Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold729
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: 181220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4584 original size:35 final size:37
Alignment explanation
Indices: 4516--4624 Score: 134
Period size: 36 Copynumber: 2.9 Consensus size: 37
4506 CTGTGGCATA
*
4516 GGTTAGAACAAAAACCACTATTCTAATCTGGTGGCAC-
1 GGTTAGAA-AAAAACCACTATTCTTATCTGGTGGCACG
* *
4553 GGTTCA-AAAAAAATCACTATTCTTA-CCGGTGGCACG
1 GGTT-AGAAAAAAACCACTATTCTTATCTGGTGGCACG
*
4589 GGTTAGAAAAAAACCCACTATTTTTATCTGGTGGCA
1 GGTTAGAAAAAAA-CCACTATTCTTATCTGGTGGCA
4625 TGACAAAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
35 10 0.16
36 26 0.43
37 16 0.26
38 9 0.15
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (37 bp):
GGTTAGAAAAAAACCACTATTCTTATCTGGTGGCACG
Found at i:4664 original size:31 final size:31
Alignment explanation
Indices: 4597--4690 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
4587 CGGGTTAGAA
* * **
4597 AAAAACCCACTATTTTTATCTGGTGGCATGAC
1 AAAAA-CCACTATTTTTATCCGGTGGCACGGT
*
4629 AAAAACCACTATTTTTATCCGATGGCACGGT
1 AAAAACCACTATTTTTATCCGGTGGCACGGT
* ** *
4660 AAAAACTACTATTCCTAACCGGTGGCACGGT
1 AAAAACCACTATTTTTATCCGGTGGCACGGT
4691 TTAAAACTGG
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
31 47 0.90
32 5 0.10
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (31 bp):
AAAAACCACTATTTTTATCCGGTGGCACGGT
Found at i:7406 original size:15 final size:15
Alignment explanation
Indices: 7377--7416 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7367 TCCAAACAAA
* *
7377 AAATTTTAAATTCAT
1 AAATTTAAAAATCAT
*
7392 GAATTTAAAAATCAT
1 AAATTTAAAAATCAT
7407 AAATTTAAAA
1 AAATTTAAAA
7417 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTAAAAATCAT
Found at i:7966 original size:21 final size:22
Alignment explanation
Indices: 7941--8000 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
7931 TTATTGTTAT
7941 TTTAATAAAATTAAAAAAA-TA
1 TTTAATAAAATTAAAAAAATTA
**
7962 TTTAACTAACTTTAAAAAAATTA
1 TTTAA-TAAAATTAAAAAAATTA
*
7985 TATTAA-CAAATTAAAA
1 T-TTAATAAAATTAAAA
8001 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.16
22 19 0.61
23 3 0.10
24 4 0.13
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAATAAAATTAAAAAAATTA
Found at i:7998 original size:22 final size:21
Alignment explanation
Indices: 7948--8000 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
7938 TATTTTAATA
7948 AAATTAAAAAAATATTTAACT
1 AAATTAAAAAAATATTTAACT
*
7969 AACTTTAAAAAAATTATATTAAC-
1 AA-ATTAAAAAAA-TAT-TTAACT
7992 AAATTAAAA
1 AAATTAAAA
8001 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.07
22 15 0.56
23 5 0.19
24 5 0.19
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTAAAAAAATATTTAACT
Found at i:8063 original size:50 final size:54
Alignment explanation
Indices: 7977--8077 Score: 122
Period size: 52 Copynumber: 1.9 Consensus size: 54
7967 CTAACTTTAA
* * * *
7977 AAAAATTATATTAACAAATTAAAATTTTAATTATTA-TGT-TTTTTATAAAAAT
1 AAAAAGTATATTAACAAATTAAAATTTAAAATATTATTCTGTTTTTATAAAAAT
8029 AAAAAGTAT-TTAA-AAA-TAAAATATTAAAATATTATTCTGTTTTTATAAA
1 AAAAAGTATATTAACAAATTAAAAT-TTAAAATATTATTCTGTTTTTATAAA
8078 TTATTAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
49 6 0.14
50 12 0.29
51 6 0.14
52 18 0.43
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (54 bp):
AAAAAGTATATTAACAAATTAAAATTTAAAATATTATTCTGTTTTTATAAAAAT
Found at i:9187 original size:19 final size:19
Alignment explanation
Indices: 9143--9215 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
9133 CTGCCAGTTT
**
9143 CATGTATCGATACAATTGCC
1 CATGTATCGATACAA-TGAA
9163 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
9182 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
9203 -ATGTATCGATACA
1 CATGTATCGATACA
9216 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:11254 original size:22 final size:20
Alignment explanation
Indices: 11229--11273 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
11219 GCAGTGGGTG
*
11229 TGGGAGCTACCCAGTTGCGACC
1 TGGGAG-TACCCA-TCGCGACC
*
11251 TGGGAGTACCGATCGCGACC
1 TGGGAGTACCCATCGCGACC
11271 TGG
1 TGG
11274 AGTTGGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 5 0.24
22 6 0.29
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (20 bp):
TGGGAGTACCCATCGCGACC
Found at i:13627 original size:20 final size:20
Alignment explanation
Indices: 13595--13669 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
13585 TTTTACCCAG
*
13595 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
13615 ATTTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
13635 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
13655 ATGTATCGATACATT
1 ATGTATCGATACATT
13670 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:13662 original size:40 final size:39
Alignment explanation
Indices: 13595--13672 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
