Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold395
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: 363785
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 3
Found at i:1782 original size:53 final size:51
Alignment explanation
Indices: 1460--1795 Score: 202
Period size: 51 Copynumber: 6.4 Consensus size: 51
1450 ATCAATTCTC
* * * * *
1460 CACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
* * *
1510 CTATAATCGGGGATACTCTAACTCCAATTTTATTTCCAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTT-TT
* * * ** * *
1564 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * ** * *
1622 -TCGA--GGGGATACTCCAACTCCGATTTTATCGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
* * * *
1670 CCACAATC-GGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTTT
** *
1721 CTTTAATCGGGGATACTCCAAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCC-AACTCCGATTTTATTTCC-AAAACACCAATTTTT
*
1775 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
1796 CTCGTTATTT
Statistics
Matches: 214, Mismatches: 47, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 7 0.03
51 69 0.32
52 24 0.11
53 55 0.26
54 25 0.12
55 17 0.08
56 1 0.00
57 6 0.03
58 4 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
Found at i:1815 original size:28 final size:28
Alignment explanation
Indices: 1779--1852 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
1769 ATTTTTCACA
* *
1779 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
1807 ATCGGGGATACTCCAACCTCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
1835 CGAGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1853 ACGGCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:1841 original size:212 final size:211
Alignment explanation
Indices: 1458--1851 Score: 596
Period size: 212 Copynumber: 1.9 Consensus size: 211
1448 TTATCAATTC
* * *
1458 TCCACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1523 TACTCTAACTCCAATTTTATTTCCAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCC
66 TACTCAAACTCCAATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
* *
1588 GTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTTTATCG
131 GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGATTTTATCG
1653 CTAAAACACTAATTTT
196 CTAAAACACTAATTTT
* * *
1669 TCCACAATCG-GGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
1732 GATACTCCAAACTCCGATTTTATTTCCAAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACT-CAAACTCCAATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
1796 CTCGTTATTTCATCGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAAC
128 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
1852 CACGGCTTTA
Statistics
Matches: 164, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
209 3 0.02
210 32 0.20
211 54 0.33
212 75 0.46
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (211 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCAAACTCCAATTTTATTTCCAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGATTTTATCG
CTAAAACACTAATTTT
Found at i:1976 original size:77 final size:79
Alignment explanation
Indices: 1809--2008 Score: 203
Period size: 77 Copynumber: 2.6 Consensus size: 79
1799 GTTATTTCAT
* * * *
1809 CGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCACGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAACCACGGATTTATTCCCAAAATAT
* * *
1874 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** *
1888 TGGGGATACTCCAACCCCGTTA-TTTCGAAGGGATACTCCAATCC-C-GATTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAA-CCACGGATTTATTCCCAAAAT-
1949 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* * *
1965 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACC
1 CGGGGATACTCCAACCCCGTTACTTTCGAAGGG-ATACTCCAACC
2009 CTGTTATTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
76 3 0.03
77 47 0.46
78 30 0.29
79 22 0.22
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTACTTTCGAAGGGATACTCCAACCACGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:14422 original size:12 final size:11
Alignment explanation
Indices: 14404--14442 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14394 ACCTTCTCTT
*
14404 CAAAAAAAAAG
1 CAAAAAAAAAA
14415 CAAAAAAAAAAA
1 C-AAAAAAAAAA
14427 CAAAAAAAAAA
1 CAAAAAAAAAA
14438 CAAAA
1 CAAAA
14443 CAAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:14423 original size:13 final size:12
Alignment explanation
Indices: 14405--14464 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 12
14395 CCTTCTCTTC
*
14405 AAAAAAAAAGCA
1 AAAAAAAAAACA
14417 AAAAAAAAAAC-
1 AAAAAAAAAACA
14428 AAAAAAAAAACA
1 AAAAAAAAAACA
14440 AAACAAAGAAAA-A
1 AAA-AAA-AAAACA
14453 GAGAAAAAAAAA
1 -A-AAAAAAAAA
14465 TCTGCTTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
11 11 0.26
12 13 0.31
13 8 0.19
14 8 0.19
15 2 0.05
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:15511 original size:55 final size:54
Alignment explanation
Indices: 15428--16183 Score: 974
Period size: 55 Copynumber: 13.4 Consensus size: 54
15418 CTCCTTCCGC
*
15428 TTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
15482 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
15537 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
15592 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
15647 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
15708 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
15763 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
15818 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
15879 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
15934 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
15989 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
16050 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
16105 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
16160 CTTTTTACTCCTCAATGAGAAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
16184 TACACTTTAT
Statistics
Matches: 628, Mismatches: 48, Indels: 51
0.86 0.07 0.07
Matches are distributed among these distances:
54 12 0.02
55 453 0.72
56 14 0.02
57 3 0.00
59 3 0.00
61 143 0.23
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:15513 original size:27 final size:27
Alignment explanation
Indices: 15483--15568 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
15473 TTGGTGGCAT
15483 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
15510 TTTCAAAGCCCACATAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
15538 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
15565 TTTC
1 TTTC
15569 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:15750 original size:171 final size:171
Alignment explanation
Indices: 15439--16184 Score: 1226
Period size: 171 Copynumber: 4.4 Consensus size: 171
15429 TTTCAGTCCC
* * *
15439 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
1 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
* * * *
15504 GA--C----ACCTTTCAAAGCCCACATAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC
66 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC
15562 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
130 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
15604 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
1 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
15669 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
66 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
15734 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
131 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
15775 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
1 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
15840 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
66 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
15905 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
131 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
15946 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
1 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
*
16011 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
66 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* *
16076 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
131 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCT
* * * * *
16117 CAAAGAGCAGGACGCCTTTCAAAGCCCACAC-GAGTTGGTGGCACTTTTT-ACTCCTCAATGAGA
1 CAAAGAGCAGGACACCTTTTAAAGCCCACACAG-GTTGGTGGCA-TTTTTCAGTCCTCAAAGAGC
16180 AGGAT
64 AGGAT
16185 ACACTTTATT
Statistics
Matches: 555, Mismatches: 15, Indels: 16
0.95 0.03 0.03
Matches are distributed among these distances:
165 64 0.12
167 1 0.00
170 1 0.00
171 476 0.86
172 13 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (171 bp):
CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
Found at i:15913 original size:226 final size:220
Alignment explanation
Indices: 15429--16164 Score: 1051
Period size: 226 Copynumber: 3.3 Consensus size: 220
15419 TCCTTCCGCT
