTAAAAATTAGATGAA
130 CCAG-CA-ATATAGAACT-TAAAAA-T-GACAAA
* * * * **
108897 -TGCCAATGTGCTGATTCAAGGCCAGCGATAGTAGACTCGAAGATGAGAAGAATGCCAATGTGCT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGCCAATGTGCT
* * ** * * ** * * * *
108961 AATTCAAGGCCAGTGACATTAGGCTTGGGA-ATGACAA-AG-A-TGCCAATATGCTGATACAAGG
66 GATTCAAGGCTAGCAACATTAGACAT-AAACATAATAATAGAAGTGCCAATATGCTAATTCAAGG
** * * *
109022 CCAGTGATATCGGACTTAAAGATGACAAA
130 CCAGCAATATAGAACTTAAAAATGACAAA
* * * * * ** *
109051 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATG-GTAA-AGGTAACAATAT
1 -GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAG-AAGA-ATGCCAATGT
109114 GCTGATTCAAGGCTAGCAACAT
63 GCTGATTCAAGGCTAGCAACAT
109136 CGAACTTACA
Statistics
Matches: 315, Mismatches: 65, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
154 6 0.02
155 6 0.02
156 199 0.63
157 8 0.03
158 39 0.12
159 57 0.18
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (158 bp):
GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAGAAGAATGCCAATGTGCT
GATTCAAGGCTAGCAACATTAGACATAAACATAATAATAGAAGTGCCAATATGCTAATTCAAGGC
CAGCAATATAGAACTTAAAAATGACAAA
Found at i:109363 original size:33 final size:33
Alignment explanation
Indices: 109314--109719 Score: 377
Period size: 33 Copynumber: 12.5 Consensus size: 33
109304 CATTGGGCTT
*
109314 AGAAGGGTTCCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
109347 AGAAAGGTTGCCACCGACTTGTTTGAGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
109380 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
109413 A-AGGGGTTGCCA-CTAGCTTGTTTGGGCTTT-G
1 AGAAGGGTTGCCACCGA-CTTGTGTGGGCTTTAG
* * *
109444 AGAGGGGTTGCCA-CTAGCTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGA-CTTGTGTGGGCTTTAG
** *
109477 AG-AGGACTGCCACC-AGCTTGGGTGGGCTTTAG
1 AGAAGGGTTGCCACCGA-CTTGTGTGGGCTTTAG
** * *
109509 AG-AGGGTTGCCATTGACTTGTATGGGTTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
** *
109541 AAGAAGGGTTATCACCGACTTGAGTGGGCTTTA-
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
109574 AAAGAGGGTTGCTACCAACTTGTGTGGGCTTTAG
1 AGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
109608 A-AAGGGGTTGCCATCGACTTGTGTGGGCTTT--
1 AGAA-GGGTTGCCACCGACTTGTGTGGGCTTTAG
** * *
109639 AGAAGAGGTTGCCACAAACTTATGTGGCCTTTAG
1 AGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAG
* *
109673 AAAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
109706 A-AGGGGTTGCCACC
1 AGAAGGGTTGCCACC
109720 AGCATATGTG
Statistics
Matches: 306, Mismatches: 53, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.02
32 133 0.43
33 140 0.46
34 27 0.09
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:109433 original size:32 final size:33
Alignment explanation
Indices: 109307--109743 Score: 336
Period size: 32 Copynumber: 13.5 Consensus size: 33
109297 CCAATGACAT
* *
109307 TGGGC-TTAGAA-GGGTTCCCAC-CGACTTGTG
1 TGGGCTTTAGAAGGGGTTGCCACTAGACTTGTG
** * *
109337 TGGGCTTTAGAGAAAGGTTGCCAC-CGACTTGTT
1 TGGGCTTTAGA-AGGGGTTGCCACTAGACTTGTG
* * *
109370 TGAGCTTTAGAGAAGGGTTGCCA-TCGACTTGTG
1 TGGGCTTTAGA-AGGGGTTGCCACTAGACTTGTG
*
109403 TGGGCTTTAGAAGGGGTTGCCACTAG-CTTGTT
1 TGGGCTTTAGAAGGGGTTGCCACTAGACTTGTG
*
109435 TGGGCTTT-GAGAGGGGTTGCCACTAG-CTTATG
1 TGGGCTTTAGA-AGGGGTTGCCACTAGACTTGTG
** * *
109467 TGGGCTTTAG-AGAGGACTGCCACCAG-CTTGGG
1 TGGGCTTTAGAAG-GGGTTGCCACTAGACTTGTG
* *
109499 TGGGCTTTAG-AGAGGGTTGCCA-TTGACTTGTA
1 TGGGCTTTAGAAG-GGGTTGCCACTAGACTTGTG
* ** * *
109531 TGGGTTTTAGAAGAAGGGTTATCAC-CGACTTGAG
1 TGGGCTTTAGAAG--GGGTTGCCACTAGACTTGTG
* * *
109565 TGGGCTTTAAAAGAGGGTTGCTACCA-ACTTGTG
1 TGGGCTTTAGAAG-GGGTTGCCACTAGACTTGTG
