Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1539
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: 81370
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3820 original size:25 final size:25
Alignment explanation
Indices: 3792--3859 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
3782 CCTTCTCTTC
3792 AAAAAAAAA-AAAAAAAAAAAAAAA
1 AAAAAAAAACAAAAAAAAAAAAAAA
3816 AAAAAAAAACAAAAAAAAAAAAAAA
1 AAAAAAAAACAAAAAAAAAAAAAAA
*
3841 CAAAAAAAACAAAAAAAAA
1 AAAAAAAAACAAAAAAAAA
3860 GAGAAAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 9 0.21
25 33 0.79
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAAAAACAAAAAAAAAAAAAAA
Found at i:3866 original size:7 final size:6
Alignment explanation
Indices: 3792--3872 Score: 53
Period size: 6 Copynumber: 13.8 Consensus size: 6
3782 CCTTCTCTTC
* * * *
3792 AAAAA- AAAAA- AAAAAA AAAAAA AAAAAA AAAAAC AAAAA- AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * *
3836 AAAAAC AAAAAA AACAAAA AAAAAG AGAAAAG AAAAA
1 AAAAAG AAAAAG AA-AAAG AAAAAG A-AAAAG AAAAA
3873 CCTACTTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
5 20 0.29
6 37 0.54
7 12 0.17
ACGTcount: A:0.93, C:0.04, G:0.04, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3871 original size:25 final size:23
Alignment explanation
Indices: 3793--3873 Score: 103
Period size: 22 Copynumber: 3.6 Consensus size: 23
3783 CTTCTCTTCA
3793 AAAAAAAAAAAAA-AAAAAAAAA
1 AAAAAAAAAAAAACAAAAAAAAA
*
3815 AAAAAAAAAACAA-AAAAAAAAA
1 AAAAAAAAAAAAACAAAAAAAAA
*
3837 AAAACAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAACAAAAAAAAA
* * *
3860 GAGAAAAGAAAAAC
1 AAAAAAAAAAAAAC
3874 CTACTTAAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 32 0.63
23 19 0.37
ACGTcount: A:0.91, C:0.05, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAACAAAAAAAAA
Found at i:3872 original size:1 final size:1
Alignment explanation
Indices: 3792--3859 Score: 109
Period size: 1 Copynumber: 68.0 Consensus size: 1
3782 CCTTCTCTTC
* * *
3792 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3857 AAA
1 AAA
3860 GAGAAAAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4920 original size:55 final size:55
Alignment explanation
Indices: 4829--5569 Score: 1077
Period size: 55 Copynumber: 13.4 Consensus size: 55
4819 TCTCCTTCCG
*
4829 CTTTTTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
4884 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
4939 -TTTTCCAGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
4994 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
5049 CCTTTTCAGTCCCCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
5105 CCTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCG
1 -CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
5161 C-CTTCTAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTC-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
5216 CCTTTCAATCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
5271 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
5326 -TTTTCCAGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
5381 -TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
5436 CCTTTCATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
5491 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
5546 CTTTTTACTCCTCAATGAGCAGGA
1 CTTTTCAGTCCTCAAAGAGCAGGA
5570 TACAATTTAT
Statistics
Matches: 634, Mismatches: 38, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
54 16 0.03
55 500 0.79
56 117 0.18
57 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (55 bp):
CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:5078 original size:27 final size:26
Alignment explanation
Indices: 4992--5078 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
4982 AAGTTGGTGG
4992 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
5018 CACCTCTCAAAG-CCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCC-CA-AAG-AGCAGGA
5047 CACCTTTTCAGTCCCCAAAGAGCAGGA
1 CACC-TTTCAGTCCCCAAAGAGCAGGA
5074 CACCT
1 CACCT
5079 CTCAAAGCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
26 11 0.24
27 10 0.22
28 8 0.18
29 10 0.22
30 6 0.13
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:5497 original size:29 final size:29
Alignment explanation
Indices: 5350--5497 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
5340 AAGAACAGGA
*
5350 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
5379 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
5405 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
5434 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
5460 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
5489 CACCTTTCA
1 CACCTTTCA
5498 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:6172 original size:1 final size:1
Alignment explanation
Indices: 6166--6214 Score: 71
Period size: 1 Copynumber: 49.0 Consensus size: 1
6156 AAAGTGTTTG
***
6166 AAAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6215 TTTAAATGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:6187 original size:19 final size:19
Alignment explanation
Indices: 6163--6214 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
6153 GATAAAGTGT
6163 TTGAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAA
6182 TTGAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAA
6201 ---AAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
6215 TTTAAATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.42
19 19 0.58
ACGTcount: A:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (19 bp):
TTGAAAAAAAAAAAAAAAA
Found at i:6243 original size:21 final size:21
Alignment explanation
Indices: 6219--6275 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6209 AAAAAATTTA
6219 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
6240 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
6261 AATGTATCGATACAT
1 AATGTATCGATACAT
6276 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:6355 original size:19 final size:19
Alignment explanation
Indices: 6331--6398 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
6321 AATTCAACAA
6331 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6350 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6365 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
6382 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
6399 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:6370 original size:13 final size:13
Alignment explanation
Indices: 6352--6376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6342 ACATAAGTTT
6352 TGTATCGATACAA
1 TGTATCGATACAA
6365 TGTATCGATACA
1 TGTATCGATACA
6377 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:6374 original size:32 final size:32
Alignment explanation
Indices: 6333--6395 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6323 TTCAACAATT
*
6333 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
6365 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
6396 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:6456 original size:13 final size:13
Alignment explanation
Indices: 6438--6463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6428 CATTTTTCTG
6438 TGTATCGATACAT
1 TGTATCGATACAT
6451 TGTATCGATACAT
1 TGTATCGATACAT
6464 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:6460 original size:33 final size:33
Alignment explanation
Indices: 6418--6484 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6408 GCCAAGGAAA
***
6418 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
6451 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
6484 T
1 T
6485 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:9121 original size:28 final size:30
Alignment explanation
Indices: 9085--9157 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 30
9075 ATTTTTCACA
* *
9085 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
9113 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
9143 A--GGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
9158 TCTGGTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:9199 original size:212 final size:213
Alignment explanation
Indices: 8817--9229 Score: 722
Period size: 212 Copynumber: 1.9 Consensus size: 213
8807 AATTCTCCAC
* *
8817 AATCGAGGATATTCCAACTCCGATTTTATTTCCAAAAAAAATACCAATTTCTTCACAATCGGGGA
1 AATCGAGGATACTCCAACTCCGATTTTATTTCC--AAAAAATACCAATTTCTTCACAATCGAGGA
*
8882 TACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACT
64 TACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACT
8947 CCGGTTTTATCGTTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTT
129 CCGGTTTTATCGTTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTT
9012 CAAAACGCCAATTTTCCTTT
194 CAAAACGCCAATTTTCCTTT
*
9032 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATA
1 AATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATA
* *
9095 CTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACTC
66 CTCCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACTC
*
9160 TGGTTTTATCGTTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTC
130 CGGTTTTATCGTTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTC
9225 AAAAC
195 AAAAC
9230 CATTTTTCGA
Statistics
Matches: 190, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
211 28 0.15
212 131 0.69
215 31 0.16
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (213 bp):
AATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATA
CTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACTCC
GGTTTTATCGTTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCA
AAACGCCAATTTTCCTTT
Found at i:9229 original size:52 final size:52
Alignment explanation
Indices: 8932--9229 Score: 188
Period size: 52 Copynumber: 5.7 Consensus size: 52
8922 TTATTTTCGA
* *
8932 GGGGATACTCCAACTCC-GGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAA-TCCTGGTTTTAT-TTTCAAAACACCAATTTTTCCACAATC
* **
8984 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCC-ACAATC
* * *
9036 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACACCAATTTTTCCACAATC
* * * * * *** **
9088 GAGGATACTCCAA-CCTCG--TTATTTCATCGGGGATACTCCAACCCCGTT--ACTTTC
1 GGGGATACTCCAATCCTGGTTTTATTT--TC---AAAACACCAA--TTTTTCCACAATC
* *
9142 GAGGGGATACTCCAA-CTCTGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 --GGGGATACTCCAATC-CTGGTTTTAT-TTTCAAAACACCAATTTTTCCACAATC
9196 GGGGATACTCCAATCCTGGTTTTATTTTCAAAAC
1 GGGGATACTCCAATCCTGGTTTTATTTTCAAAAC
9230 CATTTTTCGA
Statistics
Matches: 185, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
49 6 0.03
50 2 0.01
51 14 0.08
52 102 0.55
53 19 0.10
54 18 0.10
55 2 0.01
56 13 0.07
57 3 0.02
58 1 0.01