13585 TTTTACCCAG
* * * *
13595 ATGTATTGATACATTTTTCAATTTATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATGTATCGATACAT-TATGA
*
13635 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATGTATCGATACATTATG
13673 TCTTTTTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATGTATCGATACATTATGA
Found at i:17234 original size:16 final size:17
Alignment explanation
Indices: 17209--17249 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
17199 TATTCATCAA
*
17209 CTTC-TTTTGGA-GCTT
1 CTTCATTTTGGACACTT
17224 CTTCATTTTGGACACTT
1 CTTCATTTTGGACACTT
17241 -TTCATTTTG
1 CTTCATTTTG
17250 CTCCTCGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 16 0.70
17 3 0.13
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.54
Consensus pattern (17 bp):
CTTCATTTTGGACACTT
Found at i:18106 original size:15 final size:15
Alignment explanation
Indices: 18086--18153 Score: 84
Period size: 16 Copynumber: 4.5 Consensus size: 15
18076 CAAAAGTGCA
18086 AAAAAAAAACAACAC
1 AAAAAAAAACAACAC
18101 AAAAAAAAAACAA-AC
1 -AAAAAAAAACAACAC
* * *
18116 ACAAGAAAACAAAAC
1 AAAAAAAAACAACAC
18131 AAAAAAAAACACACAC
1 AAAAAAAAACA-ACAC
18147 AAAAAAA
1 AAAAAAA
18154 GAGTGCAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
14 10 0.22
15 13 0.29
16 22 0.49
ACGTcount: A:0.81, C:0.18, G:0.01, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAACAC
Found at i:18146 original size:29 final size:30
Alignment explanation
Indices: 18088--18153 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
18078 AAAGTGCAAA
*
18088 AAAAAAACAACACAAAAAAAAAACAAACAC
1 AAAAAAACAAAACAAAAAAAAAACAAACAC
* *
18118 AAGAAAACAAAAC-AAAAAAAAACACACAC
1 AAAAAAACAAAACAAAAAAAAAACAAACAC
18147 AAAAAAA
1 AAAAAAA
18154 GAGTGCAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAACAAAACAAAAAAAAAACAAACAC
Found at i:19535 original size:31 final size:31
Alignment explanation
Indices: 19497--19720 Score: 262
Period size: 31 Copynumber: 7.2 Consensus size: 31
19487 ATTTTCCTCC
19497 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
* *
19528 AAGTCCACGACTCAGTGGC-ATCTATTTTCTTCC-
1 AAGTCCACAACTCAGTGGCAATC--TCTTC--CCA
19561 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
*
19592 AAGTCCACGACTCAGTGGCAATCTCTT-CC-
1 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
19621 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
* * *
19652 AAGTCCACGACTCAATGGC-ATCTATTTTCTTCC-
1 AAGTCCACAACTCAGTGGCAATC--TCTTC--CCA
* *
19685 AAGTCTACAACTCAGTGGTAATCTCTTCCCA
1 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
19716 AAGTC
1 AAGTC
19721 TATGACTTAG
Statistics
Matches: 165, Mismatches: 14, Indels: 28
0.80 0.07 0.14
Matches are distributed among these distances:
29 26 0.16
30 14 0.08
31 66 0.40
32 16 0.10
33 33 0.20
34 10 0.06
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (31 bp):
AAGTCCACAACTCAGTGGCAATCTCTTCCCA
Found at i:19637 original size:124 final size:124
Alignment explanation
Indices: 19494--19735 Score: 430
Period size: 124 Copynumber: 2.0 Consensus size: 124
19484 TCTATTTTCC
*
19494 TCCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTATTTTCTT
1 TCCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAATGGCATCTATTTTCTT
19559 CCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCAATCTCT
66 CCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCAATCTCT
19618 TCCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAATGGCATCTATTTTCTT
1 TCCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAATGGCATCTATTTTCTT
* * * * *
19683 CCAAGTCTACAACTCAGTGGTAATCTCTTCCCAAAGTCTATGACTTAGTGGCA
66 CCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCA
19736 TCTTTTTTCT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 112 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.27
Consensus pattern (124 bp):
TCCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAATGGCATCTATTTTCTT
CCAAGTCCACAACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCAATCTCT
Found at i:19733 original size:31 final size:31
Alignment explanation
Indices: 19464--19735 Score: 261
Period size: 31 Copynumber: 8.6 Consensus size: 31
19454 CTTTTCATCC
* * *
19464 AAGTCCACGACTCAGT-GAAATCTATTTTCCTCC
1 AAGTCCACGACTCAGTGGCAATC--TCTTCC-CA
*
19497 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCCCA
*
19528 AAGTCCACGACTCAGTGGC-ATCTATTTTCTTCC-
1 AAGTCCACGACTCAGTGGCAATC--TCTTC--CCA
*
19561 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCCCA
19592 AAGTCCACGACTCAGTGGCAATCTCTT-CC-
1 AAGTCCACGACTCAGTGGCAATCTCTTCCCA
*
19621 AAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCCCA
* *
19652 AAGTCCACGACTCAATGGC-ATCTATTTTCTTCC-
1 AAGTCCACGACTCAGTGGCAATC--TCTTC--CCA
* * *
19685 AAGTCTACAACTCAGTGGTAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCAATCTCTTCCCA
* * *
19716 AAGTCTATGACTTAGTGGCA
1 AAGTCCACGACTCAGTGGCA