*
109598 TGGGCTTTAGAAAGGGGTTGCCA-TCGACTTGTG
1 TGGGCTTTAG-AAGGGGTTGCCACTAGACTTGTG
* * *
109631 TGGGCTTTAGAAGAGGTTGCCAC-AAACTTATG
1 TGGGCTTTAGAAGGGGTTGCCACTAGACTTGTG
* *
109663 TGGCCTTTAGAAAAGGGTTGCCACT-GACTTGTG
1 TGGGCTTTAG-AAGGGGTTGCCACTAGACTTGTG
* * *
109696 TGGGCTTTAGAAGGGGTTGCCACCAG-CATATG
1 TGGGCTTTAGAAGGGGTTGCCACTAGACTTGTG
109728 TGGGCTTT-GAGAGGGG
1 TGGGCTTTAGA-AGGGG
109744 CTACCATCGA
Statistics
Matches: 333, Mismatches: 54, Indels: 38
0.78 0.13 0.09
Matches are distributed among these distances:
30 5 0.02
31 12 0.04
32 153 0.46
33 135 0.41
34 28 0.08
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.29
Consensus pattern (33 bp):
TGGGCTTTAGAAGGGGTTGCCACTAGACTTGTG
Found at i:109742 original size:228 final size:228
Alignment explanation
Indices: 109314--109742 Score: 573
Period size: 228 Copynumber: 1.9 Consensus size: 228
109304 CATTGGGCTT
* * * *
109314 AGAAGGGTTCCCACCGACTTGTGTGGGCTTTAGAGAAAGGTTGCCACCGACTTGTTTGAGCTTTA
1 AGAAGGGTTACCACCGACTTGAGTGGGCTTTAGAGAAAGGTTGCCACCAACTTGTGTGAGCTTTA
* * * * * *
109379 GAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGGGTTGCCACTAGCTTGTTTGGGCTTTG
66 GAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACAAACTTATGTGGCCTTTG
* * * *
109444 AGAGGGGTTGCCACTAGCTTATGTGGGCTTTAGAGAGGACTGCCACCAGCTTGGGTGGGCTTTAG
131 AAAAGGGTTGCCACTAGCTTATGTGGGCTTTAGAGAGGACTGCCACCAGCATAGGTGGGCTTTAG
109509 AGAGGGTTGCCATTGACTTGTATGGGTTTTAGA
196 AGAGGGTTGCCATTGACTTGTATGGGTTTTAGA
* * *
109542 AGAAGGGTTATCACCGACTTGAGTGGGCTTTA-A-AAGAGGGTTGCTACCAACTTGTGTGGGCTT
1 AGAAGGGTTACCACCGACTTGAGTGGGCTTTAGAGAA-A-GGTTGCCACCAACTTGTGTGAGCTT
109605 TAGA-AAGGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACAAACTTATGTGGCCT
64 TAGAGAA-GGGTTGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACAAACTTATGTGGCCT
* ** *
109669 TTAGAAAAGGGTTGCCACT-GACTTGTGTGGGCTTTAGA-AGGGGTTGCCACCAGCATATGTGGG
128 TT-GAAAAGGGTTGCCACTAG-CTTATGTGGGCTTTAGAGA-GGACTGCCACCAGCATAGGTGGG
109732 CTTT-GAGAGGG
190 CTTTAGAGAGGG
109743 GCTACCATCG
Statistics
Matches: 174, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
226 2 0.01
227 4 0.02
228 116 0.67
229 52 0.30
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (228 bp):
AGAAGGGTTACCACCGACTTGAGTGGGCTTTAGAGAAAGGTTGCCACCAACTTGTGTGAGCTTTA
GAGAAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACAAACTTATGTGGCCTTTG
AAAAGGGTTGCCACTAGCTTATGTGGGCTTTAGAGAGGACTGCCACCAGCATAGGTGGGCTTTAG
AGAGGGTTGCCATTGACTTGTATGGGTTTTAGA
Found at i:109923 original size:30 final size:30
Alignment explanation
Indices: 109864--110002 Score: 172
Period size: 30 Copynumber: 4.7 Consensus size: 30
109854 GGACTTTCAA
* **
109864 AGATGCCACTAAGTCTTATACTT-GAGAAG
1 AGATGCCACTAAGTCATGGACTTAGAGAAG
109893 AGATGCCACTAAGTCATGGACTTAGAGAAG
1 AGATGCCACTAAGTCATGGACTTAGAGAAG
*
109923 AGATGCCACTGAGTCATGGACTTAGAGAAG
1 AGATGCCACTAAGTCATGGACTTAGAGAAG
** * * *
109953 AGATGCCACTAAGTTGTGGGCTTTGAAAAG
1 AGATGCCACTAAGTCATGGACTTAGAGAAG
**
109983 AGATGCCACTGGGTCATGGA
1 AGATGCCACTAAGTCATGGA
110003 TTTTTAAAAG
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 20 0.21
30 74 0.79
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (30 bp):
AGATGCCACTAAGTCATGGACTTAGAGAAG
Found at i:110892 original size:20 final size:20
Alignment explanation
Indices: 110867--110918 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
110857 TGTTTTGCAA
*
110867 TTTTTGTTGTT-CCCTTTTTT
1 TTTTTGTT-TTGCACTTTTTT
110887 TTTTTGCTTTTGCACTTTTTT
1 TTTTTG-TTTTGCACTTTTTT
*
110908 TGTTTGTTTTG
1 TTTTTGTTTTG
110919 TTTTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.02, C:0.12, G:0.13, T:0.73