*
15429 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
*
15494 CAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
* * *
15559 GACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTT
131 GACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
* **
15624 AAAGCCCACACAGGTTGGTGGCATT
196 AAAGCCCACACAAGTTGGTGGCACC
* * *
15649 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
*
15713 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
59 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
*
15778 AGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAT
124 AGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA-
**
15843 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
188 -C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACC
15881 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* * *
15946 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
** ** *
16011 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
131 GA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA
*
16076 CCTCTTAAAGCCCACACAAGTTGGTGGCACC
190 CCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
16107 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
16165 TACTCCTCAA
Statistics
Matches: 462, Mismatches: 33, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
220 21 0.05
222 1 0.00
225 3 0.01
226 325 0.70
227 11 0.02
228 2 0.00
230 2 0.00
231 10 0.02
232 87 0.19
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (220 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
GACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
AAAGCCCACACAAGTTGGTGGCACC
Found at i:16107 original size:29 final size:28
Alignment explanation
Indices: 16027--16109 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
16017 TTTTCTTTTC
16027 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
16055 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
16082 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
16110 CAGTCCTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:21928 original size:19 final size:19
Alignment explanation
Indices: 21904--21971 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
21894 AATTCAACGA
21904 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
21923 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
21938 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
21955 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
21972 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:21942 original size:32 final size:32
Alignment explanation
Indices: 21906--21968 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
21896 TTCAACGATT
*
21906 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
21938 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
21969 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:21943 original size:13 final size:13
Alignment explanation
Indices: 21925--21949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21915 ACATAAGTTT
21925 TGTATCGATACAA
1 TGTATCGATACAA
21938 TGTATCGATACA
1 TGTATCGATACA
21950 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:22029 original size:13 final size:13
Alignment explanation
Indices: 22011--22036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22001 CATTTTTCTG
22011 TGTATCGATACAT
1 TGTATCGATACAT
22024 TGTATCGATACAT
1 TGTATCGATACAT
22037 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:22033 original size:33 final size:33
Alignment explanation
Indices: 21991--22057 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
21981 GCCAAGGAAA
***
21991 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
22024 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
22057 T
1 T
22058 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:24631 original size:52 final size:51
Alignment explanation
Indices: 24571--24736 Score: 158
Period size: 52 Copynumber: 3.2 Consensus size: 51
24561 TTTCGAGGGA
*
24571 ATACTCCAACTCTGGTTTTATCGCTAAAACACTAATTTTTCCACAATCGGGG
1 ATACTCCAACTCTGGTTTTATC-CTAAAACACCAATTTTTCCACAATCGGGG
** * **
24623 ATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATCGGGG
1 ATACTCCAACT-CTGGTTTTATCCT-AAAACACCAATTTTTCC-ACAATCGGGG
* * * * *
24675 ATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCGAGG
1 ATACTCCAACTCTGGTTTTA--TCCTAAAACACCAATTTTTCCACAATCGGGG
24727 ATACTCCAAC
1 ATACTCCAAC
24737 CTCGTTATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
51 8 0.09
52 68 0.75
53 10 0.11
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
ATACTCCAACTCTGGTTTTATCCTAAAACACCAATTTTTCCACAATCGGGG
Found at i:24756 original size:28 final size:29
Alignment explanation
Indices: 24720--24796 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
24710 ATTTTTCACA
* * *
24720 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
24748 ATCGGGGATACTCCAACCCCGTTACTTCC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
*
24777 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
24797 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.91
29 4 0.09
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACTTCC
Found at i:24765 original size:212 final size:212
Alignment explanation
Indices: 24398--24792 Score: 591
Period size: 212 Copynumber: 1.9 Consensus size: 212
24388 TTATCAATTC
* * *
24398 TCCACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
24463 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAATCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAATCC
* * *
24528 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAACTCTGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGAATACTCCAACTCTGGTTTTATC
24593 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
24610 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
24674 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA-
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAT
* *
24736 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAAC
129 CC-CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGAATACTCCAAC
24793 CCCGGCTTTA
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
210 2 0.01
211 29 0.18
212 98 0.60
213 35 0.21
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAATCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGAATACTCCAACTCTGGTTTTATC
GCTAAAACACTAATTTT
Found at i:24846 original size:79 final size:79
Alignment explanation
Indices: 24750--24952 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
24740 GTTATTTCAT
* *
24750 CGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTCCC-AAATCA
* * *
24814 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * * * ** *
24829 TGGGGATACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAATCCCGATTTTTTTTTCTAATCA
1 CGGGGATACTCCAACCCCGTTA-TTTCCAAGGGGATACTCCAACCCCGACTTTATTCCCAAATCA
24893 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
24908 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCC
24953 TGTTATTATC
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
78 8 0.08
79 88 0.87
80 5 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
CGATTTCTCACAAC
Found at i:24863 original size:107 final size:107
Alignment explanation
Indices: 24458--24875 Score: 260
Period size: 107 Copynumber: 3.9 Consensus size: 107
24448 TTCTATAATC
* * * * *
24458 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * * * * *
24523 AATCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCAA
* * * * * * * * * *
24567 GGGAATACTCCAACTCTG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
24630 AATCCTGGT-TTTATTTTCAAAACGCCAA---TTTTCCTT-TAA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCAA
* * *
24669 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCC
1 --GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCC
*
24734 AACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCAA
64 AACCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCAA
* * *** * * *
24779 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
24843 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
24876 ATTTTTTTTT
Statistics
Matches: 234, Mismatches: 61, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 38 0.16
105 23 0.10
106 23 0.10
107 98 0.42
108 25 0.11
109 20 0.09
110 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCAA
Found at i:26625 original size:13 final size:13
Alignment explanation
Indices: 26607--26632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26597 CAATTTTTTG
26607 TGTATCGATACAT
1 TGTATCGATACAT
26620 TGTATCGATACAT
1 TGTATCGATACAT
26633 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26644 original size:32 final size:33
Alignment explanation
Indices: 26587--26650 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
26577 TACAAGTAAA
**
26587 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
26620 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