59 4 0.02
60 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAATCCTGGTTTTATTTTCAAAACACCAATTTTTCCACAATC
Found at i:10224 original size:60 final size:62
Alignment explanation
Indices: 10160--10385 Score: 148
Period size: 60 Copynumber: 3.8 Consensus size: 62
10150 AAGTCTTTCC
* * * * * * *
10160 TTATTTGACTGTATA-T-GGTTAAATATTTCCTTGCTTGACTGTATTCGATCAAGTTGTTCT
1 TTATTTGACTGTATACTCGATCAAATATTACCCTACTTGACTGTATTCAACCAAGTTGTTCT
* *
10220 TTATTTGAC--TATACTCGATCAAATCTTACCCTACTTGACTGTATTCAACCAAGTTTTTCT
1 TTATTTGACTGTATACTCGATCAAATATTACCCTACTTGACTGTATTCAACCAAGTTGTTCT
* * * * * * *** *
10280 TCATTTGACTG--TACTCGGTCAAATCTTACAC-AGTTTGATTGTATTCGGTCAAGTTTTTCT
1 TTATTTGACTGTATACTCGATCAAATATTACCCTA-CTTGACTGTATTCAACCAAGTTGTTCT
* * * * *
10340 TCAATTGAC--TATACTTGATCAAATCTTA-CCTCACTTGATTGTATTC
1 TTATTTGACTGTATACTCGATCAAATATTACCCT-ACTTGACTGTATTC
10386 GATCAAACCT
Statistics
Matches: 135, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
58 4 0.03
59 3 0.02
60 127 0.94
61 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (62 bp):
TTATTTGACTGTATACTCGATCAAATATTACCCTACTTGACTGTATTCAACCAAGTTGTTCT
Found at i:10386 original size:60 final size:59
Alignment explanation
Indices: 10193--10391 Score: 254
Period size: 60 Copynumber: 3.3 Consensus size: 59
10183 TATTTCCTTG
* *
10193 CTTGACTGTATTCGATCAAGTTGTTCTTTATTTGACTATACTCGATCAAATCTTACCCTA
1 CTTGACTGTATTCGATCAAGTTTTTCTTCATTTGACTATACTCGATCAAATCTTACCC-A
* * * * *
10253 CTTGACTGTATTCAACCAAGTTTTTCTTCATTTGACTGTACTCGGTCAAATCTTACACA
1 CTTGACTGTATTCGATCAAGTTTTTCTTCATTTGACTATACTCGATCAAATCTTACCCA
* * * * *
10312 GTTTGATTGTATTCGGTCAAGTTTTTCTTCAATTGACTATACTTGATCAAATCTTACCTCA
1 -CTTGACTGTATTCGATCAAGTTTTTCTTCATTTGACTATACTCGATCAAATCTTACC-CA
*
10373 CTTGATTGTATTCGATCAA
1 CTTGACTGTATTCGATCAA
10392 ACCTTTCCTC
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.01
60 115 0.97
61 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (59 bp):
CTTGACTGTATTCGATCAAGTTTTTCTTCATTTGACTATACTCGATCAAATCTTACCCA
Found at i:10392 original size:30 final size:30
Alignment explanation
Indices: 10098--10402 Score: 107
Period size: 30 Copynumber: 10.2 Consensus size: 30
10088 TCAAGGCTAT
* * *
10098 CCTCATTTGATTGTATTCAATCAAATCTTA
1 CCTCACTTGACTGTATTCGATCAAATCTTA
* * * * * * *
10128 CCTCACTTGACTATTTTTGGTTAAGTCTTT
1 CCTCACTTGACTGTATTCGATCAAATCTTA
* * * * * *
10158 CCTTATTTGACTGTATAT-GGTTAAATATTT
1 CCTCACTTGACTGTAT-TCGATCAAATCTTA
** * *
10188 CCTTGCTTGACTGTATTCGATCAAGT-TGTT
1 CCTCACTTGACTGTATTCGATCAAATCT-TA
* * * * *
10218 CTTTATTTGACTATACTCGATCAAATCTTA
1 CCTCACTTGACTGTATTCGATCAAATCTTA
* * * * *
10248 CC-CTACTTGACTGTATTCAACCAAGTTTTT
1 CCTC-ACTTGACTGTATTCGATCAAATCTTA
* * * *
10278 CTTCATTTGACTGTACTCGGTCAAATCTTA
1 CCTCACTTGACTGTATTCGATCAAATCTTA
* * * * * * *
10308 -CACAGTTTGATTGTATTCGGTCAAGTTTTT
1 CCTCA-CTTGACTGTATTCGATCAAATCTTA
* * *
10338 CTTCAATTGACTATACTT-GATCAAATCTTA
1 CCTCACTTGACTGTA-TTCGATCAAATCTTA
* * *
10368 CCTCACTTGATTGTATTCGATCAAACCTTT
1 CCTCACTTGACTGTATTCGATCAAATCTTA
10398 CCTCA
1 CCTCA
10403 TCAACCTATA
Statistics
Matches: 196, Mismatches: 69, Indels: 20
0.69 0.24 0.07
Matches are distributed among these distances:
29 6 0.03
30 183 0.93
31 7 0.04
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (30 bp):
CCTCACTTGACTGTATTCGATCAAATCTTA
Found at i:13912 original size:20 final size:20
Alignment explanation
Indices: 13887--13940 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
13877 ATTTGAAGCA
* *
13887 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATATACC
*
13907 ATGTATCGATACAATATGCC
1 ATGTATCGATACAATATACC
*
13927 ATGTATTGATACAA
1 ATGTATCGATACAA
13941 ACAGTGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:13975 original size:43 final size:43
Alignment explanation
Indices: 13926--14069 Score: 252
Period size: 43 Copynumber: 3.3 Consensus size: 43
13916 TACAATATGC
* *
13926 CATGTATTGATACAAACAGTGTTAAGGTAGCTACTACCAGTTT
1 CATGTATTGATACAAACAGTGGTAGGGTAGCTACTACCAGTTT
13969 CATGTATTGATACAAACAGTGGTAGGGTAGCTACTACCAGTTT
1 CATGTATTGATACAAACAGTGGTAGGGTAGCTACTACCAGTTT
* *
14012 CATGTATTGATACAAACAGTGGCAGGGTAGCTACTACTAGTTT
1 CATGTATTGATACAAACAGTGGTAGGGTAGCTACTACCAGTTT
14055 CATGTATTGATACAA
1 CATGTATTGATACAA
14070 TTGTGCATGT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (43 bp):
CATGTATTGATACAAACAGTGGTAGGGTAGCTACTACCAGTTT
Found at i:25776 original size:13 final size:13
Alignment explanation
Indices: 25758--25783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25748 TACACCAAGT
25758 ATGTATCGATACA
1 ATGTATCGATACA
25771 ATGTATCGATACA
1 ATGTATCGATACA
25784 CCAAAAATTG
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:25781 original size:32 final size:33
Alignment explanation
Indices: 25740--25803 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
25730 TAGCCAAACT
**
25740 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
25772 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
25804 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:29885 original size:16 final size:16
Alignment explanation
Indices: 29849--29885 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
29839 GATAAAAATG
29849 TCCAAAATGAGAAAGC
1 TCCAAAATGAGAAAGC
29865 T-CAAAATGA-AGAAGC
1 TCCAAAATGAGA-AAGC
29880 TCCAAA
1 TCCAAA
29886 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 13 0.68