19736 TCTTTTTTCT
Statistics
Matches: 202, Mismatches: 22, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
29 26 0.13
30 14 0.07
31 78 0.39
32 21 0.10
33 48 0.24
34 15 0.07
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCAATCTCTTCCCA
Found at i:19769 original size:34 final size:32
Alignment explanation
Indices: 19417--19778 Score: 162
Period size: 31 Copynumber: 11.5 Consensus size: 32
19407 TTCTCGAAAG
* * *
19417 TGGCATCTCTTTTC-T--AAGTCCATGACTTAG
1 TGGCATCT-TTTTCTTCAAAGTCCACGACTCAA
* * * *
19447 TGGCATCCTTTTCATCCAAGTCCACGACTCAG
1 TGGCATCTTTTTCTTCAAAGTCCACGACTCAA
** * * * *
19479 TGAAATCTATTTTCCTCCAAGTCCACAACTCAG
1 TGGCATCT-TTTTCTTCAAAGTCCACGACTCAA
* * *
19512 TGGCAATC-TCTTC-CCAAAGTCCACGACTCAG
1 TGGC-ATCTTTTTCTTCAAAGTCCACGACTCAA
* * *
19543 TGGCATCTATTTTCTTCCAAGTCCACAACTCAG
1 TGGCATCT-TTTTCTTCAAAGTCCACGACTCAA
* * *
19576 TGGCAATC-TCTTC-CCAAAGTCCACGACTCAG
1 TGGC-ATCTTTTTCTTCAAAGTCCACGACTCAA
* * *
19607 TGGCAATC----TCTTCCAAGTCCACAACTCAG
1 TGGC-ATCTTTTTCTTCAAAGTCCACGACTCAA
* *
19636 TGGCAATC-TCTTC-CCAAAGTCCACGACTCAA
1 TGGC-ATCTTTTTCTTCAAAGTCCACGACTCAA
* * * *
19667 TGGCATCTATTTTCTTCCAAGTCTACAACTCAG
1 TGGCATCT-TTTTCTTCAAAGTCCACGACTCAA
* * * * * * *
19700 TGGTAATC-TCTTC-CCAAAGTCTATGACTTAG
1 TGG-CATCTTTTTCTTCAAAGTCCACGACTCAA
19731 TGGCATCTTTTTTCTTCAAAAGTCCACGACTCAA
1 TGGCATC-TTTTTCTTC-AAAGTCCACGACTCAA
*
19765 TGGCAT-TTCTTCTT
1 TGGCATCTTTTTCTT
19779 TAAGCCCACA
Statistics
Matches: 261, Mismatches: 50, Indels: 40
0.74 0.14 0.11
Matches are distributed among these distances:
28 2 0.01
29 28 0.11
30 17 0.07
31 76 0.29
32 51 0.20
33 60 0.23
34 27 0.10
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TGGCATCTTTTTCTTCAAAGTCCACGACTCAA
Found at i:19776 original size:64 final size:64
Alignment explanation
Indices: 19464--19769 Score: 449
Period size: 64 Copynumber: 4.8 Consensus size: 64
19454 CTTTTCATCC
** *
19464 AAGTCCACGACTCAGTGAAATCTATTTTCCTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
19528 AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
*
19592 AAGTCCACGACTCAGTGGCA---A-TCTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
* * *
19652 AAGTCCACGACTCAATGGCATCTATTTTCTTCCAAGTCTACAACTCAGTGGTAATCTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
* * * * * * *
19716 AAGTCTATGACTTAGTGGCATCTTTTTTCTTCAAAAGTCCACGACTCAATGGCA
1 AAGTCCACGACTCAGTGGCATCTATTTTCTTC-CAAGTCCACAACTCAGTGGCA
19770 TTTCTTCTTT
Statistics
Matches: 219, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
60 57 0.26
61 1 0.00
63 1 0.00
64 144 0.66
65 16 0.07
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (64 bp):
AAGTCCACGACTCAGTGGCATCTATTTTCTTCCAAGTCCACAACTCAGTGGCAATCTCTTCCCA
Found at i:19855 original size:34 final size:34
Alignment explanation
Indices: 19777--19923 Score: 165
Period size: 34 Copynumber: 4.4 Consensus size: 34
19767 GCATTTCTTC
* * *
19777 TTTAAGCCCACAACTCCGTGGCACT-GTTTTCCT
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
* * * *
19810 ATTAAGCCCACAACTTTATGGCACTCTTTTTCCT
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
* *
19844 TCTAAGTCCACAACTCTGTGGCAC-CTTTTTCTT
1 TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
* *
19877 TTTAAAGTCCACAACTCCGTGGCA-TCCTTTTCCT
1 TTT-AAGTCCACAACTCTGTGGCACTCTTTTTCCT
19911 TTTAAGTCCACAA
1 TTTAAGTCCACAA
19924 TCCCGTGGCA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
33 41 0.43
34 55 0.57
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (34 bp):
TTTAAGTCCACAACTCTGTGGCACTCTTTTTCCT
Found at i:19865 original size:67 final size:67
Alignment explanation
Indices: 19779--19935 Score: 176
Period size: 67 Copynumber: 2.3 Consensus size: 67
19769 ATTTCTTCTT
* ** *
19779 TAAGCCCACAACTCCGTGGCA-CTGTTTTCCTATT-AAGCCCACAACTTTATGGCACTCTTTTTC
1 TAAGTCCACAACTCCGTGGCACCT-TTTTCCTATTAAAGCCCACAACTCCATGGCA-TCCTTTTC
19842 CTTC
64 CTTC
* * * * *
19846 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCATCCTTTTCCT
1 TAAGTCCACAACTCCGTGGCACCTTTTTCCTATTAAAGCCCACAACTCCATGGCATCCTTTTCCT
*
19911 TT
66 TC
19913 TAAGTCCACAA-TCCCGTGGCACC
1 TAAGTCCACAACT-CCGTGGCACC
19936 CCTTTTTAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
66 1 0.01
67 57 0.75
68 18 0.24
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (67 bp):
TAAGTCCACAACTCCGTGGCACCTTTTTCCTATTAAAGCCCACAACTCCATGGCATCCTTTTCCT
TC
Found at i:19940 original size:34 final size:33
Alignment explanation
Indices: 19777--19941 Score: 161
Period size: 34 Copynumber: 4.9 Consensus size: 33
19767 GCATTTCTTC
* **
19777 TTTAAGCCCACAACTCCGTGGCACTGTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTCCT
* * *** *
19810 ATTAAGCCCACAACTTTATGGCACTCTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCAC-CCTTTTCCT
* * * *
19844 TCTAAGTCCACAACTCTGTGGCACCTTTTTCTT
1 TTTAAGTCCACAACTCCGTGGCACCCTTTTCCT
*
19877 TTTAAAGTCCACAACTCCGTGGCATCCTTTTCCT
1 TTT-AAGTCCACAACTCCGTGGCACCCTTTTCCT