26651 AGTTTCGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:29045 original size:21 final size:21
Alignment explanation
Indices: 29021--29067 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29011 TTTGATGCTG
29021 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
29041 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
29062 ATTTTG
1 ATTTTG
29068 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:29217 original size:13 final size:13
Alignment explanation
Indices: 29179--29219 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
29169 ATAATCCCCC
*
29179 TGTATCGATACAG
1 TGTATCGATACAT
29192 TGTATCGATACAT
1 TGTATCGATACAT
29205 TGTATCGATACAT
1 TGTATCGATACAT
29218 TG
1 TG
29220 AACTTCCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31212 original size:15 final size:15
Alignment explanation
Indices: 31176--31213 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
31166 TTCATCAATT
* *
31176 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
31191 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
31206 TCATTTTG
1 TCATTTTG
31214 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:33044 original size:21 final size:21
Alignment explanation
Indices: 33015--33059 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33005 AAGTTTTTAT
*
33015 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
33035 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
33057 TTT
1 TTT
33060 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:35243 original size:20 final size:20
Alignment explanation
Indices: 35218--35269 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
35208 TACAAGCAAA
**
35218 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
35238 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
*
35257 TGTATTGATACAA
1 TGTATCGATACAA
35270 GTTTCGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:38686 original size:13 final size:13
Alignment explanation
Indices: 38646--38698 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
38636 TCGTTACAAG
38646 CAATGTATCGATA
1 CAATGTATCGATA
38659 CAA--T-TC-AT-
1 CAATGTATCGATA
38667 C-ATGTATCGATA
1 CAATGTATCGATA
38679 CAATGTATCGATA
1 CAATGTATCGATA
*
38692 CATTGTA
1 CAATGTA
38699 CCTCGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:38791 original size:19 final size:19
Alignment explanation
Indices: 38743--38798 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
38733 CTGCCAATTT
* **
38743 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
38763 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
38782 CATGTATCGATACAATG
1 CATGTATCGATACAATG
38799 TCTCAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:43591 original size:29 final size:29
Alignment explanation
Indices: 43552--43805 Score: 328
Period size: 29 Copynumber: 8.7 Consensus size: 29
43542 TTAAAGGTTA
* * *
43552 CCACTGACTTGTGGGCTTTTGAAGAGATA
1 CCACTGACTTGTGGGCTTTGGAAAAGATG
*
43581 CCACTGACTTGTGGGCTTTGGAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGGAAAA-GATG
*
43611 CCACTGGCTTGTGGGCTTTGGAAAAGATG
1 CCACTGACTTGTGGGCTTTGGAAAAGATG
*
43640 CCACTGGCTTGTGGGCTTTGGAAAAGATG
1 CCACTGACTTGTGGGCTTTGGAAAAGATG
*
43669 CCACTGACTTGTGGGCTTTGGAAAAAGGTG
1 CCACTGACTTGTGGGCTTTGG-AAAAGATG
* * * *
43699 CCACTAACTTATGGGCTTTTGAAAAGATC
1 CCACTGACTTGTGGGCTTTGGAAAAGATG
* * *
43728 CCACTAACTGGTGGGCTTTGGAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGGAAAA-GATG
* * *
43758 CCACTAACTTGTGGGCGTTGGAAATGATG
1 CCACTGACTTGTGGGCTTTGGAAAAGATG
43787 CCACTGACTTGTGGGCTTT
1 CCACTGACTTGTGGGCTTT
43806 TGAAGGGTGA
Statistics
Matches: 198, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
29 123 0.62
30 75 0.38
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (29 bp):
CCACTGACTTGTGGGCTTTGGAAAAGATG
Found at i:43622 original size:59 final size:58
Alignment explanation
Indices: 43552--43805 Score: 328
Period size: 59 Copynumber: 4.3 Consensus size: 58
43542 TTAAAGGTTA
* * * * *
43552 CCACTGACTTGTGGGCTTTTGAAGAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTGGAAAA-GATG
* **
43611 CCACTGGCTTGTGGGCTTTGGAAAAGATGCCACTGGCTTGTGGGCTTTGGAAAAGATG
1 CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTGGAAAAGATG
* * * *
43669 CCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTAACTTATGGGCTTTTGAAAAGATC
1 CCACTGACTTGTGGGCTTTGG-AAAAGATGCCACTAACTTGTGGGCTTTGGAAAAGATG
* * * * *
43728 CCACTAACTGGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGGCGTTGGAAATGATG
1 CCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTAACTTGTGGGCTTTGGAAAAGATG
43787 CCACTGACTTGTGGGCTTT
1 CCACTGACTTGTGGGCTTT
43806 TGAAGGGTGA
Statistics
Matches: 171, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
58 27 0.16
59 144 0.84
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (58 bp):
CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTGGAAAAGATG
Found at i:43651 original size:88 final size:88
Alignment explanation
Indices: 43552--43805 Score: 339
Period size: 88 Copynumber: 2.9 Consensus size: 88
43542 TTAAAGGTTA
* * * *
43552 CCACTGACTTGTGGGCTTTTGAAGAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTG
1 CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTG
* *
43617 GCTTGTGGGCTTTGGAAAAGATG
66 ACTTGTGGGCTTTGGAAAAGATC
* *
43640 CCACTGGCTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTA
1 CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTG
* *
43705 ACTTATGGGCTTTTGAAAAGATC
66 ACTTGTGGGCTTTGGAAAAGATC
* * * * * * *
43728 CCACTAACTGGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGGCGTTGG-AAATGATGCCACT
1 CCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACT
43792 GACTTGTGGGCTTT
65 GACTTGTGGGCTTT
43806 TGAAGGGTGA
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 123 0.85
89 22 0.15
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (88 bp):
CCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAAGGTGCCACTG
ACTTGTGGGCTTTGGAAAAGATC
Found at i:45267 original size:6 final size:6
Alignment explanation
Indices: 45250--45332 Score: 80
Period size: 6 Copynumber: 13.3 Consensus size: 6
45240 ACCCTTTTTG
* *
45250 TTGTTG TTGTTT TTGTTT TTTTTT TTGTTT TT-TTCT TTGTTTTT TTGTTT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTT-T TTG--TTT TTGTTT
*
45300 TTGTTTT TTGTTTT TTGTTT TT-TTC TTGTTT TT
1 TTG-TTT TTG-TTT TTGTTT TTGTTT TTGTTT TT
45333 TTCTTCTTCT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 6 0.09
6 41 0.62
7 13 0.20
8 4 0.06
9 2 0.03
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (6 bp):
TTGTTT
Found at i:45294 original size:14 final size:14
Alignment explanation
Indices: 45256--45370 Score: 87
Period size: 14 Copynumber: 8.1 Consensus size: 14
45246 TTTGTTGTTG
*
45256 TTGTTTTTGTTTTTT
1 TTGTTTTT-TTTTCT
*
45271 TTTTTGTTTTTTTCT
1 TTGTT-TTTTTTTCT
45286 TTGTTTTTTTGTT-T
1 TTGTTTTTTT-TTCT
45300 TTGTTTTTTGTTT-T
1 TTGTTTTTT-TTTCT
45314 TTG--TTTTTTTC-
1 TTGTTTTTTTTTCT
45325 TTGTTTTTTTCTTCT
1 TTGTTTTTTT-TTCT
* *
45340 TCTTTTTTTTATTTAT
1 T-TGTTTTTT-TTTCT
*
45356 TTGGTTTTTTTTCT
1 TTGTTTTTTTTTCT
45370 T
1 T
45371 CTTCTTCTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
11 6 0.07
12 4 0.05
13 5 0.06
14 29 0.35
15 23 0.28
16 14 0.17
17 1 0.01
ACGTcount: A:0.02, C:0.05, G:0.10, T:0.83
Consensus pattern (14 bp):
TTGTTTTTTTTTCT
Found at i:45345 original size:25 final size:24
Alignment explanation
Indices: 45266--45349 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 24
45256 TTGTTTTTGT
*
45266 TTTTTTTTTTGTTTTTTTCTTTGTT
1 TTTTTTTTTTGTTTTTTTCTTT-TC
* *
45291 TTTTTGTTTTTGTTTTTTGTTTTTTG
1 TTTTT-TTTTTGTTTTTT-TCTTTTC
*
45317 TTTTTTTCTTGTTTTTTTCTTCTTC
1 TTTTTTTTTTGTTTTTTTCTT-TTC
45342 TTTTTTTT
1 TTTTTTTT
45350 ATTTATTTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.06
25 25 0.50
26 18 0.36
27 4 0.08
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTTGTTTTTTTCTTTTC
Found at i:45346 original size:51 final size:53
Alignment explanation
Indices: 45244--45346 Score: 142
Period size: 51 Copynumber: 2.0 Consensus size: 53
45234 ATCCGGACCC
* *
45244 TTTTTGTTGTTGTTGTTTTTGTTTTTTTTTTTGTTTTTTTCTTTGTTTTTTTG
1 TTTTTGTTGTTGTTGTTTTTGTTTTTTTTCTTGTTTTTTTCTTTGTCTTTTTG
45297 TTTTTGTT-TT-TTGTTTTT-TGTTTTTTTCTTGTTTTTTTCTTCT-TCTTTTT
1 TTTTTGTTGTTGTTGTTTTTGT-TTTTTTTCTTGTTTTTTTCTT-TGTCTTTTT
45347 TTTATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
50 1 0.02
51 34 0.74
52 3 0.07
53 8 0.17
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (53 bp):
TTTTTGTTGTTGTTGTTTTTGTTTTTTTTCTTGTTTTTTTCTTTGTCTTTTTG
Found at i:45347 original size:33 final size:30
Alignment explanation
Indices: 45243--45400 Score: 106
Period size: 32 Copynumber: 4.9 Consensus size: 30
45233 CATCCGGACC
45243 CTTTTTGTTGTTGTTGTTTTTGTTTTTTTTTTT
1 CTTTTT-TTGTT-TT-TTTTTGTTTTTTTTTTT
* *
45276 GTTTTTTTCTTTGTTTTTTTGTTTTTGTTTTTT
1 CTTTTTTT-GTT-TTTTTTTGTTTTT-TTTTTT
*
45309 -GTTTTTTGTTTTTTTCTTGTTTTTTTCTTCTT
1 CTTTTTTTGTTTTTTT-TTGTTTTTTT-TT-TT
* * *
45341 CTTTTTTT-TATTTATTTGGTTTTTTTTCTT