Consensus pattern (20 bp):
TTTTTGTTTTGCACTTTTTT
Found at i:118485 original size:13 final size:13
Alignment explanation
Indices: 118467--118492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118457 CAATTTTTTG
118467 TGTATCGATACAT
1 TGTATCGATACAT
118480 TGTATCGATACAT
1 TGTATCGATACAT
118493 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:119232 original size:21 final size:21
Alignment explanation
Indices: 119191--119234 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
119181 CTCTCCTTTA
* *
119191 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
119212 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
119233 TC
1 TC
119235 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:121056 original size:13 final size:13
Alignment explanation
Indices: 121038--121076 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
121028 ATAATCACCC
121038 TGTATCGATACAA
1 TGTATCGATACAA
121051 TGTATCGATACAA
1 TGTATCGATACAA
121064 TGTATCGATACAA
1 TGTATCGATACAA
121077 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:123174 original size:15 final size:15
Alignment explanation
Indices: 123154--123184 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
123144 ATTTCGTTTG
*
123154 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
123169 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
123184 G
1 G
123185 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:124740 original size:21 final size:21
Alignment explanation
Indices: 124711--124755 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
124701 AAGTTTTCAT
*
124711 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
124731 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
124753 TTT
1 TTT
124756 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:127000 original size:13 final size:13
Alignment explanation
Indices: 126982--127007 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126972 CAATTTTTTG
126982 TGTATCGATACAT
1 TGTATCGATACAT
126995 TGTATCGATACAT
1 TGTATCGATACAT
127008 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:127091 original size:20 final size:20
Alignment explanation
Indices: 127046--127121 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
127036 CTACTAAGAA
***
127046 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGAATC
127067 ATGTATCGATACATTGCAA-C
1 ATGTATCGATACATTG-AATC
* *
127087 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATC
*
127107 GTGTATCGATACATT
1 ATGTATCGATACATT
127122 TAAGGGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.04
20 30 0.65
21 14 0.30
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGAATC
Found at i:128740 original size:19 final size:20
Alignment explanation
Indices: 128699--128740 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
128689 ATATTTGATA
*
128699 ATTAATTATAATTCTTATAT
1 ATTAATTAAAATTCTTATAT
128719 ATTAATATAAAATT-TTAT-T
1 ATTAAT-TAAAATTCTTATAT
128738 ATT
1 ATT
128741 TCGTGTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAATTAAAATTCTTATAT
Found at i:130318 original size:16 final size:18
Alignment explanation
Indices: 130289--130323 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
130279 TTCTCGAATG
130289 TCAAAACTAAATTT-TTA
1 TCAAAACTAAATTTATTA
130306 TCAAAAC-AAATTTATTA
1 TCAAAACTAAATTTATTA
130323 T
1 T
130324 TCTACGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TCAAAACTAAATTTATTA
Found at i:131968 original size:163 final size:164
Alignment explanation
Indices: 131610--132018 Score: 470
Period size: 167 Copynumber: 2.5 Consensus size: 164