16 5 0.26
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (16 bp):
TCCAAAATGAGAAAGC
Found at i:31969 original size:13 final size:13
Alignment explanation
Indices: 31951--31976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31941 ACATTTTTCT
31951 TTGTATCGATACA
1 TTGTATCGATACA
31964 TTGTATCGATACA
1 TTGTATCGATACA
31977 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:32140 original size:20 final size:20
Alignment explanation
Indices: 32097--32142 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
32087 AAATCTTTTG
32097 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
32118 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
32138 CAAAA
1 CAAAA
32143 CTAGCATCAA
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:34530 original size:20 final size:20
Alignment explanation
Indices: 34485--34536 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
34475 GTAACCAAAC
**
34485 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
34505 -TGTATCGATACACCAAAAA
1 TTGTATCGATACACCAAAAA
34524 TTGTATCGATACA
1 TTGTATCGATACA
34537 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:37590 original size:69 final size:70
Alignment explanation
Indices: 37437--37590 Score: 190
Period size: 69 Copynumber: 2.2 Consensus size: 70
37427 ACCTTTTAAG
* * * * * *
37437 GGGATACTCCAATCTCGTTTTTAAACTTATCAAGATTTAAATCTTATTTTTTCTTGAATTGTCAT
1 GGGATACTCCAAACCCGTTTTTAAACTTATCAAGATTTAAATCTTATCTTTGCTTAAATTATCAT
37502 CATCA
66 CATCA
* *
37507 GGGATACTCC-AACCC-TGTTTTAAGCTTGTCAAGATTTAAATCTTATCTTTGC-TAAATTATCA
1 GGGATACTCCAAACCCGT-TTTTAAACTTATCAAGATTTAAATCTTATCTTTGCTTAAATTATCA
37569 TCATC-
65 TCATCA
37574 GAGGATACTCCAAACCC
1 G-GGATACTCCAAACCC
37591 ATTCTTCCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
67 1 0.01
68 23 0.32
69 39 0.53
70 10 0.14
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (70 bp):
GGGATACTCCAAACCCGTTTTTAAACTTATCAAGATTTAAATCTTATCTTTGCTTAAATTATCAT
CATCA
Found at i:37718 original size:97 final size:95
Alignment explanation
Indices: 37507--37720 Score: 234
Period size: 97 Copynumber: 2.2 Consensus size: 95
37497 GTCATCATCA
* *
37507 GGGATACTCCAACC-C-TGTTTTAAGCTTGTCAAGATTTAAATCTTATCTTTGCTAAATTATCAT
1 GGGATACTCC-ACCTCAT-TTTTAAACATGTCAAGATTTAAATCTTATCTTTGCTAAATTATCAT
*
37570 CATCGAGGATACTCCAAACCCATTCTTCCAAG
64 CATCGAGGATACTCCAAACCCATTCCTCCAAG
*** * ** * * *
37602 AAAATACTTCAATTCCATTTTTAAACATGTCTAGATTTAAATCTTATCTTTGTGTGAATTATCAT
1 GGGATACTCCACCT-CATTTTTAAACATGTCAAGATTTAAATCTTATCTTTG-CTAAATTATCAT
* * *
37667 CATCGGGGATACTCCAACCCCATTCCTCCGAG
64 CATCGAGGATACTCCAAACCCATTCCTCCAAG
37699 GGGATACTCCAGCCTCATTTTT
1 GGGATACTCCA-CCTCATTTTT
37721 TAACCAAAAA
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
94 1 0.01
95 6 0.06
96 32 0.34
97 53 0.57
98 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (95 bp):
GGGATACTCCACCTCATTTTTAAACATGTCAAGATTTAAATCTTATCTTTGCTAAATTATCATCA
TCGAGGATACTCCAAACCCATTCCTCCAAG
Found at i:37789 original size:41 final size:41
Alignment explanation
Indices: 37744--37825 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
37734 AAATTTTTTT
37744 CTCTTTCAAATTTTGATTCATATCCATTTTTTTTACTTCAA
1 CTCTTTCAAATTTTGATTCATATCCATTTTTTTTACTTCAA
37785 CTCTTTCAAATTTTGATTCATATCCATTTTTTTTACTTCAA
1 CTCTTTCAAATTTTGATTCATATCCATTTTTTTTACTTCAA
37826 TTAATTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (41 bp):
CTCTTTCAAATTTTGATTCATATCCATTTTTTTTACTTCAA
Found at i:38932 original size:41 final size:40
Alignment explanation
Indices: 38808--38936 Score: 136
Period size: 41 Copynumber: 3.2 Consensus size: 40
38798 CGTTGACTCA
* * * *
38808 TATGGTTTCATTCTTGTTAACT-TTCTAACTTGTTAGTTG
1 TATGGTTTCATCCTAGTCAACTCTTTTAACTTGTTAGTTG
** * * *
38847 TATGGTTTCATCCTAAACAACTCTTTT-CCTTTATTCACTTG
1 TATGGTTTCATCCTAGTCAACTCTTTTAAC-TTGTT-AGTTG
38888 TATGGTTTCATCCTAGTCAACTCTTTTAACTTGTTAGTTCG
1 TATGGTTTCATCCTAGTCAACTCTTTTAACTTGTTAGTT-G
38929 TATGGTTT
1 TATGGTTT
38937 TGTCCTGCCT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
39 18 0.25
40 10 0.14
41 42 0.59
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (40 bp):
TATGGTTTCATCCTAGTCAACTCTTTTAACTTGTTAGTTG
Found at i:39086 original size:41 final size:41
Alignment explanation
Indices: 39041--39221 Score: 114
Period size: 41 Copynumber: 4.4 Consensus size: 41
39031 TCGTTGACTC
* * * *
39041 GTATGGTTTCGTCCCAGTCAACTATTCTAACTTGTTGGTTT
1 GTATGGTTTCATCCCAGCCAACTATTCTAACTTATTGGTAT
* ** * * ** * *
39082 GTATGATTTCATCCTGGCCAACTCTTTTTTCTCATTGACT-T
1 GTATGGTTTCATCCCAGCCAACTATTCTAACTTATTG-GTAT
* * * * *
39123 ATATGGTTTCAT-CCTGGCAACTTTTCTAACTTATTGGTAC
1 GTATGGTTTCATCCCAGCCAACTATTCTAACTTATTGGTAT
* * * * *
39163 GTATGGTTTCGTCCTAACCAACACTATTTTAACTTGTTGGTAT
1 GTATGGTTTCATCCCAGCC-A-ACTATTCTAACTTATTGGTAT
39206 GTATGGTTTCATCCCA
1 GTATGGTTTCATCCCA
39222 ACTAACACTC
Statistics
Matches: 99, Mismatches: 36, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
39 1 0.01
40 26 0.26
41 39 0.39
42 2 0.02
43 31 0.31
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (41 bp):
GTATGGTTTCATCCCAGCCAACTATTCTAACTTATTGGTAT
Found at i:39110 original size:82 final size:81
Alignment explanation
Indices: 38987--39160 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 81
38977 CATCCCAATC
* * * * * * *
38987 AACTTGTTGGTTTGTATGGTTTTATCTTGGCCAACTCTTTTTTTTCGTTGACTCGTATGGTTTCG