1 CTTTTTTTGT-TTTTTTTTGTTTTTTTTTTT
* *
45371 CTTCTTCTTT-TTGTTTATTTGGTTTTTTTT
1 CTT-TT-TTTGTT-TTTTTTTGTTTTTTTTT
45401 CTGTGGAGGA
Statistics
Matches: 102, Mismatches: 13, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
30 12 0.12
31 16 0.16
32 47 0.46
33 27 0.26
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.81
Consensus pattern (30 bp):
CTTTTTTTGTTTTTTTTTGTTTTTTTTTTT
Found at i:45365 original size:51 final size:52
Alignment explanation
Indices: 45259--45382 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 52
45249 GTTGTTGTTG
* * * *
45259 TTTTTGTTTTTTTTTTTGTTTTTTTCTTTGTTTTTTTGTTTTTGTTTTTTGT
1 TTTTTGTTTTTTTTCTTGTTTTTTTCTTTGTCTTTTTGTTTTTGTATTTGGT
45311 TTTTTG-TTTTTTTCTTGTTTTTTTCTTCT-TCTTTTT-TTTATT-TATTTGGT
1 TTTTTGTTTTTTTTCTTGTTTTTTTCTT-TGTCTTTTTGTTT-TTGTATTTGGT
* * *
45361 TTTTT-TTCTTCTTCTTCTTTTT
1 TTTTTGTTTTTTTTCTTGTTTTT
45383 GTTTATTTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
50 27 0.44
51 28 0.45
52 7 0.11
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.83
Consensus pattern (52 bp):
TTTTTGTTTTTTTTCTTGTTTTTTTCTTTGTCTTTTTGTTTTTGTATTTGGT
Found at i:45367 original size:1 final size:1
Alignment explanation
Indices: 45259--45349 Score: 65
Period size: 1 Copynumber: 91.0 Consensus size: 1
45249 GTTGTTGTTG
* * * * * * * *
45259 TTTTTGTTTTTTTTTTTGTTTTTTTCTTTGTTTTTTTGTTTTTGTTTTTTGTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
45324 CTTGTTTTTTTCTTCTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
45350 ATTTATTTGG
Statistics
Matches: 64, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:45401 original size:33 final size:33
Alignment explanation
Indices: 45328--45402 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
45318 TTTTTTCTTG
*
45328 TTTTTTTCTTCTTCTTTTTTTTATTTATTTGGT
1 TTTTTTTCTTCTTCTTCTTTTTATTTATTTGGT
*
45361 TTTTTTTCTTCTTCTTCTTTTTGTTTATTTGGT
1 TTTTTTTCTTCTTCTTCTTTTTATTTATTTGGT
45394 TTTTTTTCT
1 TTTTTTTCT
45403 GTGGAGGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.04, C:0.11, G:0.07, T:0.79
Consensus pattern (33 bp):
TTTTTTTCTTCTTCTTCTTTTTATTTATTTGGT
Found at i:62261 original size:8 final size:8
Alignment explanation
Indices: 62248--62299 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
62238 GTCATTCGTA
62248 AAAAAAAC
1 AAAAAAAC
62256 AAAAAAAC
1 AAAAAAAC
*
62264 AATAAAACAAT
1 -A-AAAA-AAC
62275 AAAAAAAC
1 AAAAAAAC
62283 AACAACAAAC
1 AA-AA-AAAC
62293 AAAAAAA
1 AAAAAAA
62300 GGGAAGAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 15 0.41
9 9 0.24
10 11 0.30
11 2 0.05
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (8 bp):
AAAAAAAC
Found at i:62270 original size:19 final size:18
Alignment explanation
Indices: 62247--62299 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
62237 CGTCATTCGT
62247 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAACA
* *
62265 ATAAAACAATAAAAAAACA
1 A-AAAAAAACAAAAAAACA
* *
62284 ACAACAAACAAAAAAA
1 AAAAAAAACAAAAAAA
62300 GGGAAGAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:63625 original size:14 final size:13
Alignment explanation
Indices: 63545--63626 Score: 58
Period size: 14 Copynumber: 6.2 Consensus size: 13
63535 ATTGTCAACA
63545 AAATTGTTGTCAAG
1 AAATT-TTGTCAAG
63559 AAATTTTCGTCAAG
1 AAATTTT-GTCAAG
* *
63573 AACTTTTGTCGAG
1 AAATTTTGTCAAG
** *
63586 AACGTGTGTC-AG
1 AAATTTTGTCAAG
* **
63598 AAACTTCATCAAG
1 AAATTTTGTCAAG
63611 AAATGTTTGTCAAG
1 AAAT-TTTGTCAAG
63625 AA
1 AA
63627 GAATCGCTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.13
13 20 0.38
14 26 0.49
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (13 bp):
AAATTTTGTCAAG
Found at i:63932 original size:32 final size:32
Alignment explanation
Indices: 63895--64110 Score: 226
Period size: 32 Copynumber: 6.8 Consensus size: 32
63885 GAAACCTTTT
63895 TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
*
63927 TCCAAAGCCCACACAAGCTGGTGGCAACCTTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
* *
63959 TTCAAAGCCCACACAAGTTGGTGGTAACC-TC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
** * * *
63990 TTTAAAAGCCCACACAAGTCGATGGCAACC-CC
1 -TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
* * ** *
64022 TTCAAAACCCACACAAACTGGTGGTAACCCTTC
1 TCCAAAGCCCACACAAGTTGGTGGCAA-CCTTC
*
64055 T-TAAAGCCCACACAAGTTGGTGGCAACCCTT-
1 TCCAAAGCCCACACAAGTTGGTGGCAA-CCTTC
* *
64086 TCAAAAGCCCACACAA-TTAGTGGCA
1 TCCAAAGCCCACACAAGTTGGTGGCA
64111 TCTCCTTCTA
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
31 31 0.20
32 123 0.79
33 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.19
Consensus pattern (32 bp):
TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
Found at i:64050 original size:63 final size:63
Alignment explanation
Indices: 63897--64101 Score: 227
Period size: 63 Copynumber: 3.2 Consensus size: 63
63887 AACCTTTTTC
* ** * * *
63897 CAAAGCCCACACAAGTTGGTGGCAA-CCTTCTCCAAAGCCCACACAAG-CTGGTGGCAACCTTCT
1 CAAAACCCACACAAACTGGTGGTAACCCTTCT-AAAAGCCCACACAAGTC-GGTGGCAACC-CCT
63960 T
63 T
* ** *
63961 CAAAGCCCACACAAGTTGGTGGTAACCTCTT-TAAAAGCCCACACAAGTCGATGGCAACCCCTT
1 CAAAACCCACACAAACTGGTGGTAACC-CTTCTAAAAGCCCACACAAGTCGGTGGCAACCCCTT
* * *
64024 CAAAACCCACACAAACTGGTGGTAACCCTTCTTAAAGCCCACACAAGTTGGTGGCAACCCTTT
1 CAAAACCCACACAAACTGGTGGTAACCCTTCTAAAAGCCCACACAAGTCGGTGGCAACCCCTT
64087 CAAAAGCCCACACAA
1 CAAAA-CCCACACAA
64102 TTAGTGGCAT
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
62 3 0.02
63 60 0.48
64 56 0.45
65 3 0.02
66 3 0.02
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (63 bp):
CAAAACCCACACAAACTGGTGGTAACCCTTCTAAAAGCCCACACAAGTCGGTGGCAACCCCTT
Found at i:64070 original size:95 final size:96
Alignment explanation
Indices: 63893--64101 Score: 298
Period size: 95 Copynumber: 2.2 Consensus size: 96
63883 GAGAAACCTT
* * * * * *
63893 TTTCCAAAGCCCACACAAGTTGGTGGCAACCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCTT
1 TTTCAAAAGCCCACACAAGTCGATGGCAACCTCCTCCAAAACCCACACAAACTGGTGGCAACCTT
*
63958 CTTCAAAGCCCACACAAGTTGGTGGTAACCTC
66 CTTCAAAGCCCACACAAGTTGGTGGCAACC-C
* *
63990 TTT-AAAAGCCCACACAAGTCGATGGCAACC-CCTTCAAAACCCACACAAACTGGTGGTAACCCT
1 TTTCAAAAGCCCACACAAGTCGATGGCAACCTCCTCCAAAACCCACACAAACTGGTGGCAA-CCT
64053 TCTT-AAAGCCCACACAAGTTGGTGGCAACCC
65 TCTTCAAAGCCCACACAAGTTGGTGGCAACCC
64084 TTTCAAAAGCCCACACAA
1 TTTCAAAAGCCCACACAA
64102 TTAGTGGCAT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
94 4 0.04
95 63 0.62
96 31 0.31
97 3 0.03
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (96 bp):
TTTCAAAAGCCCACACAAGTCGATGGCAACCTCCTCCAAAACCCACACAAACTGGTGGCAACCTT
CTTCAAAGCCCACACAAGTTGGTGGCAACCC
Found at i:64239 original size:49 final size:51
Alignment explanation
Indices: 64119--64420 Score: 220
Period size: 52 Copynumber: 5.9 Consensus size: 51
64109 CATCTCCTTC
* * * *
64119 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTTGCACCTTTACCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA-CATCTT
*
64171 TAAGTCCATTATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-CATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACATCTT
* * * * * *
64220 TAAGTTCAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-ACATCT-T
* * *
64272 TAAG-CCTAATGTCGCTGGCCTTTAATCAGCACATTGGCATTCTTCT-CATCTT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-TACATCTT
* * * * * * * * ***
64324 CAAGTTTC-ATGTCGCTAGCCGTGAATTAGCACATTGACATTCTTCGTATCTT
1 TAAG-TCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTACATCTT
* * * * *
64376 TCAGCCCAATATCGCTAGCCTTGAATCAGTATATTGGCACCTTTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
64421 TCATTCTTCT
Statistics
Matches: 197, Mismatches: 41, Indels: 25
0.75 0.16 0.10
Matches are distributed among these distances:
49 41 0.21
50 2 0.01
51 8 0.04
52 139 0.71
53 5 0.03
54 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTACATCTT
Found at i:64355 original size:153 final size:154
Alignment explanation
Indices: 64118--64426 Score: 356
Period size: 153 Copynumber: 2.0 Consensus size: 154
64108 GCATCTCCTT
* *
64118 CTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTTGCACCTTTACCATCTTTAAGTCCATTAT
1 CTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTA-CATCTTCAAGTCCATTAT
* * * ** * * *
64183 CGCTGGCCTTGAATCAGCACATTGGCA-CCTTC-ATCTTTAAGTTCAATATTGTTGGCCTTGAAT
65 CGCTAGCCGTGAATCAGCACATTGACATCCTTCGATCTTTAAGCCCAATATCGCTAGCCTTGAAT
*
64246 CAGCATATTGGCATCTTTAACATTC
130 CAGCATATTGGCACCTTTAACATTC
* * * *
64271 CTAAGCCTAATGTCGCTGGCCTTTAATCAGCACATTGGCATTCTTCT-CATCTTCAAGTTTCA-T
1 CTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCA-CCTT-TACATCTTCAAG-TCCATT
* * * *
64334 GTCGCTAGCCGTGAATTAGCACATTGACATTCTTCGTATCTTTCAGCCCAATATCGCTAGCCTTG
63 ATCGCTAGCCGTGAATCAGCACATTGACATCCTTCG-ATCTTTAAGCCCAATATCGCTAGCCTTG
* *
64399 AATCAGTATATTGGCACCTTTATCATTC
127 AATCAGCATATTGGCACCTTTAACATTC
64427 TTCTCATCTT
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
153 71 0.55
154 10 0.08
155 1 0.01
156 47 0.36
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (154 bp):
CTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTACATCTTCAAGTCCATTATC
GCTAGCCGTGAATCAGCACATTGACATCCTTCGATCTTTAAGCCCAATATCGCTAGCCTTGAATC
AGCATATTGGCACCTTTAACATTC
Found at i:64464 original size:61 final size:60
Alignment explanation
Indices: 64348--64497 Score: 151
Period size: 61 Copynumber: 2.5 Consensus size: 60
64338 CTAGCCGTGA
* * * * * **
64348 ATTAGCACATTGA-CATTCTTCGTATCTTTCAGCCCAATATCGCTAGCCTTGAATCAGTAT
1 ATTAGCACCTTTATCATTCTTC-TATCTTTAAGCCCAATATCACTAGCCTTAAATCAACAT
* *
64408 ATTGGCACCTTTATCATTCTTCTCATCTTTAAGCCCAATATCACTGGACC-TAAATCAACAT
1 ATTAGCACCTTTATCATTCTTCT-ATCTTTAAGCCCAATATCACTAG-CCTTAAATCAACAT
* *
64469 ATTAGCATCTTTATCACTCTTCTTATCTT
1 ATTAGCACCTTTATCATTCTTC-TATCTT
64498 CATCATCTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
60 11 0.15
61 60 0.81
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (60 bp):
ATTAGCACCTTTATCATTCTTCTATCTTTAAGCCCAATATCACTAGCCTTAAATCAACAT
Found at i:65163 original size:13 final size:13
Alignment explanation
Indices: 65145--65170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65135 ATATAAGTTT
65145 TGTATCGATACAA
1 TGTATCGATACAA
65158 TGTATCGATACAA
1 TGTATCGATACAA
65171 AATTACCTTG
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):
TGTATCGATACAA
Found at i:69349 original size:13 final size:13
Alignment explanation
Indices: 69331--69356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69321 CAATTTTTTG
69331 TGTATCGATACAT
1 TGTATCGATACAT
69344 TGTATCGATACAT
1 TGTATCGATACAT
69357 ACTTGGTGTA
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:69371 original size:32 final size:33
Alignment explanation
Indices: 69311--69374 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
69301 TACAAGCCAA
** *
69311 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
69344 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
69375 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:71908 original size:13 final size:13
Alignment explanation
Indices: 71890--71928 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
71880 ATAATCACCC
71890 TGTATCGATACAA
1 TGTATCGATACAA
71903 TGTATCGATACAA
1 TGTATCGATACAA
71916 TGTATCGATACAA
1 TGTATCGATACAA
71929 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:77520 original size:13 final size:13
Alignment explanation
Indices: 77502--77527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77492 CAATTTTTTG
77502 TGTATCGATACAT
1 TGTATCGATACAT
77515 TGTATCGATACAT
1 TGTATCGATACAT
77528 ACTTGGTGTA
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:77542 original size:32 final size:33
Alignment explanation
Indices: 77482--77545 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
77472 TACAAGCCAA
** *
77482 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
77515 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
77546 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:79150 original size:155 final size:153
Alignment explanation
Indices: 78832--79314 Score: 513
Period size: 155 Copynumber: 3.1 Consensus size: 153
78822 CTGATACTCT
* * *
78832 TAAAGGACTTAAAAATGATAATAGATGGGGTAAACCTATCCTAAATACCCACCTTTCGCATAAAA
1 TAAAGGACTTAAAAA-GGTAAAAGATGGGATAAACCTATCCTAAATACCCACCTTTCGCATAAAA
* * * ** *
78897 GT-GAACCCGTGACAACTTAGGACTCGGTACTAAAAAATTACAAAAATACCCTTAAGGGATACCT
65 GTAG-ACCCGTGGCAACCTAAGACTCGGTTTTAAAAAATTATAAAAATACCCTTAAGGGATACCT
* * * *
78961 TCGACGTAAAAGTACCTAACACCCC
129 TCGACATAAAAATGCCTAGCACCCC
* * * * *
78986 TAAAAGACTTAAAATGGTAAAAGGATGGGATGAACCTATCCTAAATACCCA-CATTCGATATAAA
1 TAAAGGACTTAAAAAGGTAAAA-GATGGGATAAACCTATCCTAAATACCCACCTTTCG-CATAAA
* * * ** * *
79050 AGTAGACTCGATGGTAACCTAAGACTCGGTTTTAAAAAATTATGAAAACGCCTTTAAAGGATACC
64 AGTAGACCCG-TGGCAACCTAAGACTCGGTTTTAAAAAATTATAAAAATACCCTTAAGGGATACC
*
79115 TTCGACATAAAAATGCCCAGCACCCC
128 TTCGACATAAAAATGCCTAGCACCCC
* * **
79141 TAAAGGACTTAAAAAGGTAAAATGATGGGATAAACCTATTCTAAATACCAATTTTTCGGCATAAA
1 TAAAGGACTTAAAAAGGTAAAA-GATGGGATAAACCTATCCTAAATACCCACCTTTC-GCATAAA
* * * * * *
79206 AGCAAACCCGGTGGCAACCTAAGACTCGATTTTGAAAAATTATAAAAATACCCCTAGGGGATACC
64 AGTAGACCC-GTGGCAACCTAAGACTCGGTTTTAAAAAATTATAAAAATACCCTTAAGGGATACC
* * * *
79271 TTTGATATAAAAATG-CTAGTATCCC
128 TTCGACATAAAAATGCCTAGCACCCC
79296 TAAAGGACTTAAAAAGGTA
1 TAAAGGACTTAAAAAGGTA
79315 CAACGATAGG
Statistics
Matches: 269, Mismatches: 53, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
153 10 0.04
154 51 0.19
155 135 0.50
156 71 0.26
157 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (153 bp):
TAAAGGACTTAAAAAGGTAAAAGATGGGATAAACCTATCCTAAATACCCACCTTTCGCATAAAAG
TAGACCCGTGGCAACCTAAGACTCGGTTTTAAAAAATTATAAAAATACCCTTAAGGGATACCTTC
GACATAAAAATGCCTAGCACCCC
Found at i:80021 original size:140 final size:139
Alignment explanation
Indices: 79594--80244 Score: 713
Period size: 142 Copynumber: 4.6 Consensus size: 139
79584 AAAACTAGAG
* * ** * * * * *
79594 GATACGAAAAGTTTTGAAAATTTCTATATCTCTACGGAAAATCGTAAGAATATTAGAAATTTTAA
1 GATACGAAAAGTTTTGAAGATTTCTATA-CCCTACAAAAAACCATAGGAATATTAGAAATCTTGA
* * *
79659 AAAATTAAGATAATAAGTTT-TTTAAATTTTAA----AAAAAAATTTCATTTCGTACCTTAATAG
65 GAAATTAAGATAATAATTTTATTTAATTTTTAATTTTAAAAAAA-TTCATTTCGTACCTTAATAG
*
79719 AGAACTGAAAA
129 AGAACCGAAAA
* * * * *
79730 GATAAGAAAAGTTTTGAAGATTTCTATACCTTACAAAAAACTATAGGAATATTAGAAATTTTAAG
1 GATACGAAAAGTTTTGAAGATTTCTATACCCTACAAAAAACCATAGGAATATTAGAAATCTTGAG
* * * * *
79795 AAATTAAGGTAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTCATTTCTTTCTTTAATG
66 AAATTAAGATAATAA-TTTTATTTAATTTTTAA--TTTTAAAAAAATTCATTTCGTACCTTAATA
*
79860 GAGAATCGAAAA
128 GAGAACCGAAAA
* ** * *
79872 GATACGAAAA-TTTTCAAAGATTTCTATACTCCTACGGAAAACCATAAGAATATTAAAAATCTTG
1 GATACGAAAAGTTTT-GAAGATTTCTATAC-CCTACAAAAAACCATAGGAATATTAGAAATCTTG
* ** * * * *
79936 AGAAATTAAGATAATGATTTTATTTTTTTTTTAATTTTCAAAAAATTTATTTTGTACCTTAATGG
64 AGAAATTAAGATAATAATTTTATTTAATTTTTAATTTTAAAAAAATTCATTTCGTACCTTAATAG
80001 AGAACCGAAAA
129 AGAACCGAAAA
* *
80012 GATATGAAAAGTTTTGAAGATTTCTATACCCCTACAAAAAATCATAGGAATATTAGAAATCTTGA
1 GATACGAAAAGTTTTGAAGATTTCTATA-CCCTACAAAAAACCATAGGAATATTAGAAATCTTGA
*
80077 GAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTAAGAAAATTCATTTCGTACCTTAATA
65 GAAATTAAGATAATAA-TTTTATTTAATTTTTAA-TTTTAAAAAAATTCATTTCGTACCTTAATA
* * *
80142 AAGAACTGGAAA
128 GAGAACCGAAAA
* * * *
80154 GATAC-AAAATATTTTGAAGATTTCTATACCTCTAAAAAAAACTATAGGAATATTATAAATCTTG
1 GATACGAAAA-GTTTTGAAGATTTCTATACC-CTACAAAAAACCATAGGAATATTAGAAATCTTG
*
80218 AGAAATTTAGATAATAATTTTCATTTA
64 AGAAATTAAGATAATAATTTT-ATTTA
80245 GTGATAAAAT
Statistics
Matches: 432, Mismatches: 66, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
135 42 0.10
136 29 0.07
137 11 0.03
140 101 0.23
141 34 0.08
142 167 0.39
143 48 0.11
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (139 bp):
GATACGAAAAGTTTTGAAGATTTCTATACCCTACAAAAAACCATAGGAATATTAGAAATCTTGAG
AAATTAAGATAATAATTTTATTTAATTTTTAATTTTAAAAAAATTCATTTCGTACCTTAATAGAG
AACCGAAAA
Found at i:80176 original size:282 final size:280
Alignment explanation
Indices: 79594--80244 Score: 816
Period size: 282 Copynumber: 2.3 Consensus size: 280
79584 AAAACTAGAG
* * * * * * *
79594 GATACGAAAAGTTTTGAAAATTTCTATA-TCTCTACGGAAAATCGTAAGAATATTAGAAATTTTA
1 GATACGAAAATTTTTGAAGATTTCTATACTCTCTACGGAAAACCATAAGAATATTAAAAATCTTG
* *
79658 AAAAATTAAGATAATAAGTTT-TTTAAATTTTAAAAAAAAATTTCATTTCGTACCTTAATAGAGA
66 AGAAATTAAGATAATAATTTTATTTAAATTTTAAAAAAAAATTTCATTTCGTACCTTAATAGAGA
* *
79722 ACTGAAAAGATAAGAAAAGTTTTGAAGATTTCTATACCTTACAAAAAACTATAGGAATATTAGAA
131 ACCGAAAAGATAAGAAAAGTTTTGAAGATTTCTATACCCTACAAAAAACTATAGGAATATTAGAA
* * * *
79787 ATTTTAAGAAATTAAGGTAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTCATTTCTTT
196 ATCTTAAGAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTCATTTCGTA
* **
79852 CTTTAATGGAGAATCGAAAA
261 CCTTAATAAAGAATCGAAAA
**
79872 GATACGAAAATTTTCAAAGATTTCTATACTC-CTACGGAAAACCATAAGAATATTAAAAATCTTG
1 GATACGAAAATTTTTGAAGATTTCTATACTCTCTACGGAAAACCATAAGAATATTAAAAATCTTG
* *** * * *
79936 AGAAATTAAGATAATGATTTTATTTTTTTTTTAATTTTCAAAAAATTT-ATTTTGTACCTTAATG
66 AGAAATTAAGATAATAATTTTATTTAAATTTTAA----AAAAAAATTTCATTTCGTACCTTAATA
*
80000 GAGAACCGAAAAGATATGAAAAGTTTTGAAGATTTCTATACCCCTACAAAAAA-TCATAGGAATA
127 GAGAACCGAAAAGATAAGAAAAGTTTTGAAGATTTCTATA-CCCTACAAAAAACT-ATAGGAATA
* *
80064 TTAGAAATCTTGAGAAATTAAGATAATAATTTTTATTTAATTTTTAA-TTTTTAAGAAAATTCAT
190 TTAGAAATCTTAAGAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTCAT
*
80128 TTCGTACCTTAATAAAGAA-CTGGAAA
255 TTCGTACCTTAATAAAGAATC-GAAAA
*** * * *
80154 GATAC-AAAATATTTTGAAGATTTCTATAC-CTCTAAAAAAAACTATAGGAATATTATAAATCTT
1 GATACGAAAAT-TTTTGAAGATTTCTATACTCTCTACGGAAAACCATAAGAATATTAAAAATCTT
*
80217 GAGAAATTTAGATAATAATTTTCATTTA
65 GAGAAATTAAGATAATAATTTT-ATTTA
80245 GTGATAAAAT
Statistics
Matches: 319, Mismatches: 42, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
278 70 0.22
279 11 0.03
281 7 0.02
282 154 0.48
283 77 0.24
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (280 bp):