19911 TTTAAGTCCACAA-TCCCGTGGCACCCCTTTT
1 TTTAAGTCCACAACT-CCGTGGCA-CCCTTTT
19942 TAAAGCCCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
32 1 0.01
33 48 0.44
34 61 0.55
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTAAGTCCACAACTCCGTGGCACCCTTTTCCT
Found at i:19984 original size:33 final size:33
Alignment explanation
Indices: 19942--20034 Score: 186
Period size: 33 Copynumber: 2.8 Consensus size: 33
19932 CACCCCTTTT
19942 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
19975 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
20008 TAAAGCCCACACAAGTCGGTGGCAACC
1 TAAAGCCCACACAAGTCGGTGGCAACC
20035 CTTTTAAGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.16
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
Found at i:20299 original size:49 final size:49
Alignment explanation
Indices: 20037--20833 Score: 822
Period size: 49 Copynumber: 16.9 Consensus size: 49
20027 TGGCAACCCT
*** * *
20037 TTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * * *
20086 TTTAA-CCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
20132 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATC
* *
20184 TTTAAGTCCAATGTAGCGGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
20227 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
20276 TTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C-----C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
20319 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C---ATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
20362 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
20405 TTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACTTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* **
20454 TTTAAATCCAATGTAGCTGGCCTTGAATCAGCGCATTGGCA-C-----C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
20497 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
20546 TTTAAGTCTAATGTAGCTAGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
20595 TTTAAGTCTAATGTAGCTAGCCTTGAATCAGCATATTGGCACC-TCA-C
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
20642 ATTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATC
1 -TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
20692 TTGAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
20741 TTTAAGTCCAATAG-CGCTGGCCTTGAATCAGCATATTAGCACCTTT-TC
1 TTTAAGTCCAAT-GTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
20789 TGTCTTGAGTCCAATGTAGCTGGCCTTGAATCAGCATATTAGCAC
1 --T-TTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC
20834 AAGCCCAATA
Statistics
Matches: 634, Mismatches: 78, Indels: 70
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.00
43 188 0.30
44 2 0.00
45 1 0.00
46 11 0.02
47 29 0.05
48 71 0.11
49 251 0.40
50 4 0.01
51 38 0.06
52 38 0.06
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:20311 original size:92 final size:92
Alignment explanation
Indices: 20037--20786 Score: 890
Period size: 92 Copynumber: 8.0 Consensus size: 92
20027 TGGCAACCCT
** * * * *
20037 TTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA-CCCAATGTCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
* *
20101 TTGGCCTTGAATCAACACATTGGCATTCATC
66 CTGGCCTTGAATCAGCACATTGGCA--C--C
* * *
20132 TTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGCCTTCGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTTAAGTCCAATG
*
20197 TAGCGGGCCTTGAATCAGCACATTGGCACC
63 TAGCTGGCCTTGAATCAGCACATTGGCACC
*
20227 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
*
20292 CTGGCCTTGAATCAACACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
20319 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C---ATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
20378 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
20405 TTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAATCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
*
20470 CTGGCCTTGAATCAGCGCATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
20497 TTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
* *
20562 CTAGCCTTGAATCAGCATATTGGCACCTTTATC
66 CTGGCCTTGAATCAGCACATTGGCA-C-----C
* * * * * *
20595 TTTAAGTCTAATGTAGCTAGCCTTGAATCAGCATATTGGCACC-TCA-CATTTAAGTCCAATATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCCAATGTA
* *
20658 GCTGACCTTGAATCAGCATATTGGCACC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
20686 TTTATCTTGAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCACCTTTAAGTCCA
1 ----T-TT-AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
* * *
20751 ATAG-CGCTGGCCTTGAATCAGCATATTAGCACC
60 AT-GTAGCTGGCCTTGAATCAGCACATTGGCACC
20784 TTT
1 TTT
20787 TCTGTCTTGA
Statistics
Matches: 580, Mismatches: 49, Indels: 54
0.85 0.07 0.08
Matches are distributed among these distances:
86 83 0.14
89 1 0.00
91 1 0.00
92 207 0.36
93 4 0.01
94 1 0.00
95 84 0.14