1 AACTTGTTGGTTTGTATGATTTCATCCTGGCCAACTCTTTTTTCTCATTGACTCATATGGTTTCA
*
39052 TCCCAGTCAACTATTCT
66 T-CCAGGCAACTATTCT
*
39069 AACTTGTTGGTTTGTATGATTTCATCCTGGCCAACTCTTTTTTCTCATTGACTTATATGGTTTCA
1 AACTTGTTGGTTTGTATGATTTCATCCTGGCCAACTCTTTTTTCTCATTGACTCATATGGTTTCA
* *
39134 TCCTGGCAACTTTTCT
66 TCCAGGCAACTATTCT
*
39150 AACTTATTGGT
1 AACTTGTTGGT
39161 ACGTATGGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 22 0.28
82 58 0.73
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (81 bp):
AACTTGTTGGTTTGTATGATTTCATCCTGGCCAACTCTTTTTTCTCATTGACTCATATGGTTTCA
TCCAGGCAACTATTCT
Found at i:39184 original size:81 final size:82
Alignment explanation
Indices: 39017--39184 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 82
39007 TTTATCTTGG
* * * * * * **
39017 CCAACTCTTTTTTTTCGTTGACTCGTATGGTTTCGTCCCAGTCAACTATTCTAACTTGTTGGTTT
1 CCAACTCTTTTTTCTCATTGACTCATATGGTTTCATCCCAGGCAACTATTCTAACTTATTGGTAC
**
39082 GTATGATTTCATCCTGG
66 GTATGATTTCATCCTAA
* * *
39099 CCAACTCTTTTTTCTCATTGACTTATATGGTTTCAT-CCTGGCAACTTTTCTAACTTATTGGTAC
1 CCAACTCTTTTTTCTCATTGACTCATATGGTTTCATCCCAGGCAACTATTCTAACTTATTGGTAC
* *
39163 GTATGGTTTCGTCCTAA
66 GTATGATTTCATCCTAA
39180 CCAAC
1 CCAAC
39185 ACTATTTTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
81 40 0.56
82 31 0.44
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (82 bp):
CCAACTCTTTTTTCTCATTGACTCATATGGTTTCATCCCAGGCAACTATTCTAACTTATTGGTAC
GTATGATTTCATCCTAA
Found at i:39203 original size:43 final size:43
Alignment explanation
Indices: 39146--39257 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
39136 CTGGCAACTT
* *
39146 TTCTAACTTATTGGTACGTATGGTTTCGTCCTAACCAACACTA
1 TTCTAACTTATTGGTACGTATGGTTTCATCCCAACCAACACTA
* * * * *
39189 TTTTAACTTGTTGGTATGTATGGTTTCATCCCAACTAACACTC
1 TTCTAACTTATTGGTACGTATGGTTTCATCCCAACCAACACTA
** *
39232 TTCTAACTTATTAATGCGTATGGTTT
1 TTCTAACTTATTGGTACGTATGGTTT
39258 AATCTTGGCA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (43 bp):
TTCTAACTTATTGGTACGTATGGTTTCATCCCAACCAACACTA
Found at i:39568 original size:73 final size:73
Alignment explanation
Indices: 39396--39540 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 73
39386 CTAGCTAACA
** * *
39396 CCTTTCTCTTATTGACTCGTATGGTTTCATCTTGATCAACCTATTGGTTTGTATGGTTTCATCTT
1 CCTTTCTCTCGTTGACTCGTATGGTTTCATCTAGATCAAACTATTGGTTTGTATGGTTTCATCTT
39461 GGCCAACG
66 GGCCAACG
* *
39469 CCTTTCTCTCGTTGACTCATATGGTTTCATCCTAG-TCAAATTATTGGTTTGTATGGTTTCATCT
1 CCTTTCTCTCGTTGACTCGTATGGTTTCAT-CTAGATCAAACTATTGGTTTGTATGGTTTCATCT
39533 TGGCCAAC
65 TGGCCAAC
39541 TCTTTTTGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 62 0.95
74 3 0.05
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (73 bp):
CCTTTCTCTCGTTGACTCGTATGGTTTCATCTAGATCAAACTATTGGTTTGTATGGTTTCATCTT
GGCCAACG
Found at i:39745 original size:154 final size:153
Alignment explanation
Indices: 39437--39818 Score: 397
Period size: 154 Copynumber: 2.5 Consensus size: 153
39427 TTGATCAACC
* * * *
39437 TATTGGTTTGTATGGTTTCATCTTGGCCAACGCCTTTCTCTCGTTGACTCATATGGTTTCATCCT
1 TATTGGTTTATATGGTTTCGTCTTGGCCAACG-CTTTCCCTTGTTGACTCATATGGTTTCATCC-
* ** * * ** *** *
39502 AGTCAAATTATTGGTTTGTATGGTTTCATCTTGGCCAACTCTTTTTGTTGGTTGACTCGTTTGGT
64 AGTCAACTTATTGGTTCATATGGTTTCATCCTAGCCAACTCTTTTCCTTGGTTGACTCAAATGAT
*
39567 TTTGAACCTATTAAATCTTCTAACT
129 TTTGAACCTATCAAATCTTCTAACT
* **
39592 TGTTGGTTTATATGGTTTCGTCTTGGCCAACGCATTTCCCTTGTTGACTTGTATGGTTTCATCCA
1 TATTGGTTTATATGGTTTCGTCTTGGCCAACGC-TTTCCCTTGTTGACTCATATGGTTTCATCCA
* * *
39657 GTCAACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTCCTTTGTTGACTCAAATGATT
65 GTCAACTTATTGGTTCATATGGTTTCATCCTAGCCAACTCTTTTCCTTGGTTGACTCAAATGATT
* * * * *
39722 TTG-TCTTGGTCAATTCTTTTAACT
130 TTGAACCT-ATCAAATCTTCTAACT
* * * * * *
39746 TATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTTCCTTCGTTGACTCATATAGTTTCATCCC
1 TATTGGTTTATATGGTTTCGTCTTGGCCAACGCTTTCCCTT-GTTGACTCATATGGTTTCAT-CC
*
39811 AGTTAACT
64 AGTCAACT
39819 CTTTTAACTT
Statistics
Matches: 186, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
153 9 0.05
154 113 0.61
155 64 0.34
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (153 bp):
TATTGGTTTATATGGTTTCGTCTTGGCCAACGCTTTCCCTTGTTGACTCATATGGTTTCATCCAG
TCAACTTATTGGTTCATATGGTTTCATCCTAGCCAACTCTTTTCCTTGGTTGACTCAAATGATTT
TGAACCTATCAAATCTTCTAACT
Found at i:39781 original size:41 final size:41
Alignment explanation
Indices: 39660--39874 Score: 139
Period size: 41 Copynumber: 5.2 Consensus size: 41
39650 TCATCCAGTC
* *
39660 AACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTT
1 AACTTGTTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
* ** * * * * * * *
39701 -CCTTTGTTGACTCAAATGATTTTGTCTTGGTCAATTCTTTT
1 AAC-TTGTTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
*
39742 AACTTATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
1 AACTTGTTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
* ** * * * **
39783 -CCTTCGTTGACTCATATAGTTTCATCCCAGTTAACTCTTTT
1 AACTT-GTTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
* * * *
39824 AACTTATTGGTATGA-ATGGTTTCGTCCCAGCCAACACTCTTCT
1 AACTTGTTGGT-TCATATGGTTTCGTCCTAGCC-A-ACTCTTTT
39867 AACTTGTT
1 AACTTGTT
39875 AGTATGTATG
Statistics
Matches: 124, Mismatches: 43, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
40 4 0.03
41 99 0.80
42 7 0.06