GATACGAAAATTTTTGAAGATTTCTATACTCTCTACGGAAAACCATAAGAATATTAAAAATCTTG
AGAAATTAAGATAATAATTTTATTTAAATTTTAAAAAAAAATTTCATTTCGTACCTTAATAGAGA
ACCGAAAAGATAAGAAAAGTTTTGAAGATTTCTATACCCTACAAAAAACTATAGGAATATTAGAA
ATCTTAAGAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTCATTTCGTA
CCTTAATAAAGAATCGAAAA
Found at i:81888 original size:166 final size:168
Alignment explanation
Indices: 81661--82081 Score: 482
Period size: 166 Copynumber: 2.5 Consensus size: 168
81651 AAAATTCATG
* * * * * *
81661 AAATAAATTGAATTTTTTTAAAACTGATTTAATGA-GAGTTCAATGAAAATATTATATGAATTTT
1 AAATAAA-TGAA-TTTTTCAAAACAGATTTAATGATGAATTAAATGATAATATTTTATGAATTTT
** * *
81725 AAAAACTT-TAAACTAAGAAAAATCCCCCCAAAAACCTTTATGGAATAGAAAATTCGATTTTTTA
64 AAAAA-TTATAAACTAAGAAAAATCCCCCCAAAAACCTTTATAAAATAGAAAACTCGATTTTTCA
* ** *
81789 GAAACA-AAGGCATTTCAAGGAAAAAA-TGAAAAACTTAG-GA
128 AAAACAGAA-AAATTTCAAGGAAAAAACTAAAAAACTT-GTGA
81829 AAATAAATGAATTTTTCAAAACAGATTTAAT-ATGAATTAAATGATAATATTTTATGAATTTTAA
1 AAATAAATGAATTTTTCAAAACAGATTTAATGATGAATTAAATGATAATATTTTATGAATTTTAA
* * * * * ** *
81893 AAATTGTAAACCAAGAAAATTTCCCTCAAAAATTTTTATAAAATAGAAAACTCGGTTTTTCAAAA
66 AAATTATAAACTAAGAAAAATCCCCCCAAAAACCTTTATAAAATAGAAAACTCGATTTTTCAAAA
81958 ACAGAAAAATTTCAAGGAAAAAACTAAAAAACTTGTGA
131 ACAGAAAAATTTCAAGGAAAAAACTAAAAAACTTGTGA
* * * *
81996 AAATAAATAAAGTTTTCAAAACTA-ATTTAATGATG-ATTAAATAATAATATTTAATGAATTTTA
1 AAATAAATGAATTTTTCAAAAC-AGATTTAATGATGAATTAAATGATAATATTTTATGAATTTTA
*
82059 AAATTTATAAACTAA-AAAAATCC
65 AAAATTATAAACTAAGAAAAATCC
82082 TCTCGAAAAA
Statistics
Matches: 216, Mismatches: 30, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
165 3 0.01
166 120 0.56
167 82 0.38
168 11 0.05
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (168 bp):
AAATAAATGAATTTTTCAAAACAGATTTAATGATGAATTAAATGATAATATTTTATGAATTTTAA
AAATTATAAACTAAGAAAAATCCCCCCAAAAACCTTTATAAAATAGAAAACTCGATTTTTCAAAA
ACAGAAAAATTTCAAGGAAAAAACTAAAAAACTTGTGA
Found at i:83381 original size:23 final size:24
Alignment explanation
Indices: 83345--83395 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
83335 TTATCCATAA
83345 GTTTTCATCATAATTGTTACTAAT
1 GTTTTCATCATAATTGTTACTAAT
* *
83369 GTTTT-ATTATAATTGTTATTAAT
1 GTTTTCATCATAATTGTTACTAAT
83392 GTTT
1 GTTT
83396 AATGAAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (24 bp):
GTTTTCATCATAATTGTTACTAAT
Found at i:84682 original size:9 final size:9
Alignment explanation
Indices: 84668--84705 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
84658 TTTCAACGCG
*
84668 AGAAGAAGA
1 AGAAGAAAA
84677 AGAAGAAAA
1 AGAAGAAAA
*
84686 AGAAAAAAA
1 AGAAGAAAA
84695 AGAAGAAAA
1 AGAAGAAAA
84704 AG
1 AG
84706 GGTAGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:85627 original size:8 final size:9
Alignment explanation
Indices: 85610--85638 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
85600 AATGGAATAA
85610 TTTTATTAT
1 TTTTATTAT
85619 TTTTA-TAT
1 TTTTATTAT
85627 TTTTATTAT
1 TTTTATTAT
85636 TTT
1 TTT
85639 AAATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTAT
Found at i:85655 original size:15 final size:16
Alignment explanation
Indices: 85630--85659 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85620 TTTATATTTT
85630 TATTATTTTAAATATA
1 TATTATTTTAAATATA
85646 TATT-TTTTAAATAT
1 TATTATTTTAAATAT
85660 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATTTTAAATATA
Found at i:86801 original size:12 final size:12
Alignment explanation
Indices: 86786--86815 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
86776 TGGGTATGAT
86786 TAGAGGTAGGGG
1 TAGAGGTAGGGG
86798 TAGAGGTAGGGG
1 TAGAGGTAGGGG
*
86810 AAGAGG
1 TAGAGG
86816 AAGAAGGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.57, T:0.13
Consensus pattern (12 bp):
TAGAGGTAGGGG
Found at i:88750 original size:35 final size:35
Alignment explanation
Indices: 88704--88773 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
88694 TGCCTAAGTC
88704 AATTATCTTATCTCTAGGATAACTAGTTCCTTGAT
1 AATTATCTTATCTCTAGGATAACTAGTTCCTTGAT
88739 AATTATCTTATCTCTAGGATAACTAGTTCCTTGAT
1 AATTATCTTATCTCTAGGATAACTAGTTCCTTGAT
88774 TTAAGGAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (35 bp):
AATTATCTTATCTCTAGGATAACTAGTTCCTTGAT
Found at i:94206 original size:40 final size:40
Alignment explanation
Indices: 94161--94241 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
94151 TTTTAGGGTT
94161 ATCTAGAACAAGAGAGTAAATGGGTTTTAGGGGTGACTTG
1 ATCTAGAACAAGAGAGTAAATGGGTTTTAGGGGTGACTTG
94201 ATCTAGAACAAGAGAGTAAATGGGTTTTAGGGGTGACTTG
1 ATCTAGAACAAGAGAGTAAATGGGTTTTAGGGGTGACTTG
94241 A
1 A
94242 CAATTGCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.27
Consensus pattern (40 bp):
ATCTAGAACAAGAGAGTAAATGGGTTTTAGGGGTGACTTG
Found at i:101263 original size:18 final size:18
Alignment explanation
Indices: 101240--101305 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
101230 ACCCTTTATA
101240 TAATTTAATATATAAAAT
1 TAATTTAATATATAAAAT
* *
101258 TAATTT-ATTTAAAAATATATGT
1 TAATTTAATAT-ATAA-A-A--T
101280 GTAATTTAATATATAAAAT
1 -TAATTTAATATATAAAAT
101299 TAATTTA
1 TAATTTA
101306 TTTTCAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
17 3 0.08
18 16 0.43
19 2 0.05
20 1 0.03
21 1 0.03
22 2 0.05
23 9 0.24
24 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTAATATATAAAAT
Found at i:101288 original size:41 final size:41
Alignment explanation
Indices: 101240--101322 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
101230 ACCCTTTATA
101240 TAATTTAATATATAAAATTAATTTA-TTTAAAAATATATGTG
1 TAATTTAATATATAAAATTAATTTATTTTAAAAA-ATATGTG
*
101281 TAATTTAATATATAAAATTAATTTATTTTCAAAAATATGTG
1 TAATTTAATATATAAAATTAATTTATTTTAAAAAATATGTG
101322 T
1 T
101323 TGCAAATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 33 0.82
42 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (41 bp):
TAATTTAATATATAAAATTAATTTATTTTAAAAAATATGTG
Found at i:103245 original size:9 final size:9
Alignment explanation
Indices: 103231--103258 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
103221 TTGACAAAAT
103231 AATAAAGAA
1 AATAAAGAA
103240 AATAAAGAA
1 AATAAAGAA
103249 AATAAAGAA
1 AATAAAGAA
103258 A
1 A
103259 CTGCAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AATAAAGAA
Found at i:104381 original size:33 final size:32
Alignment explanation
Indices: 104339--104402 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
104329 TACAAGCCAA
*
104339 TGTATCGATACATTTTG-GAATGTATCGATACAC
1 TGTATCGATACATCTTGTG--TGTATCGATACAC
*
104372 TGTATCGATATATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
104403 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAC
Found at i:104491 original size:13 final size:13
Alignment explanation
Indices: 104473--104497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104463 ACATTTGGTC
104473 ATGTATCGATACA
1 ATGTATCGATACA
104486 ATGTATCGATAC
1 ATGTATCGATAC
104498 TGTGCAATAT
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):
ATGTATCGATACA
Found at i:105116 original size:16 final size:16
Alignment explanation
Indices: 105092--105123 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
105082 CCTTAATAAA
*
105092 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
105108 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
105124 TTTCTCCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:106974 original size:13 final size:13
Alignment explanation
Indices: 106956--106993 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
106946 ATAAACCCTT
*
106956 TGTATCGATACAC
1 TGTATCGATACAA
106969 TGTATCGATACAA
1 TGTATCGATACAA
106982 TGTATCGATACA
1 TGTATCGATACA
106994 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107646 original size:20 final size:19
Alignment explanation
Indices: 107592--107647 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
107582 AAAACCCTTA
*
107592 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
107612 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
107632 AATGTATCGATACATG
1 AAAGTATCGATACATG
107648 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:107723 original size:19 final size:18
Alignment explanation
Indices: 107699--107762 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
107689 TAGCCAAACT
107699 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
107718 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
107731 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
107750 TTGTATCGATACA
1 -TGTATCGATACA
107763 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:107735 original size:13 final size:13
Alignment explanation
Indices: 107717--107742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107707 TACACAAAAT
107717 ATGTATCGATACA
1 ATGTATCGATACA
107730 ATGTATCGATACA
1 ATGTATCGATACA
107743 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:107740 original size:32 final size:33
Alignment explanation
Indices: 107699--107762 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
107689 TAGCCAAACT
*
107699 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