96 4 0.01
97 75 0.13
98 89 0.15
99 31 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:20342 original size:22 final size:22
Alignment explanation
Indices: 20275--20385 Score: 54
Period size: 22 Copynumber: 5.1 Consensus size: 22
20265 GCACCTTTAT
*
20275 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
20297 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
20318 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* ** *
20340 CTTGAA-T-CAGCATA-TTGGC
1 CTTTAAGTCCAATATAGCTGGC
*
20359 ATCTTTAAGTCCAATGTAGCTGGC
1 --CTTTAAGTCCAATATAGCTGGC
20383 CTT
1 CTT
20386 GAATCAGCAC
Statistics
Matches: 61, Mismatches: 18, Indels: 20
0.62 0.18 0.20
Matches are distributed among these distances:
19 7 0.11
20 9 0.15
21 13 0.21
22 16 0.26
23 9 0.15
24 7 0.11
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:21556 original size:19 final size:18
Alignment explanation
Indices: 21531--21595 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
21521 ATTTCAATGA
21531 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
21549 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
21565 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
21581 TTTTGTATCGATACA
1 -TTTGTATCGATACA
21596 ATGTACACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:21569 original size:32 final size:32
Alignment explanation
Indices: 21533--21600 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
21523 TTCAATGATT
21533 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
21565 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
21597 TGTA
1 TGTA
21601 CACTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:21666 original size:13 final size:13
Alignment explanation
Indices: 21648--21672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21638 ATTACTCAAA
21648 TGTATCGATACAT
1 TGTATCGATACAT
21661 TGTATCGATACA
1 TGTATCGATACA
21673 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21724 original size:52 final size:52
Alignment explanation
Indices: 21681--21806 Score: 243
Period size: 52 Copynumber: 2.4 Consensus size: 52
21671 CACTGATCTT
21681 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
21733 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
21785 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
21807 ATTTCATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:28370 original size:13 final size:13
Alignment explanation
Indices: 28352--28376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28342 CAATTCATCA
28352 TGTATCGATACAT
1 TGTATCGATACAT
28365 TGTATCGATACA
1 TGTATCGATACA
28377 ATATATTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:28375 original size:33 final size:33
Alignment explanation
Indices: 28332--28396 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
28322 TTAGAAGCAA
*
28332 TGTATTGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATAT-ATCATGTATCGATACAT
*
28365 TGTATCGATACAATATATTATGTATCGATACA
1 TGTATCGATACAATATATCATGTATCGATACA
28397 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATATATCATGTATCGATACAT
Found at i:28452 original size:20 final size:19
Alignment explanation
Indices: 28426--28498 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
28416 TTGCCAGTTT
* *
28426 CATGTATCGATACAATTAT
1 CATGTATCGATACAATGAA
28445 CGATGTATCGATACAATGAA
1 C-ATGTATCGATACAATGAA
*
28465 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
28486 -ATGTATCGATACA
1 CATGTATCGATACA
28499 TCTAGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:28978 original size:11 final size:11
Alignment explanation
Indices: 28962--28998 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
28952 TTATTACTTT
28962 TTATTTATAAA
1 TTATTTATAAA
28973 TTATTT-TAAA
1 TTATTTATAAA
28983 TTTATTTATAAA
1 -TTATTTATAAA
28995 TTAT
1 TTAT
28999 ACAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:29006 original size:21 final size:22
Alignment explanation
Indices: 28961--29010 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
28951 ATTATTACTT
**
28961 TTTATTTATAAATTATTTTAAA
1 TTTATTTATAAATTATTACAAA
28983 TTTATTTATAAATTA-TACAAA
1 TTTATTTATAAATTATTACAAA
29004 TTTATTT
1 TTTATTT
29011 TTATTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTATAAATTATTACAAA
Found at i:29426 original size:298 final size:298
Alignment explanation
Indices: 28842--29496 Score: 1055
Period size: 298 Copynumber: 2.2 Consensus size: 298
28832 TTTACATGTA
* * * *
28842 TTATTTTTCGGTAATGACCTAAATACGAG-TTT--TTTATCTGTAAAATGACCAAGAAAATATTT
1 TTATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAAATTT
*
28904 ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTATGCATGTATTATTACTTTTTATTTA
66 ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTATGCATGAATTATTACTTTTTATTTA
28969 TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
131 TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