43 14 0.11
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (41 bp):
AACTTGTTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTT
Found at i:39822 original size:82 final size:82
Alignment explanation
Indices: 39660--39858 Score: 240
Period size: 82 Copynumber: 2.4 Consensus size: 82
39650 TCATCCAGTC
* * * * **
39660 AACTTGTTGGTTCATATGGTTTCATCCTAGCTAACTCTTTTCCTTTGTTGACTCAAATGATTTTG
1 AACTTATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTTCCTTCGTTGACTCAAATGATTTCA
*** *
39725 TCTTGGTCAATTCTTTT
66 TCCCAGTCAACTCTTTT
*
39742 AACTTATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTTCCTTCGTTGACTCATAT-AGTTTC
1 AACTTATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTTCCTTCGTTGACTCAAATGA-TTTC
*
39806 ATCCCAGTTAACTCTTTT
65 ATCCCAGTCAACTCTTTT
* *
39824 AACTTATTGGTATGA-ATGGTTTCGTCCCAGCCAAC
1 AACTTATTGGT-TCATATGGTTTCGTCCTAGCCAAC
39859 ACTCTTCTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 98 0.97
83 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (82 bp):
AACTTATTGGTTCATATGGTTTCGTCCTAGCCAACTCTTTTCCTTCGTTGACTCAAATGATTTCA
TCCCAGTCAACTCTTTT
Found at i:41565 original size:145 final size:151
Alignment explanation
Indices: 41240--41581 Score: 380
Period size: 145 Copynumber: 2.3 Consensus size: 151
41230 TTCTATCTTG
* * **
41240 TAAATTTCTCTAGTAAGA-TTTTCTAAGTTT-TAAATTTTTAAAATTCTTCAAATATTATTATTT
1 TAAATTTGT-TAGTAAGATTTTTCTGAGTTTAT-AATTTTTAAAATAATTCAAATATTATTATTT
* * *
41303 AATTCATATTAAATCAGTTTTGAAAAAATTAATTTATTTTGTGAATTTTAGAACTTTTCCTAATA
64 AATTCATATTAAATAAGTTTTGAAAAAATTAATTTATTTTATGAAGTTTAGAACTTTT-CT-ATA
* *
41368 CTAAGATCCAGAGTTTTTTACTCCA
127 CTAAGATACAGAGTTTTCTACTCCA
* * *
41393 TAAATTTTTTAGTAAGATTTTTCTGAGTTTATTATTTTTAAAATAATTCAAATATTATATTTTTA
1 TAAATTTGTTAGTAAGATTTTTCTGAGTTTATAATTTTTAAAATAATTCAAATATTAT-TATTTA
** *
41458 ATTCATATTAAATAAGTTTTGAAAATTTTAATTTATTTTATG-AGTTTA-AA-TTTT-T-T-TTA
65 ATTCATATTAAATAAGTTTTGAAAAAATTAATTTATTTTATGAAGTTTAGAACTTTTCTATACTA
* *
41517 A-ATATAGAGTTTTCTACTCCG
130 AGATACAGAGTTTTCTACTCCA
* * *
41538 TAAA-TTGTTCGTTAGGATTTTTTTGAGTTTATAATTTTTAAAAT
1 TAAATTTGTTAG-TAAGATTTTTCTGAGTTTATAATTTTTAAAAT
41582 TCATCAAATT
Statistics
Matches: 164, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
144 5 0.03
145 49 0.30
146 3 0.02
147 1 0.01
149 1 0.01
151 4 0.02
152 10 0.06
153 47 0.29
154 44 0.27
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (151 bp):
TAAATTTGTTAGTAAGATTTTTCTGAGTTTATAATTTTTAAAATAATTCAAATATTATTATTTAA
TTCATATTAAATAAGTTTTGAAAAAATTAATTTATTTTATGAAGTTTAGAACTTTTCTATACTAA
GATACAGAGTTTTCTACTCCA
Found at i:42076 original size:15 final size:15
Alignment explanation
Indices: 42056--42084 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42046 CCAAAATGAG
42056 AATATGATCCATGGT
1 AATATGATCCATGGT
42071 AATATGATCCATGG
1 AATATGATCCATGG
42085 ATAAAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (15 bp):
AATATGATCCATGGT
Found at i:45186 original size:20 final size:19
Alignment explanation
Indices: 45157--45208 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
45147 CAGTTTCATT
* *
45157 TATCGATACAATTATGCATG
1 TATCGATACAATGA-ACATG
*
45177 TATCGTTACAATGAACATG
1 TATCGATACAATGAACATG
45196 TATCGATACAATG
1 TATCGATACAATG
45209 TATCAATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:46858 original size:20 final size:20
Alignment explanation
Indices: 46820--46858 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46810 GGCTGGCCGG
***
46820 TTGTGACCTGGGTTTGCTGA
1 TTGTGACCTGGGAAAGCTGA
46840 TTGTGACCTGGGAAAGCTG
1 TTGTGACCTGGGAAAGCTG
46859 CCTAGTATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.33
Consensus pattern (20 bp):
TTGTGACCTGGGAAAGCTGA
Found at i:47356 original size:27 final size:27
Alignment explanation
Indices: 47318--47408 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
47308 AGATCATTGA
*
47318 ATCGATACATCTAGGTTTTTCAA-ATGT
1 ATCGATACATCTGGGTTTTT-AAGATGT
47345 ATCGATACATCTGGGTTTTTAAGATGT
1 ATCGATACATCTGGGTTTTTAAGATGT
47372 ATCGATACATCTGGGTTTTTAAGATGT
1 ATCGATACATCTGGGTTTTTAAGATGT
47399 ATCGATACAT
1 ATCGATACAT
47409 TATTTAATGT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 2 0.03
27 60 0.97
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (27 bp):
ATCGATACATCTGGGTTTTTAAGATGT
Found at i:53228 original size:13 final size:13
Alignment explanation
Indices: 53210--53236 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53200 TATAATGAAC
53210 ATGTATCGATACA
1 ATGTATCGATACA
53223 ATGTATCGATACA
1 ATGTATCGATACA
53236 A
1 A
53237 AGCAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53252 original size:33 final size:32
Alignment explanation
Indices: 53192--53255 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
53182 TATTTTAGTG
* *
53192 TGTATCGATATAATGAACATGTATCGATACAA
1 TGTATCGATACAAAGAACATGTATCGATACAA
*
53224 TGTATCGATACAAAGCAATATGTATCGATACA
1 TGTATCGATACAAAG-AACATGTATCGATACA
53256 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAA
Found at i:53373 original size:21 final size:22
Alignment explanation
Indices: 53348--53390 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
53338 ATCGATACTT
* *
53348 TATATTATTTTTA-CTTGAAAA
1 TATATGATTTATAGCTTGAAAA
53369 TATATGATTTATAGCTTGAAAA
1 TATATGATTTATAGCTTGAAAA
53391 ACATTTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (22 bp):
TATATGATTTATAGCTTGAAAA