107731 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
107763 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:110007 original size:21 final size:21
Alignment explanation
Indices: 109974--110023 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
109964 TTGCAAGTTG
*
109974 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
109996 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
110017 AAATAAA
1 AAATAAA
110024 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:111841 original size:15 final size:15
Alignment explanation
Indices: 111821--111851 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111811 TAAAAATGTC
*
111821 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
111836 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
111851 C
1 C
111852 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:113902 original size:13 final size:13
Alignment explanation
Indices: 113884--113922 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
113874 CATTTTTCTT
113884 TGTATCGATACAA
1 TGTATCGATACAA
*
113897 TGTATCGATACAC
1 TGTATCGATACAA
113910 TGTATCGATACAA
1 TGTATCGATACAA
113923 GGGGATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:114076 original size:20 final size:20
Alignment explanation
Indices: 114033--114078 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
114023 AAATCTTTTG
114033 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
114054 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
114074 CAAAA
1 CAAAA
114079 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:116399 original size:20 final size:19
Alignment explanation
Indices: 116345--116400 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
116335 AAAACCCTTA
*
116345 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
116365 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
116385 AATGTATCGATACATG
1 AAAGTATCGATACATG
116401 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:116476 original size:19 final size:18
Alignment explanation
Indices: 116452--116515 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
116442 TAGCCAAACT
116452 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
116471 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
116484 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
116503 TTGTATCGATACA
1 -TGTATCGATACA
116516 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:116488 original size:13 final size:13
Alignment explanation
Indices: 116470--116495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116460 TACACAAAAT
116470 ATGTATCGATACA
1 ATGTATCGATACA
116483 ATGTATCGATACA
1 ATGTATCGATACA
116496 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:116493 original size:32 final size:33
Alignment explanation
Indices: 116452--116515 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
116442 TAGCCAAACT
*
116452 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
116484 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
116516 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:118432 original size:21 final size:21
Alignment explanation
Indices: 118408--118449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118398 AATCACATTT
118408 TTGTCAAAATGTATTGATACA
1 TTGTCAAAATGTATTGATACA
***
118429 TTGTTGGAATGTATTGATACA
1 TTGTCAAAATGTATTGATACA
118450 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (21 bp):
TTGTCAAAATGTATTGATACA
Found at i:118525 original size:13 final size:13
Alignment explanation
Indices: 118507--118531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118497 CATAAAGTGT
118507 TGTATCGATACAA
1 TGTATCGATACAA
118520 TGTATCGATACA
1 TGTATCGATACA
118532 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:118547 original size:32 final size:33
Alignment explanation
Indices: 118487--118555 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
118477 TTTAACGATT
118487 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
118520 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
118552 TGTA
1 TGTA
118556 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:118669 original size:52 final size:51
Alignment explanation
Indices: 118606--118751 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 51
118596 ATTGATACAT
**
118606 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
118658 TGTATCGATACA-TTATAAAATGTATCGATACATACAGGTAAATTTGCCCAGA
1 TGTATCGATACACTGAT--AATGTATCGATACATGCAGGCAAATTTGCCCAGA
118710 TGTATCGATACACTTTGA-AATGTATCGATACATGCAGGCAAA
1 TGTATCGATACAC--TGATAATGTATCGATACATGCAGGCAAA
118752 ATTTCATATT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
51 3 0.04
52 76 0.94
55 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:119635 original size:20 final size:20
Alignment explanation
Indices: 119606--119655 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
119596 TAAACCTTGA
*
119606 TCATGTATTTTTAATATGTT
1 TCATGCATTTTTAATATGTT
*
119626 TCATGCATTTTTACTATGTT
1 TCATGCATTTTTAATATGTT
119646 TCATGCATTT
1 TCATGCATTT
119656 ACAACATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (20 bp):
TCATGCATTTTTAATATGTT
Found at i:119664 original size:20 final size:20
Alignment explanation
Indices: 119620--119665 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
119610 GTATTTTTAA
**
119620 TATGTTTCATGCATTTTTAC
1 TATGTTTCATGCATTTCAAC
119640 TATGTTTCATGCATTTACAAC
1 TATGTTTCATGCATTT-CAAC
119661 -ATGTT
1 TATGTT
119666 CAGCACCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (20 bp):
TATGTTTCATGCATTTCAAC
Found at i:126695 original size:20 final size:20
Alignment explanation
Indices: 126670--126724 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
126660 TTACAAGCCA
126670 ATGTATCGATACATTTTAGG
1 ATGTATCGATACATTTTAGG
126690 ATGTATCGATACATTTTAGG
1 ATGTATCGATACATTTTAGG
126710 ATGTATCGATACATT
1 ATGTATCGATACATT
126725 GTATCGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTAGG
Found at i:126729 original size:13 final size:13
Alignment explanation
Indices: 126711--126736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126701 CATTTTAGGA
126711 TGTATCGATACAT
1 TGTATCGATACAT
126724 TGTATCGATACAT
1 TGTATCGATACAT
126737 CTTGTGTGTA
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:126733 original size:33 final size:32
Alignment explanation
Indices: 126691--126754 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
126681 CATTTTAGGA
*
126691 TGTATCGATACATTTTAG-GATGTATCGATACAT
1 TGTATCGATACATCTT-GTG-TGTATCGATACAT
126724 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
126755 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:126843 original size:13 final size:13
Alignment explanation
Indices: 126825--126849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126815 ACATTTGGTC
126825 ATGTATCGATACA
1 ATGTATCGATACA
126838 ATGTATCGATAC
1 ATGTATCGATAC
126850 TGTGCAATAT
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):
ATGTATCGATACA
Found at i:128838 original size:84 final size:84
Alignment explanation
Indices: 128690--128855 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 84
128680 ACTAAACTAT
* *
128690 GCTTATGCATATTCCAGGATATATGGTGAAAGGATCGTACTACAATGATAGGCTAGTTATTAAAA
1 GCTTATGCATATTCCAGGATATATGATGAAAGGATCGTACTACAATGATAGGCTAGTTACTAAAA
*
128755 GGTTTTGATAAAGTCACCA
66 GGTTTCGATAAAGTCACCA
* * * *
128774 GCTTATGCATATTCCAGGATATATGATGAAATGATCGTACTATATTGATAGGCTGGTTACTAAAA
1 GCTTATGCATATTCCAGGATATATGATGAAAGGATCGTACTACAATGATAGGCTAGTTACTAAAA
*
128839 GGTTTCGATGAAGTCAC
66 GGTTTCGATAAAGTCAC
128856 ATTGGCTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (84 bp):
GCTTATGCATATTCCAGGATATATGATGAAAGGATCGTACTACAATGATAGGCTAGTTACTAAAA
GGTTTCGATAAAGTCACCA
Found at i:130739 original size:13 final size:13
Alignment explanation
Indices: 130721--130746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130711 CAATTTTTTG
130721 TGTATCGATACAT
1 TGTATCGATACAT
130734 TGTATCGATACAT
1 TGTATCGATACAT
130747 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:130758 original size:32 final size:33
Alignment explanation
Indices: 130701--130764 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
130691 TACAAGCCAA
**
130701 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
130734 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
130765 AGCTTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:131569 original size:13 final size:13
Alignment explanation
Indices: 131551--131576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
131541 CAATTTTTTG
131551 TGTATCGATACAT
1 TGTATCGATACAT
131564 TGTATCGATACAT
1 TGTATCGATACAT
131577 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134165 original size:13 final size:13
Alignment explanation
Indices: 134147--134185 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
134137 ATAATCCCCC
*
134147 TGTATCGATACAG
1 TGTATCGATACAA
134160 TGTATCGATACAA
1 TGTATCGATACAA
134173 TGTATCGATACAA