131600 ATGGGTTTAA
* * *
131610 AATTTTTAAAATTCATCAAATATTATTATTTAATTCAAATTAAATCATTTGTCAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTTAAA-TAAATCATTT-TCAAAAATTCATTC
* * * * * * * *
131675 ATTCTCATGGGCTTATGATTTTTTTCCTTGAAATTTTCCTGTTTATGAAAAATAGAGTTTTCTAC
64 ATTTTCATGAGTTTATAAATTTTTTCCTCGAAATTCTCCTGTTTATAAAAAATAGAGTTTTCTAC
* *
131740 TCTGTAAATTTTTTGGAGGGGATTTCTCTTGGTATTT
129 TCCGTAAA-TTTTTGGAGGGGAGTTCTCTTGGTATTT
* * *
131777 AATTTTTAAAATTCATAAAATATTATTATTTATTTTAGAATAAATTAGTTTTGAAAAATTCACTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTTA-AATAAATCA-TTTTCAAAAATTCATTC
* * *
131842 ATTTTCATGAGTTTTTAAATTTTTTCCTCGAAATTCTCTTATTT-TCAAAAAAATTA-AGTTTTC
64 ATTTTCATGAGTTTATAAATTTTTTCCTCGAAATTCTCCTGTTTAT--AAAAAA-TAGAGTTTTC
* *
131905 TACTCCGT-AA-TTTTGG-GGGGGGTT-TCTTGGTTTTT
126 TACTCCGTAAATTTTTGGAGGGGAGTTCTCTTGGTATTT
* * *
131940 AATTTTTAAAATTCATAAAATGTTATTATTTATTTTATATTAAATCATTTTTCAAAAATGCATTC
1 AATTTTTAAAATTCATAAAATATTATTATTTATTTTA-AATAAATCA-TTTTCAAAAATTCATTC
132005 ATTTTCATGAGTTT
64 ATTTTCATGAGTTT
132019 GGATTTTTTC
Statistics
Matches: 208, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
163 81 0.39
164 6 0.03
165 6 0.03
166 1 0.00
167 88 0.42
168 24 0.12
169 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (164 bp):
AATTTTTAAAATTCATAAAATATTATTATTTATTTTAAATAAATCATTTTCAAAAATTCATTCAT
TTTCATGAGTTTATAAATTTTTTCCTCGAAATTCTCCTGTTTATAAAAAATAGAGTTTTCTACTC
CGTAAATTTTTGGAGGGGAGTTCTCTTGGTATTT
Found at i:132703 original size:13 final size:13
Alignment explanation
Indices: 132687--132711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132677 AGTGAAAAGA
132687 AAAACAAAAAAAC
1 AAAACAAAAAAAC
132700 AAAACAAAAAAA
1 AAAACAAAAAAA
132712 AAAGAAAAAA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAC
Found at i:132722 original size:19 final size:19
Alignment explanation
Indices: 132681--132741 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
132671 GCAGCAAGTG
* *
132681 AAAAGAAAAACAAAAA-AAC
1 AAAACAAAAA-AAAAAGAAA
132700 AAAACAAAAAAAAAAGAAA
1 AAAACAAAAAAAAAAGAAA
** * *
132719 AAAATGAAGAAAAAGGAAA
1 AAAACAAAAAAAAAAGAAA
132738 AAAA
1 AAAA
132742 AACATGGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 5 0.14
19 30 0.86
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.02
Consensus pattern (19 bp):
AAAACAAAAAAAAAAGAAA
Found at i:134566 original size:154 final size:149
Alignment explanation
Indices: 134035--134570 Score: 436
Period size: 154 Copynumber: 3.5 Consensus size: 149
134025 GACATCTATA
* ** * *
134035 AATCCTTTTTAAGTCTTTTAGGGGTATCGAGCACTTTTAGGTCGAAAGTATCCTCTATGGGCATT
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGAGCACTTTTACATC-AAAGTATCCCCTAAGGGCATT
* ** * * * ***
134100 TTCATAATTTTTCTAAAATCGAGTCCCAGGTTGTCACCGAGTCCACTTTTATGCCGAAGGTGTAC
65 TTCATAATTTTT-TAGAATCGAGTCTTAGGTTGTCACCGGGT--ATTTTTATGTCGAAGGTGGGT
*
134165 ATTTAGGATAGGTTCATCC-TTT
127 ATTTAGGATAGGTTCATCCATTG
* * * * * ** *
134187 TA-CCTTTTTAAGTCTTTTA-GGGT-CCCAGGTAC-TTTATGTCAAAGGTATCCCCTAAAGGCAT
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGA-GCACTTTTACATCAAA-GTATCCCCTAAGGGCAT
** ** * * ** * * * * *
134248 TTTTGTAATTTGATAGAACCAAGTCTTAGACTATCATCGGGTCTGCTTTATTGTCGAAGGTAGGT
64 TTTCATAATTTTTTAGAATCGAGTCTTAGGTTGTCACCGGGTAT-TTTTA-TGTCGAAGGTGGGT
134313 ATTTAGGATAGGTTCATCCCATTTTG
127 ATTTAGGATAGGTTCAT-CCA--TTG
* * * **
134339 TAATCCTTTTTAAGTCCTTTAGGGATATCGAGCA-TTTCTCCATCGAAGATATCTTCTAAGGGCA
1 -AATCCTTTTTAAGTCCTTTAGGGGTATCGAGCACTTT-TACATCAAAG-TATCCCCTAAGGGCA
*
134403 TTTTGATAATTTTTTAGAATCGAGTCTTAGGTTGTCACCGGGATATTTTTATGTCGAAGGTGGGT