Found at i:60093 original size:3 final size:3
Alignment explanation
Indices: 60079--60113 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
60069 CGAGTCAACT
* *
60079 TCA TCA TTA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
60114 TTTGATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:60113 original size:9 final size:9
Alignment explanation
Indices: 60077--60115 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
60067 TCCGAGTCAA
60077 CTTCATCAT
1 CTTCATCAT
60086 -TATCATCAT
1 CT-TCATCAT
*
60095 CATCATCAT
1 CTTCATCAT
60104 CTTCATCAT
1 CTTCATCAT
60113 CTT
1 CTT
60116 TGATGGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.96
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:61729 original size:13 final size:13
Alignment explanation
Indices: 61711--61740 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61701 AAAATTCTTC
61711 ATGTATCGACACA
1 ATGTATCGACACA
*
61724 ATGTATCGATACA
1 ATGTATCGACACA
61737 ATGT
1 ATGT
61741 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGACACA
Found at i:64591 original size:166 final size:162
Alignment explanation
Indices: 64300--64922 Score: 612
Period size: 166 Copynumber: 3.8 Consensus size: 162
64290 TATTTCAATA
* **
64300 TTAATCATTTTTTAATCTTTTATATTCCTATAGGGGTCTATAGGGGTATAAAAGATTTCAAAAAC
1 TTAATCATTTTTTAATCTTTTATATTCCTATAAGGGTCCGTAGGGGTATAAAAGATTTCAAAAAC
* * * * * *
64365 TTTTCGTATCTTTTCGGGTTTCCATTAAGGTCCGAAATGGTACTATTCAAAAATAAATAAATAAA
66 TTTTCATATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTCGAAAA-AAATAAATTAA
* *
64430 ATTAAATCAACACTTTCATAATTGAAAAAAAAAT
130 ATTAAATTAACACTTTCATAA-TGAAGAAAAAAT
* * **
64464 ATTAGTTATTTTTGTAATCTTTTATATTCCTATGGGGGTCCGTAGGGGTATAAAAGATTTCAAAA
1 -TTAATCATTTTT-TAATCTTTTATATTCCTATAAGGGTCCGTAGGGGTATAAAAGATTTCAAAA
* * ** *
64529 AATTTTCATATCTTTTCTGGTTTCCATTAAGGTGTGAAAAGGTATTTTTCGAAAACAAATAAATT
64 ACTTTTCATATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTCGAAAA-AAATAAATT
* * ** *
64594 AAATTAAATTAATACTTTCATAACTG-TGAGGAACT
128 AAATTAAATTAACACTTTCATAA-TGAAGAAAAAAT
64629 TT-A--ATTTTTT-ATCTTTTATATTCCTATAAGGGTCCGTAAGGGGTATAAAAGATTTCAAAAA
1 TTAATCATTTTTTAATCTTTTATATTCCTATAAGGGTCCGT-AGGGGTATAAAAGATTTCAAAAA
* * ** * * * *
64690 CTTTTCGTATCTTTTTGGACTTCTATTAAGATACGAAATGATATTTTT-GAAATAAAACAAATTA
65 CTTTTCATATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTCGAAA-AAAATAAATTA
* * * * *
64754 AAGTAAATTAACACTTTCGTAATCAAGACAAACT
129 AATTAAATTAACACTTTCATAATGAAGAAAAAAT
* * ** * * *
64788 CTAATCACCTTTTTTTAATCTTTTATATACCTACGAGGGCCCGTAGGGGTATAAAAGGTTTCAAC
1 TTAATCA---TTTTTTAATCTTTTATATTCCTATAAGGGTCCGTAGGGGTATAAAAGATTTCAAA
* ** * * *
64853 AACTTTTTATATCTTTTCGGGTTTTTATTAAAGTACAAAATGATATTTTT-GAGAAAAAGATTAA
63 AACTTTTCATATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTCGA-AAAAA-A-TAA
64917 ATTAAA
125 ATTAAA
64923 CCTATGAAAT
Statistics
Matches: 380, Mismatches: 64, Indels: 26
0.81 0.14 0.06
Matches are distributed among these distances:
158 1 0.00
159 64 0.17
160 62 0.16
161 6 0.02
162 1 0.00
164 2 0.01
165 85 0.22
166 151 0.40
167 8 0.02
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (162 bp):
TTAATCATTTTTTAATCTTTTATATTCCTATAAGGGTCCGTAGGGGTATAAAAGATTTCAAAAAC
TTTTCATATCTTTTCGGGTTTCCATTAAGGTACGAAATGGTATTTTTCGAAAAAAATAAATTAAA
TTAAATTAACACTTTCATAATGAAGAAAAAAT
Found at i:64902 original size:325 final size:326
Alignment explanation
Indices: 64306--64902 Score: 747
Period size: 325 Copynumber: 1.8 Consensus size: 326
64296 AATATTAATC
*
64306 ATTTTTTAATCTTTTATATTCCTATAGGGGTCTATAGGGGTATAAAAGATTTCAAAAACTTTTCG
1 ATTTTTTAATCTTTTATATTCCTATAAGGGTCTATAGGGGTATAAAAGATTTCAAAAACTTTTCG
** * * * * *
64371 TATCTTTTCGGGTTTCCATTAAGGTCCGAAATGGTACTATTCAAAAATAAATAAATAAAATTAAA
66 TATCTTTTCGGACTTCCATTAAGATACGAAATGATACTATTCAAAAATAAACAAATAAAAGTAAA
* * * * * * *
64436 TCAACACTTTCATAATTGAAAAAAAAATATTAGTTATTTTTGTAATCTTTTATATTCCTATGGGG
131 TCAACACTTTCATAATTCAAAAAAAAATACTAATCATTTTTGTAATCTTTTATATACCTACGAGG
* * * **
64501 GTCCGTAGGGGTATAAAAGATTTCAAAAAATTTTCATATCTTTTCTGGTTTCCATTAAGGTGTGA
196 GCCCGTAGGGGTATAAAAGATTTCAAAAAATTTTCATATCTTTTCGGGTTTCCATTAAAGTGACA
*
64566 AAAGGTATTTTTCGAAAACAAATAAATTAAATTAAATTAATACTTTCATAACTGTGAGGAACTTT
261 AAAGATATTTTTCGAAAACAAATAAATTAAATTAAATTAATACTTTCATAACTGTGAGGAACTTT
64631 A
326 A
64632 ATTTTTT-ATCTTTTATATTCCTATAAGGGTCCGTA-AGGGGTATAAAAGATTTCAAAAACTTTT
1 ATTTTTTAATCTTTTATATTCCTATAAGGGT-C-TATAGGGGTATAAAAGATTTCAAAAACTTTT
* * * * * * *
64695 CGTATCTTTTTGGACTTCTATTAAGATACGAAATGATATTTTTGAAATA-AAACAAATTAAAGTA
64 CGTATCTTTTCGGACTTCCATTAAGATACGAAATGATACTATTCAAAAATAAACAAATAAAAGTA
* * * * * *
64759 AATTAACACTTTCGTAA-TCAAGACAAACT-CTAATCACCTTTTTTTAATCTTTTATATACCTAC
129 AATCAACACTTTCATAATTCAAAAAAAAATACTAATCA--TTTTTGTAATCTTTTATATACCTAC
* * * * **
64822 GAGGGCCCGTAGGGGTATAAAAGGTTTCAACAACTTTTTATATCTTTTCGGGTTTTTATTAAAGT
192 GAGGGCCCGTAGGGGTATAAAAGATTTCAAAAAATTTTCATATCTTTTCGGGTTTCCATTAAAGT
64887 -ACAAAATGATATTTTT
257 GACAAAA-GATATTTTT
64903 GAGAAAAAGA
Statistics
Matches: 226, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
323 4 0.02
324 12 0.05
325 134 0.59
326 74 0.33
327 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39
Consensus pattern (326 bp):
ATTTTTTAATCTTTTATATTCCTATAAGGGTCTATAGGGGTATAAAAGATTTCAAAAACTTTTCG
TATCTTTTCGGACTTCCATTAAGATACGAAATGATACTATTCAAAAATAAACAAATAAAAGTAAA