1 TGTATCGATACAA
134186 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:134242 original size:20 final size:20
Alignment explanation
Indices: 134171--134250 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
134161 GTATCGATAC
*
134171 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
*
134191 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACATAGAA-----A
*
134216 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
* *
134236 CATGTATCCATACAT
1 AATGTATCGATACAT
134251 TTTGGACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:139221 original size:49 final size:49
Alignment explanation
Indices: 139149--139246 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
139139 CCAAAATGCC
*
139149 CTTAGAGACTACTTTAATCTTGAAAACATCTCAATGACATTAAAAGACT
1 CTTAGAGACTACCTTAATCTTGAAAACATCTCAATGACATTAAAAGACT
*
139198 CTTAGAGACTACCTTAATCTTGAAAACATCTCAATTACATTAAAAGACT
1 CTTAGAGACTACCTTAATCTTGAAAACATCTCAATGACATTAAAAGACT
139247 TAGAAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTAGAGACTACCTTAATCTTGAAAACATCTCAATGACATTAAAAGACT
Found at i:142650 original size:20 final size:20
Alignment explanation
Indices: 142625--142749 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
142615 TTTTAACTAG
142625 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
142645 ATGTATCGATACATCTAGGTAAGAAGACAGA
1 ATGTATCGATACA--T---T--G-A-A-A-A
* *
142676 ATGTATCGATACATCGAAGA
1 ATGTATCGATACATTGAAAA
* * *
142696 ATGCATCGATACATTCAAAC
1 ATGTATCGATACATTGAAAA
142716 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
142736 ATGTATTGATACAT
1 ATGTATCGATACAT
142750 CTTGATACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 59 0.71
22 2 0.02
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 1 0.01
31 14 0.17
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:144256 original size:13 final size:13
Alignment explanation
Indices: 144238--144262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144228 ATATTGCACA
144238 GTATCGATACATT
1 GTATCGATACATT
144251 GTATCGATACAT
1 GTATCGATACAT
144263 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:144406 original size:33 final size:32
Alignment explanation
Indices: 144346--144409 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
144336 TAACTGTTTG
*
144346 TATCGATACACACAATATGTATCGATACATTA
1 TATCGATACACACAAAATGTATCGATACATTA
* *
144378 TATCGATACATCCCAAAATGTATTGATACATT
1 TATCGATACA-CACAAAATGTATCGATACATT
144410 GGCTTGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACATTA
Found at i:154047 original size:13 final size:13
Alignment explanation
Indices: 154029--154053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
154019 AAATTGCACA
154029 GTATCGATACATT
1 GTATCGATACATT
154042 GTATCGATACAT
1 GTATCGATACAT
154054 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:154066 original size:20 final size:21
Alignment explanation
Indices: 154041--154093 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
154031 ATCGATACAT
**
154041 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
154061 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
154082 TGTATCGATACA
1 TGTATCGATACA
154094 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:154153 original size:13 final size:13
Alignment explanation
Indices: 154135--154160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
154125 ACACACATTA
154135 TGTATCGATACAT
1 TGTATCGATACAT
154148 TGTATCGATACAT
1 TGTATCGATACAT
154161 CCCAAAATGT
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:154176 original size:33 final size:32
Alignment explanation
Indices: 154115--154181 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
154105 GTAGCCAAAT
**
154115 TTGTATCGATACACACATTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
154147 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
154180 TT
1 TT
154182 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:160108 original size:8 final size:8
Alignment explanation
Indices: 160095--160120 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
160085 ATTTGATTAA
160095 ATTTTGTG
1 ATTTTGTG
160103 ATTTTGTG
1 ATTTTGTG
160111 ATTTTGTG
1 ATTTTGTG
160119 AT
1 AT
160121 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:162186 original size:22 final size:23
Alignment explanation
Indices: 162160--162205 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
162150 CGAAAGTGTT
162160 AAATTATTTT-ACTAAAGGGGAG
1 AAATTATTTTGACTAAAGGGGAG
* * *
162182 AAATTCTTTTGATTAAGGGGGAG
1 AAATTATTTTGACTAAAGGGGAG
162205 A
1 A
162206 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (23 bp):
AAATTATTTTGACTAAAGGGGAG
Found at i:162780 original size:20 final size:21
Alignment explanation
Indices: 162755--162805 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
162745 CGATACATTA
**
162755 TATCGATACATG-ACCAAATG
1 TATCGATACATGAAAAAAATG
* *
162775 TATCGAAACTTGAAAAAAATG
1 TATCGATACATGAAAAAAATG
162796 TATCGATACA
1 TATCGATACA
162806 GGTCATTGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (21 bp):
TATCGATACATGAAAAAAATG
Found at i:162874 original size:20 final size:20
Alignment explanation
Indices: 162828--162880 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
162818 TAGCCAAATT
**
162828 TGTATCGATACA-TACATTA
1 TGTATCGATACATTACAAAA
* *
162847 TGTGTCGATACATTCCAAAA
1 TGTATCGATACATTACAAAA
162867 TGTATCGATACATT
1 TGTATCGATACATT
162881 GGCCTTGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTACAAAA
Found at i:164548 original size:19 final size:20
Alignment explanation
Indices: 164521--164570 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
164511 GAATATTTAT
*
164521 ATATGACAAAA-TCAAAATC
1 ATATCACAAAAGTCAAAATC
* *
164540 ATATCACAAAAGTTAACATC
1 ATATCACAAAAGTCAAAATC
164560 ATATCAACAAA
1 ATATC-ACAAA
164571 TAATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (20 bp):
ATATCACAAAAGTCAAAATC
Found at i:170562 original size:51 final size:52
Alignment explanation
Indices: 170482--170603 Score: 153
Period size: 51 Copynumber: 2.4 Consensus size: 52
170472 ATTTTTCATC
**
170482 TCGGGGATACTCCAA-TCCCGATTTCATTTCCAAAACA-TCAATTTCTCTTAA
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACATTCAATTT-TCACAA
* * * *
170533 TCGGGGATACTCCAACT-CCGATTTTATTTCCAGAACATTGACTTTTCACAA
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACATTCAATTTTCACAA
170584 TCGGGGATACTCCAAC-CCCG
1 TCGGGGATACTCCAACTCCCG
170604 TTATTTCTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
51 56 0.90
52 6 0.10
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (52 bp):
TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACATTCAATTTTCACAA
Found at i:170732 original size:76 final size:78
Alignment explanation
Indices: 170534--170755 Score: 249
Period size: 76 Copynumber: 2.8 Consensus size: 78
170524 TTCTCTTAAT
* * *
170534 CGGGGATACTCCAACTCCGATTTTATTTCCAGAACATTGACTTTTCACAATCGGGGATACTCCAA
1 CGGGGATACTCCAAC-CCGATTTTATTTCTAAAACATT-AATTTTCACAATCGGGGATACTCCAA
* *
170599 CCCCGTTATTTCTGA
64 CCCCCTTATTTCTCA
* * *
170614 -GGGGACACTCCAACCTCGGTTTTATTTCTAAAACATTAATTTT-TC-ATCGGGGATACTCCAAC
1 CGGGGATACTCCAACC-CGATTTTATTTCTAAAACATTAATTTTCACAATCGGGGATACTCCAAC
170676 CCCCTTATTT-TCA
65 CCCCTTATTTCTCA
* * *
170689 CGGGGATACTCCAATCCCGATTTTATTTCTAAAACATCT-ATTTTCTATAAT-GGGGACACTTCA
1 CGGGGATACTCCAA-CCCGATTTTATTTCTAAAACAT-TAATTTTC-ACAATCGGGGATACTCCA
170752 ACCC
63 ACCC
170756 TTGCCTTATT
Statistics
Matches: 121, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
75 2 0.02
76 62 0.51
77 4 0.03
78 20 0.17
79 33 0.27
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (78 bp):
CGGGGATACTCCAACCCGATTTTATTTCTAAAACATTAATTTTCACAATCGGGGATACTCCAACC
CCCTTATTTCTCA
Found at i:172873 original size:4 final size:4
Alignment explanation
Indices: 172864--172888 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
172854 TATTTTGAGG
172864 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
172889 GTTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:182992 original size:1 final size:1
Alignment explanation
Indices: 182986--183056 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
182976 ATTCTCTTTT
* * * * * * * * *
182986 AAAAAAAAACAACAAAAATAAAAAAACAAAAAACAAAAAAAACATAAAGAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
183051 AAAAAA
1 AAAAAA
183057 GAGAATCTGC
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.03
Consensus pattern (1 bp):
A
Found at i:183010 original size:16 final size:17
Alignment explanation
Indices: 182986--183056 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 17
182976 ATTCTCTTTT
182986 AAAAAAAAACAACAAAA-
1 AAAAAAAAACAA-AAAAC
*
183003 ATAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
183020 -AAAAAAAACATAAAGAA-
1 AAAAAAAAACA-AAA-AAC
*
183037 AAAAAAAAAGAAAAAA-
1 AAAAAAAAACAAAAAAC
183053 AAAA
1 AAAA
183057 GAGAATCTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
16 19 0.40
17 17 0.36
18 11 0.23
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAC
Done.