63 TTTTCATAATTTTTTAGAATCGAGTCTTAGGTTGTCACCGGG-TATTTTTATGTCGAAGGTGGGT
134468 ATTTAGGATAGGTTCATCTCATCTAG
127 ATTTAGGATAGGTTCATC-CAT-T-G
* * * * *
134494 AATCCTTTTTAGGTCCTTTAGGGGTATTGGGTACTTTTACATCAAATGTATCCCCTAGGGGCATT
1 AATCCTTTTTAAGTCCTTTAGGGGTATCGAGCACTTTTACATCAAA-GTATCCCCTAAGGGCATT
134559 TTCATAATTTTT
65 TTCATAATTTTT
134571 GTTGAATTTA
Statistics
Matches: 295, Mismatches: 68, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
147 4 0.01
148 48 0.16
149 34 0.12
150 7 0.02
151 17 0.06
152 3 0.01
153 2 0.01
154 78 0.26
155 45 0.15
156 55 0.19
157 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (149 bp):
AATCCTTTTTAAGTCCTTTAGGGGTATCGAGCACTTTTACATCAAAGTATCCCCTAAGGGCATTT
TCATAATTTTTTAGAATCGAGTCTTAGGTTGTCACCGGGTATTTTTATGTCGAAGGTGGGTATTT
AGGATAGGTTCATCCATTG
Found at i:137088 original size:143 final size:143
Alignment explanation
Indices: 136600--137150 Score: 504
Period size: 142 Copynumber: 3.9 Consensus size: 143
136590 TGTAAAGTTC
* * * * ** * * * *
136600 AAAAATCTAATTTTGTACCTTAATGGAGATCCAAAAAGATATTAAAAGTTTTGAAGATTTCTATA
1 AAAAAT-TCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAATTTTAAATATTTATATA
* * * * * * *
136665 CCCTTACGGAAAATCT-TA-GATTA-TAGAAATCTTAAAAAATTCAA-ACAATAA--TTTCTATT
65 CCCATATGGAAAA-CTATAGGAATATTAGAAGTCTTGAAAAATT-AAGATAATAATTTTTTTATT
*
136724 T-ACTT-TTGAA-TTTCC
128 TGA-TTCTT-AATTTTCA
* * * * * * * *
136739 AAAAATTTACTTCGTACTTTAATGCAGAACCGAAAAGA-AGTGAAAAGTTTTAAAAATTTTTATA
1 AAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATA-CGAAAAATTTTAAATATTTATATA
* **
136803 CCCCTATGGAAAACTATAGGAATATTAGAAACCTTGAAAAATTAA-AGTAATAA--TTTTTATTT
65 CCCATATGGAAAACTATAGGAATATTAGAAGTCTTGAAAAATTAAGA-TAATAATTTTTTTATTT
136865 GATTCTTAATTTTCA
129 GATTCTTAATTTTCA
* * * * *
136880 AGAAAATTCATTTCGTATCTTAATAGAGAATCGAAAAGATAC-AAAAAGTTTTGAATATTTCTAT
1 A-AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAA-TTTTAAATATTTATAT
* * *
136944 ACCCATATGAAAAACCATAGGAATATTAGAAGTCTTGAAAAATTAAGATAATAATTTTTTTTTTT
64 ACCCATATGGAAAACTATAGGAATATTAGAAGTCTTGAAAAATTAAGATAATAATTTTTTTATTT
*
137009 GATTTTTAATTTTCA
129 GATTCTTAATTTTCA
*
137024 AAAAATTCATTTCATACCTTAATGGAGAACCGAAAAGATACGAAAAATTTTAAATATTTATATAC
1 AAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAATTTTAAATATTTATATAC
** * * *
137089 CGTTACGGAAAACTATAAGG-ATATTAAAAGTCTTGAAAAATTAAGATAATAA-TTCTTTATTT
66 CCATATGGAAAACTAT-AGGAATATTAGAAGTCTTGAAAAATTAAGATAATAATTTTTTTATTT
137151 AGTGATAAAA
Statistics
Matches: 344, Mismatches: 52, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
137 3 0.01
138 58 0.17
139 13 0.04
140 33 0.10
141 12 0.03
142 98 0.28
143 96 0.28
144 31 0.09
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (143 bp):
AAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAATTTTAAATATTTATATAC
CCATATGGAAAACTATAGGAATATTAGAAGTCTTGAAAAATTAAGATAATAATTTTTTTATTTGA
TTCTTAATTTTCA
Found at i:137141 original size:285 final size:281
Alignment explanation
Indices: 136633--137150 Score: 627
Period size: 285 Copynumber: 1.8 Consensus size: 281
136623 TGGAGATCCA
** * * * * *
136633 AAAAGATATTAAAAGTTTTGAAGATTTCTATACCCTTACGGAAAATCTTAGATTATAGAAATCTT
1 AAAAGATACAAAAAGTTTTGAAGATTTCTATACCCATACGAAAAACCATAGAATATAGAAATCTT
* * * *
136698 AAAAAATTCAAACAATAATTTCTATTTACTTTTGAATTTCCAAAAATTTACTTCGTACTTTAATG
66 AAAAAATTCAAACAATAATTTCTATTTACTTTTGAATTTCAAAAAATTCACTTCATACCTTAATG
* * * *
136763 CAGAACCGAAAAGAAGTGAAAAGTTTTAAAAATTTTTATACCCCTATGGAAAACTATAGGAATAT
131 CAGAACCGAAAAGAAGCGAAAAATTTTAAAAATTTATATACCCCTACGGAAAACTATAGGAATAT
136828 TAGAAACCTTGAAAAATTAAAGTAATAATT-TTTATTTGATTCTTAATTTTCAAGAAAATTCATT