TCAACACTTTCATAATTCAAAAAAAAATACTAATCATTTTTGTAATCTTTTATATACCTACGAGG
GCCCGTAGGGGTATAAAAGATTTCAAAAAATTTTCATATCTTTTCGGGTTTCCATTAAAGTGACA
AAAGATATTTTTCGAAAACAAATAAATTAAATTAAATTAATACTTTCATAACTGTGAGGAACTTT
A
Found at i:67140 original size:79 final size:79
Alignment explanation
Indices: 67035--67536 Score: 502
Period size: 79 Copynumber: 6.3 Consensus size: 79
67025 CATTCCCCAA
* * * ** * * * * *
67035 TGAAAAATTTAATATTTTGGAGATAAAAATAAGATTAGAGTATCCCCTCAAAAACAACGGGTTTG
1 TGAAAAA-TTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTG
*
67100 GAGTATCCTCGATGG
65 GAGTATCCCCGATGG
* * * *
67115 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCTTTAGAAATAATGGGGTTAG
1 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
*
67180 AGTATCCCCGAAGG
66 AGTATCCCCGATGG
* * ** * **
67194 TGAAAAATCGATATTTTGGAAATAAAATTAAGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGG
1 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
*
67259 AGCATCCCCGATGG
66 AGTATCCCCGATGG
* ** * ** *
67273 TGAAAATTTGATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGG
1 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
67338 AGTATCCCCGATGG
66 AGTATCCCCGATGG
* * * * * * * * ** *
67352 TGGAAGATCGATAGTTTAGAAATAAAATTGGGGTTAGAGTATCTCCTTGGAAATAATGGGGTTGG
1 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
67417 AGTAT-CCCGATGG
66 AGTATCCCCGATGG
* * * * * *
67430 TGAAAATTTGATATTTTAGAAATAAAACCGGGATTGGAATATCCCCTCAGAAATAACGGGGTTAG
1 TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
**
67495 AGTATCCCTAATGG
66 AGTATCCCCGATGG
* * *
67509 TGAAGAAAATCATATTTTGGAAAAAAAA
1 TGAA-AAATTGATATTTTGGAAATAAAA
67537 TTAATAAATT
Statistics
Matches: 344, Mismatches: 76, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
78 63 0.18
79 256 0.74
80 25 0.07
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
TGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
AGTATCCCCGATGG
Found at i:67235 original size:158 final size:156
Alignment explanation
Indices: 67046--67540 Score: 607
Period size: 158 Copynumber: 3.1 Consensus size: 156
67036 GAAAAATTTA
* * * *
67046 ATATTTTGGAGATAAAAATAAGATTAGAGTATCCCCTCAAAAACAACGGGTTTGGAGTATCCTCG
1 ATATTTTGGAAATAAAATTAAGGTTAGAGTATCCCCTCAAAAATAACGGG-TTGGAGTATCC-CG
* * * * *
67111 ATGGTGAAAAATTGATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCTTTAGAAATAATGGGG
64 ATGGTGAAAATTTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTAGAAATAACGGGG
67176 TTAGAGTATCCCCGAAGGTGAAAAATCG
129 TTAGAGTATCCCCGAAGGTGAAAAATCG
* * *
67204 ATATTTTGGAAATAAAATTAAGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGCATCCCCG
1 ATATTTTGGAAATAAAATTAAGGTTAGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTAT-CCCG
* * *
67269 ATGGTGAAAATTTGATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACAGGG
64 ATGGTGAAAATTTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTAGAAATAACGGGG
* * * *
67334 TTGGAGTATCCCCGATGGTGGAAGATCG
129 TTAGAGTATCCCCGAAGGTGAAAAATCG
* * ** * *** *
67362 ATAGTTTAGAAATAAAATTGGGGTTAGAGTATCTCCTTGGAAATAATGGGGTTGGAGTATCCCGA
1 ATATTTTGGAAATAAAATTAAGGTTAGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCGA
* * *
67427 TGGTGAAAATTTGATATTTTAGAAATAAAACCGGGATTGGAATATCCCCTCAGAAATAACGGGGT
65 TGGTGAAAATTTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTAGAAATAACGGGGT
*
67492 TAGAGTAT-CCCTAATGGTGAAGAAAATC-
130 TAGAGTATCCCCGAA-GGTG-A-AAAATCG
*
67520 ATATTTTGGAAAAAAAATTAA
1 ATATTTTGGAAATAAAATTAA
67541 TAAATTTTTT
Statistics
Matches: 284, Mismatches: 47, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
156 4 0.01
157 75 0.26
158 196 0.69
159 9 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (156 bp):
ATATTTTGGAAATAAAATTAAGGTTAGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCGAT
GGTGAAAATTTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTT
AGAGTATCCCCGAAGGTGAAAAATCG
Found at i:70048 original size:21 final size:20
Alignment explanation
Indices: 69995--70050 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
69985 TACAGGGTGG
69995 TTTTGTATCGATACATTTAC
1 TTTTGTATCGATACATTTAC
* *
70015 TTATGTCTCGATACATTTAC
1 TTTTGTATCGATACATTTAC
70035 TATTTGTATCGATACA
1 T-TTTGTATCGATACA
70051 CATTGTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (20 bp):
TTTTGTATCGATACATTTAC
Found at i:76818 original size:20 final size:20
Alignment explanation
Indices: 76790--76915 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
76780 AAAAGACTTC
76790 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* *
76810 AACGTATCGATACATTCATA-
1 AATGTATCGATACATTGA-AG
* *
76830 CATGTATTGATACATTGAAG
1 AATGTATCGATACATTGAAG
*
76850 AATGTAACGATACATCTGGGTAAAAAGACAG
1 AATGTATCGATACA--T---T-----GA-AG
76881 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
76901 AATGTATCGATACAT
1 AATGTATCGATACAT
76916 CTAGGTAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
19 1 0.01
20 58 0.70
21 3 0.04
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 2 0.02
31 15 0.18
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:81311 original size:1 final size:1
Alignment explanation
Indices: 81307--81359 Score: 106
Period size: 1 Copynumber: 53.0 Consensus size: 1
81297 TTCCTTGCCC
81307 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
81360 TATATCTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.