* **
29034 ACATGTATTATTTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATATTTTACTTTTTT
196 ACATGTATGATTTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
** * *
29099 TGATAACGACTTATTTCGGATTTACAGACGCACACATT
261 CAATAACGAATTATTTCGGATTGACAGACGCACACATT
29137 TTATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAAATTT
1 TTATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAAATTT
*
29202 ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTGTGCATGAATTATTACTTTTTATTTA
66 ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTATGCATGAATTATTACTTTTTATTTA
* *
29267 TAACTTATTTTTAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
131 TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
*
29332 ACATGTATGATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
196 ACATGTATGATTTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
* * *
29397 CAATAACGAATTATTTTGGATTGACAGACGTACATATT
261 CAATAACGAATTATTTCGGATTGACAGACGCACACATT
* * * * **
29435 TTATTTTTCAGTAACGATTTAAATACGAACTTTCCTTTATCTCTAAAAATGATTAAGAAAAA
1 TTATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTTATCTAT-AAAATGACCAAGAAAAA
29497 TTTTCCTTAA
Statistics
Matches: 331, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
295 27 0.08
296 3 0.01
298 286 0.86
299 15 0.05
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (298 bp):
TTATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAAATTT
ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTATGCATGAATTATTACTTTTTATTTA
TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
ACATGTATGATTTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
CAATAACGAATTATTTCGGATTGACAGACGCACACATT
Found at i:30379 original size:90 final size:90
Alignment explanation
Indices: 30282--31040 Score: 702
Period size: 90 Copynumber: 8.7 Consensus size: 90
30272 ATCCTTACAG
* * * *
30282 TCTTTTTTTTCCTTATAAAAAAGAATTTTATTCTGAGATATAAGT-ATGCATTAGTCTAATCCTT
1 TCTTTTTTTT-CTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
30346 GTAGTCTGACATTTACAATCAGTCAA
65 GTAGTCTGACATTTACAATCAGTCAA
* * *
30372 TCTTTTTTTTCCTTATAAAAAAGAATTTTATTCTCAGATATAAGT-ATGCATTAGTCTAATCCTT
1 TCTTTTTTTT-CTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * *
30436 GTAGTCTAACATTTATAATCAGTCAG
65 GTAGTCTGACATTTACAATCAGTCAA
* * *
30462 TC--TTTTTTC-TATAAAAAA-ATTC-GATTCTCATATATAATTCATGCATTAGTCTAATTCTTG
1 TCTTTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* *
30522 TAGTCTGACATTTACAATCAATCAG
66 TAGTCTGACATTTACAATCAGTCAA
* *
30547 TCTTTCTTTTTTTCTATAAAAAAGAAT-TGATTCTCAGATATAATTCATGCATTAGTCTAATGCT
1 TCTTT-TTTTTCT-TATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCT
* * * **
30611 TATAGTTTGACATTTACAAT-AATCGG
64 TGTAGTCTGACATTTACAATCAGTCAA
* * * *
30637 TCTTTCTTTTTTTATATAAAAAAGAATCTAATTCTCAGATATAATTCATGCATTACAGTATGA-C
1 TCTTT-TTTTTCT-TATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATT--AGTCTAATC
*
30701 CTT-TA--C--A-A--T-CAATTAGTC--
62 CTTGTAGTCTGACATTTACAATCAGTCAA
* * * *
30719 T-GTTTTTTTC-TA-AAAAAAGAATCCT-ATTCTCATATATAATTCATGCATTAGTTTAATCCTA
1 TCTTTTTTTTCTTATAAAAAAGAAT-CTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
* * * * *
30780 GCAGTTTAACATTTACAATTAATCAA
65 GTAGTCTGACATTTACAATCAGTCAA
* * * * *
30806 -CTATTTTTTC-TAT-AAAATGAATCTGATTCTCAGATATCATTCATGCATTAGTCTATTCCTTA
1 TCTTTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
* * *
30868 CAGTTTAACATTTACAATCAGTCAA
66 TAGTCTGACATTTACAATCAGTCAA
* * * * *
30893 -C-TTTTTTTC-TATAAAAAA-AATCTAATTCTCAGATATTATTCATACATTAATCTAATCATTG
1 TCTTTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
30954 TAGTCTGACATTTACAATCAGTCAA
66 TAGTCTGACATTTACAATCAGTCAA
* * * *
30979 -CTTTTCTTTTTTTCTATAAAAAAGAATCTGATTTTCAAATATAATTTATGCATTAGTCTAAT
1 TC-TTT-TTTTTCT-TATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAAT
31041 TTAATTTTTT
Statistics
Matches: 567, Mismatches: 67, Indels: 68
0.81 0.10 0.10
Matches are distributed among these distances:
75 5 0.01
76 3 0.01
77 34 0.06
78 4 0.01
80 5 0.01
81 3 0.01
82 2 0.00
83 4 0.01
84 19 0.03
85 53 0.09
86 81 0.14
87 79 0.14
88 13 0.02
89 5 0.01
90 128 0.23
91 90 0.16
92 34 0.06
93 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (90 bp):
TCTTTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
TAGTCTGACATTTACAATCAGTCAA
Found at i:30835 original size:87 final size:86
Alignment explanation
Indices: 30721--31040 Score: 356
Period size: 86 Copynumber: 3.6 Consensus size: 86
30711 AATTAGTCTG
* * *
30721 TTTTTTTCTAAAAAAAGAATCCT-ATTCTCATATATAATTCATGCATTAGTTTAATCCTAGCAGT
1 TTTTTTTCTATAAAAAGAAT-CTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTAGCAGT
* *
30785 TTAACATTTACAATTAATCAAC
65 TTAACATTTACAATCAGTCAAC
* * *
30807 TATTTTTTCTATAAAATGAATCTGATTCTCAGATATCATTCATGCATTAGTCTATTCCTTA-CAG
1 T-TTTTTTCTATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCC-TAGCAG