196 TAGAAACCTTGAAAAATTAAAGTAATAATTCTTTATTTGATTCTTAATTTTCAAGAAAATTCATT
136892 TCGTATCTTAATAGAGAATCG
261 TCGTATCTTAATAGAGAATCG
* * *
136913 AAAAGATACAAAAAGTTTTGAATATTTCTATACCCATATGAAAAACCATAGGAATATTAGAAGTC
1 AAAAGATACAAAAAGTTTTGAAGATTTCTATACCCATACGAAAAACCATA-GAATA-TAGAAATC
* * * * * *
136978 TTGAAAAATT-AAGATAATAATTTTTTTTTTTGA-TTTTTAATTTTCAAAAAATTCATTTCATAC
64 TTAAAAAATTCAA-ACAATAA--TTTCTATTT-ACTTTTGAA-TTTCAAAAAATTCACTTCATAC
* * **
137041 CTTAATGGAGAACCGAAAAGATA-CGAAAAATTTTAAATATTTATATACCGTTACGGAAAACTAT
124 CTTAATGCAGAACCGAAAAGA-AGCGAAAAATTTTAAAAATTTATATACCCCTACGGAAAACTAT
*
137105 AAGG-ATATTA-AAAGTCTTGAAAAATT-AAGATAATAATTCTTTATTT
188 -AGGAATATTAGAAA-CCTTGAAAAATTAAAG-TAATAATTCTTTATTT
137151 AGTGATAAAA
Statistics
Matches: 197, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
280 42 0.21
281 6 0.03
282 22 0.11
284 19 0.10
285 97 0.49
286 11 0.06
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (281 bp):
AAAAGATACAAAAAGTTTTGAAGATTTCTATACCCATACGAAAAACCATAGAATATAGAAATCTT
AAAAAATTCAAACAATAATTTCTATTTACTTTTGAATTTCAAAAAATTCACTTCATACCTTAATG
CAGAACCGAAAAGAAGCGAAAAATTTTAAAAATTTATATACCCCTACGGAAAACTATAGGAATAT
TAGAAACCTTGAAAAATTAAAGTAATAATTCTTTATTTGATTCTTAATTTTCAAGAAAATTCATT
TCGTATCTTAATAGAGAATCG
Found at i:143006 original size:3 final size:3
Alignment explanation
Indices: 142998--143038 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
142988 TGAGTCAACT
* *
142998 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
143039 TTTGATGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:144281 original size:34 final size:35
Alignment explanation
Indices: 144213--144284 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
144203 GTGTTTATGA
*
144213 AAAGAATAAGCACAAAGGAATACAAATGAGCTTTG
1 AAAGAATAAGCACAAAGGAATACAAAAGAGCTTTG
**
144248 AAAGAATAA-CAACAAA-GAATACAAAAGCTCTTTG
1 AAAGAATAAGC-ACAAAGGAATACAAAAGAGCTTTG
144282 AAA
1 AAA
144285 TGTAGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (35 bp):
AAAGAATAAGCACAAAGGAATACAAAAGAGCTTTG
Found at i:147897 original size:52 final size:52
Alignment explanation
Indices: 147749--147877 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
147739 CGAAATATGA
147749 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
147801 AAATTTGACTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
147853 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
147878 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:147904 original size:13 final size:13
Alignment explanation
Indices: 147886--147910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147876 CAAAGATCAG
147886 TGTATCGATACAA
1 TGTATCGATACAA
147899 TGTATCGATACA
1 TGTATCGATACA
147911 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:147977 original size:19 final size:18
Alignment explanation
Indices: 147953--148050 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
147943 TAGCTTACAT
147953 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
147972 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
147985 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
148004 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
148017 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
148037 TGTATCGATACAAA
1 TGTATCGATACAAA
148051 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:147989 original size:32 final size:32
Alignment explanation
Indices: 147948--148048 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
147938 GGCAGTAGCT
*
147948 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