30871 TTTAACATTTACAATCAGTCAAC
64 TTTAACATTTACAATCAGTCAAC
* * * * * * * * *
30894 TTTTTTTCTATAAAAAAAATCTAATTCTCAGATATTATTCATACATTAATCTAATCATTGTAGTC
1 TTTTTTTCTATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTAGCAGTT
*
30959 TGACATTTACAATCAGTCAACTTTTC
66 TAACATTTACAATCAGTCAA-----C
* * *
30985 TTTTTTTCTATAAAAAAGAATCTGATTTTCAAATATAATTTATGCATTAGTCTAAT
1 TTTTTTTCTAT-AAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAAT
31041 TTAATTTTTT
Statistics
Matches: 196, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
85 1 0.01
86 73 0.37
87 72 0.37
88 2 0.01
91 12 0.06
92 36 0.18
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (86 bp):
TTTTTTTCTATAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTAGCAGTT
TAACATTTACAATCAGTCAAC
Found at i:30881 original size:255 final size:252
Alignment explanation
Indices: 30286--30941 Score: 646
Period size: 266 Copynumber: 2.5 Consensus size: 252
30276 TTACAGTCTT
* * * **
30286 TTTTTTCCTTATAAAAAAGAATTTTATTCTGAGATATAAGT-ATGCATTAGTCTAATCCTTGTAG
1 TTTTTT-C-TATAAAAAAGAA-TTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAG
* * * * *
30350 TCTGACATTTACAATCAGTCAATCTTTTTTTTCCTTATAAAAAAGAATTTTATTCTCAGATATAA
63 TTTAACATTTACAATCAGTCAA-C-TTTTTTT--ATATAAAAAA-AATCTAATTCTCAGATATAA
* * * * * *
30415 GT-ATGCATT--AGTCTAATCCTTGTAGTCTAA-CATTTATAATCAGTCAGTCTTTTTTCTATAA
123 TTCATACATTACAGTATGA-CCTT-TA--C-AATCA---AT--T-AGTCTGT-TTTTTTCTAAAA
* * * * *
30476 AAAAATTCGATTCTCATATATAATTCATGCATTAGTCTAATTCTTGTAGTCTGACATTTACAATC
176 AAAAATCCGATTCTCATATATAATTCATGCATTAGTCTAATCCTAGCAGTCTAACATTTACAATC
* *
30541 AATCAGTCTTTCT
241 AATCAGAC-TTCA
* *
30554 TTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATGCTTATAGTTT
1 TTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTT
* * **
30619 GACATTTACAATAATCGGTCTTTCTTTTTTTATATAAAAAAGAATCTAATTCTCAGATATAATTC
66 AACATTTAC---AATCAGTC-AACTTTTTTTATATAAAAAA-AATCTAATTCTCAGATATAATTC
* *
30684 ATGCATTACAGTATGACCTTTACAATCAATTAGTCTGTTTTTTTCTAAAAAAAGAATCCTATTCT
126 ATACATTACAGTATGACCTTTACAATCAATTAGTCTGTTTTTTTCTAAAAAAA-AATCCGATTCT
* * *
30749 CATATATAATTCATGCATTAGTTTAATCCTAGCAGTTTAACATTTACAATTAATCA-AC-T-A
190 CATATATAATTCATGCATTAGTCTAATCCTAGCAGTCTAACATTTACAATCAATCAGACTTCA
* * *
30809 TTTTTTCTAT-AAAATGAATCTGATTCTCAGATATCATTCATGCATTAGTCTATTCCTTACAGTT
1 TTTTTTCTATAAAAAAGAAT-TGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTT
* *
30873 TAACATTTACAATCAGTCAACTTTTTTTCTATAAAAAAAATCTAATTCTCAGATATTATTCATAC
65 TAACATTTACAATCAGTCAACTTTTTTTATATAAAAAAAATCTAATTCTCAGATATAATTCATAC
30938 ATTA
130 ATTA
30942 ATCTAATCAT
Statistics
Matches: 337, Mismatches: 40, Indels: 40
0.81 0.10 0.10
Matches are distributed among these distances:
250 29 0.09
251 17 0.05
252 7 0.02
254 8 0.02
255 59 0.18
256 1 0.00
258 15 0.04
259 64 0.19
260 1 0.00
262 2 0.01
264 2 0.01
265 19 0.06
266 73 0.22
267 10 0.03
268 17 0.05
269 13 0.04
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (252 bp):
TTTTTTCTATAAAAAAGAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTTT
AACATTTACAATCAGTCAACTTTTTTTATATAAAAAAAATCTAATTCTCAGATATAATTCATACA
TTACAGTATGACCTTTACAATCAATTAGTCTGTTTTTTTCTAAAAAAAAATCCGATTCTCATATA
TAATTCATGCATTAGTCTAATCCTAGCAGTCTAACATTTACAATCAATCAGACTTCA
Found at i:31343 original size:15 final size:15
Alignment explanation
Indices: 31298--31358 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
31288 AGAATTTCTC
*
31298 AATATATTCATAAAA
1 AATATATTTATAAAA
*
31313 AAAACCTATTT-TAAAA
1 AATA--TATTTATAAAA
31329 AATAT-TTTATAAAA
1 AATATATTTATAAAA
*
31343 AATTTATTTATAAAA
1 AATATATTTATAAAA
31358 A
1 A
31359 TAAAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.08
14 10 0.26
15 13 0.34
16 8 0.21
17 4 0.11
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATTTATAAAA
Found at i:31357 original size:14 final size:13
Alignment explanation
Indices: 31319--31360 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
31309 AAAAAAAACC
31319 TATTTTA-AAAAA
1 TATTTTATAAAAA
31331 TATTTTATAAAAAA
1 TATTTTAT-AAAAA
*
31345 TTTATTTATAAAAA
1 TAT-TTTATAAAAA
31359 TA
1 TA
31361 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
14 13 0.52
15 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTTTATAAAAA
Found at i:31718 original size:58 final size:57
Alignment explanation
Indices: 31650--31838 Score: 142
Period size: 64 Copynumber: 3.3 Consensus size: 57
31640 ATTTATTTTA
*
31650 TTAATTTATTTTTAAAATAAATATAATTTTAATTACTATTATTTAATATAACATAATT
1 TTAATATATTTTTAAAATAAATATAATTTTAATTACTATTATTTAATATAA-ATAATT
* * *
31708 TTAATATATTTTATTATTTAATATAAATATAATTTCAATTACTTATT-TTT-TTCTGAATATAAT
1 TTAATATA-TTT-TTA---AA-ATAAATATAATTTTAATTAC-TATTATTTAATAT-AA-ATAAT
31771 T
57 T
* ** * *
31772 TCAATCAT-TAGTT-AAATAAATAAAATTTTAATT-TTATTATTTAATAT--ATAATT
1 TTAAT-ATATTTTTAAAATAAATATAATTTTAATTACTATTATTTAATATAAATAATT
31825 TTAATA-ATTTTTAA
1 TTAATATATTTTTAA