147980 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
148012 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
148045 TACA
1 TACA
148049 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:147990 original size:13 final size:13
Alignment explanation
Indices: 147972--148028 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
147962 ACAAAACTTA
147972 TGTATCGATACAT
1 TGTATCGATACAT
147985 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
148003 ATGTATCGATACAT
1 -TGTATCGATACAT
148017 TGTATCGATACA
1 TGTATCGATACA
148029 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:150556 original size:49 final size:48
Alignment explanation
Indices: 150432--150664 Score: 192
Period size: 49 Copynumber: 4.8 Consensus size: 48
150422 TATTGGACTT
* * * * *
150432 GTGCTAATGTGCTGATTCAAGGCCAGCTAC-ATTGGACTCAAGACGGAAAA
1 GTGCCAATATGCTGATTCAAGGCCAGC-GCTATTGGACTTAA-A-GGTAAA
*
150482 GGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTAAA
* * *
150531 GATGCCAATGTGCTGATTCAAGGCCAGCGAC-ATTGGTCTTCAAGGT---
1 G-TGCCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTTAAAGGTAAA
* ** ** *
150577 GT--CAATATGCTGATTCAAGGCTAGCAATATTGAGTTTTAAAGATAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGCTATTG-GACTTAAAGGTAAA
* *
150624 TGTGCCAATATGCTGGTTCAAGGCCAGCGATATTGGACTTA
1 -GTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTA
150665 GAAGAAGACG
Statistics
Matches: 150, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
43 25 0.17
44 8 0.05
45 1 0.01
46 1 0.01
48 3 0.02
49 47 0.31
50 30 0.20
51 35 0.23
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTAAA
Found at i:150758 original size:28 final size:28
Alignment explanation
Indices: 150686--150793 Score: 94
Period size: 28 Copynumber: 3.8 Consensus size: 28
150676 CAACAACTTG
* *
150686 TGTGGGCTTTTGAAAGGGTTG-CATCAACT
1 TGTGGGC-TTTAAAAGGG-TGCCACCAACT
* ** * ***
150715 TGTGTGCTTTTGAAGGTTGCCACTGGCT
1 TGTGGGCTTTAAAAGGGTGCCACCAACT
150743 TGTGGGCTTTAAAAGGGGTGCCACCAACT
1 TGTGGGCTTTAAAA-GGGTGCCACCAACT
150772 TGTGGGC-TTAAAAGGGTGCCAC
1 TGTGGGCTTTAAAAGGGTGCCAC
150794 AGAGTTGTGG
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
27 11 0.18
28 28 0.45
29 23 0.37
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCACCAACT
Found at i:150801 original size:27 final size:27
Alignment explanation
Indices: 150741--150813 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 27
150731 TTGCCACTGG
150741 CTTGTGGGCTTTAAAAGGGGTGCCACCAA
1 CTTGTGGGC-TTAAAA-GGGTGCCACCAA
150770 CTTGTGGGCTTAAAAGGGTGCCA-CAGA
1 CTTGTGGGCTTAAAAGGGTGCCACCA-A
* *
150797 GTTGTGGACTTAAAAGG
1 CTTGTGGGCTTAAAAGG
150814 AAAAAGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 24 0.59
28 6 0.15
29 9 0.22
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (27 bp):
CTTGTGGGCTTAAAAGGGTGCCACCAA
Found at i:150836 original size:34 final size:33
Alignment explanation
Indices: 150798--150885 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
150788 TGCCACAGAG
150798 TTGTGGACTTAAAAGGAAAAAGAATTACACGGAC
1 TTGTGGACTTAAAAGGAAAAAG-ATTACACGGAC
* * * *
150832 TTGTGGGCTTAAAAGGAAGAAAGGTTCCACGGAG
1 TTGTGGACTTAAAAGGAA-AAAGATTACACGGAC
*
150866 TTGTGGACTTAGAAGGAAAA
1 TTGTGGACTTAAAAGGAAAA
150886 GAGTGCCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.04
34 41 0.87
35 4 0.09
ACGTcount: A:0.39, C:0.10, G:0.30, T:0.22
Consensus pattern (33 bp):
TTGTGGACTTAAAAGGAAAAAGATTACACGGAC
Found at i:150912 original size:68 final size:69
Alignment explanation
Indices: 150781--150951 Score: 193
Period size: 68 Copynumber: 2.5 Consensus size: 69
150771 TTGTGGGCTT
* * * * *
150781 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATTACACGGACTTGTGGGCTT-AAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGACACAGACTTGCGGGCTTAAAA
*
150845 AGGA
66 AGAA
* * * * * *
150849 AGAAAGGTTCCACGGAGTTGTGGACTTAGAAGG-AAAAGAGTGCCACAGAGTTGCGGGCTTTAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGACACAGACTTGCGGGC-TTAAA
150913 AAGAA
65 AAGAA
*
150918 AAAAAGGTGCCACTGAGTTGTGGACTTTAGAAGG
1 AAAAAGGTGCCACAGAGTTGTGGAC-TTAGAAGG
150952 TTGCCACTGG
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
67 19 0.22
68 30 0.35
69 28 0.33
70 8 0.09
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (69 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAATGACACAGACTTGCGGGCTTAAAA
AGAA
Found at i:150960 original size:28 final size:27
Alignment explanation
Indices: 150921--150973 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
150911 AAAAGAAAAA
150921 AAGGTGCCACTGAG-TTGTGGACTTTAG
1 AAGGTGCCACTG-GCTTGTGGACTTTAG
*
150948 AAGGTTGCCACTGGCTTGTGGGCTTT
1 AAGG-TGCCACTGGCTTGTGGACTTT
150974 GGAAAAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.32
Consensus pattern (27 bp):
AAGGTGCCACTGGCTTGTGGACTTTAG
Found at i:166411 original size:52 final size:52
Alignment explanation
Indices: 166266--166393 Score: 213
Period size: 51 Copynumber: 2.5 Consensus size: 52
166256 CGAAATATGA
*
166266 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
166318 AAA-TTGACTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
166369 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
166394 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
51 47 0.68
52 22 0.32
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:166516 original size:31 final size:30
Alignment explanation
Indices: 166463--166557 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 30
166453 GCCAGTAGCT
*
166463 TACATTGTATCGATACAAACTTATGTATCGC
1 TACATTGTATCGATACAAACTTATG-ATCGA
166494 TACA-TGTATCGATACAACACTTATGAATCGA
1 TACATTGTATCGATACAA-ACTTATG-ATCGA
*
166525 TACATTGTA-CGATACCAACTTATGATCGA
1 TACATTGTATCGATACAAACTTATGATCGA
166554 TACA
1 TACA
166558 AATCGTTGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
29 9 0.15
30 20 0.34
31 26 0.44
32 4 0.07
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (30 bp):
TACATTGTATCGATACAAACTTATGATCGA
Found at i:167521 original size:19 final size:19
Alignment explanation
Indices: 167494--167532 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
167484 AATATATAAC
* *
167494 TCCCTCTTAATAAAATTTT
1 TCCCCCTTAACAAAATTTT
167513 TCCCCCTTAACAAAATTTT
1 TCCCCCTTAACAAAATTTT
167532 T
1 T
167533 TAATGCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.44
Consensus pattern (19 bp):
TCCCCCTTAACAAAATTTT
Found at i:167644 original size:19 final size:19
Alignment explanation
Indices: 167621--167664 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
167611 TCAAAATTAT
* *
167621 CTCTCCCCCTTTTTATTAA
1 CTCTCCCCATTTTTATCAA
*
167640 TTCT-CCCATTTTTATCAA
1 CTCTCCCCATTTTTATCAA
167658 CTCTCCC
1 CTCTCCC
167665 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.16, C:0.39, G:0.00, T:0.45
Consensus pattern (19 bp):
CTCTCCCCATTTTTATCAA
Found at i:167668 original size:17 final size:17
Alignment explanation
Indices: 167627--167669 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
167617 TTATCTCTCC
* *
167627 CCCTTTTTATTAATTCT
1 CCCTTTTTATCAACTCT
167644 CCCATTTTTATCAACTCT
1 CCC-TTTTTATCAACTCT
167662 CCCTTTTT
1 CCCTTTTT
167670 TTTACAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.53
Consensus pattern (17 bp):
CCCTTTTTATCAACTCT
Done.