31839 TTATTTATTA
Statistics
Matches: 102, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
52 4 0.04
53 11 0.11
55 4 0.04
56 3 0.03
57 18 0.18
58 9 0.09
59 3 0.03
60 3 0.03
62 2 0.02
63 5 0.05
64 34 0.33
65 6 0.06
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (57 bp):
TTAATATATTTTTAAAATAAATATAATTTTAATTACTATTATTTAATATAAATAATT
Found at i:31723 original size:33 final size:32
Alignment explanation
Indices: 31644--31850 Score: 134
Period size: 30 Copynumber: 6.6 Consensus size: 32
31634 ATTTATATTT
*
31644 ATTTT-ATTAATTTATT-TTTAAAATAAATATA
1 ATTTTAATT-ATTTATTATTTAATATAAATATA
* *
31675 ATTTTAATTA-CTATTATTTAATAT-AACATA
1 ATTTTAATTATTTATTATTTAATATAAATATA
31705 ATTTTAATATATTTTATTATTTAATATAAATATA
1 ATTTTAAT-TA-TTTATTATTTAATATAAATATA
* * * * *
31739 ATTTCAATTACTTATT-TTT-TTCTGAATATA
1 ATTTTAATTATTTATTATTTAATATAAATATA
* * * *
31769 A-TTTCA--A-TCATTAGTTAA-ATAAATAAA
1 ATTTTAATTATTTATTATTTAATATAAATATA
31796 ATTTTAA-T-TTTATTATTTAATATATAATTTTAATA
1 ATTTTAATTATTTATTATTTAATATA-AA---T-ATA
31831 ATTTTTAATTATTTATTATT
1 A-TTTTAATTATTTATTATT
31851 GATTATATAT
Statistics
Matches: 134, Mismatches: 22, Indels: 33
0.71 0.12 0.17
Matches are distributed among these distances:
26 4 0.03
27 10 0.07
28 4 0.03
29 12 0.09
30 29 0.22
31 20 0.15
32 8 0.06
33 15 0.11
34 13 0.10
35 3 0.02
36 6 0.04
37 1 0.01
38 9 0.07
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (32 bp):
ATTTTAATTATTTATTATTTAATATAAATATA
Found at i:31934 original size:23 final size:22
Alignment explanation
Indices: 31908--31985 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 22
31898 TCATCATTAC
31908 TATTATGATTAAAATTAAATATT
1 TATTATGATTAAAATTAAAT-TT
* *
31931 TATTTTATGATT-AATTTTAATTT
1 TA--TTATGATTAAAATTAAATTT
* *
31954 TATTATGATCATAATT-AATTT
1 TATTATGATTAAAATTAAATTT
* *
31975 TAATATTATTA
1 TATTATGATTA
31986 CTCTTTTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
21 20 0.45
22 3 0.07
23 6 0.14
24 7 0.16
25 8 0.18
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (22 bp):
TATTATGATTAAAATTAAATTT
Found at i:31950 original size:25 final size:23
Alignment explanation
Indices: 31910--31976 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
31900 ATCATTACTA
31910 TTATGATTAAAATTAAATATTTATT
1 TTATGATTAAAATT-AAT-TTTATT
**
31935 TTATGATTAATTTTAATTTTA--
1 TTATGATTAAAATTAATTTTATT
* *
31956 TTATGATCATAATTAATTTTA
1 TTATGATTAAAATTAATTTTA
31977 ATATTATTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 17 0.47
23 4 0.11
24 3 0.08
25 12 0.33
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (23 bp):
TTATGATTAAAATTAATTTTATT
Found at i:36653 original size:4 final size:4
Alignment explanation
Indices: 36644--36687 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
36634 GTGCCTGTAA
* * *
36644 ACAT ACAT ACTT AAAT ACAT ACAT ACAT AAAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
36688 GTGCATACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:36665 original size:16 final size:16
Alignment explanation
Indices: 36644--36687 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
36634 GTGCCTGTAA
*
36644 ACATACATACTTAAAT
1 ACATACATACATAAAT
36660 ACATACATACATAAAT
1 ACATACATACATAAAT
36676 ACATACATACAT
1 ACATACATACAT
36688 GTGCATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
ACATACATACATAAAT
Found at i:37277 original size:2 final size:2
Alignment explanation
Indices: 37270--37303 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
37260 GCTCTATTAT
37270 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37304 GTTACTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:38773 original size:18 final size:18
Alignment explanation
Indices: 38750--38784 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38740 ATTCTCATTA
38750 TATAAATATACATTATTG
1 TATAAATATACATTATTG
*
38768 TATAAATATATATTATT
1 TATAAATATACATTATT
38785 TGAACATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATAAATATACATTATTG
Found at i:38817 original size:11 final size:11
Alignment explanation
Indices: 38803--38853 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
38793 ATATAATTAT
*
38803 ATAAATATAAT
1 ATAAATATAAA
38814 ATAAATATAAA
1 ATAAATATAAA
*
38825 A-ACATATTAAA
1 ATAAATA-TAAA
*
38836 ATAATTATAAA
1 ATAAATATAAA
38847 ATAAATA
1 ATAAATA
38854 ATTAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 4 0.12
11 26 0.79
12 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAAATATAAA
Found at i:38923 original size:26 final size:26
Alignment explanation
Indices: 38793--38931 Score: 78
Period size: 27 Copynumber: 5.3 Consensus size: 26
38783 TTTGAACATG
38793 ATATAATTATATAAATATAATATAAAT
1 ATATAA-TATATAAATATAATATAAAT
* *
38820 ATAAAAACATATTAAA-ATAATTATAAA-
1 AT-ATAATATA-TAAATATAA-TATAAAT
*
38847 ATA-AATA-ATTAATAT-ATCA-AAAT
1 ATATAATATATAAATATAAT-ATAAAT
* * *
38870 TTATTATCAAAATAAATATAATATAAAT
1 ATATAAT--ATATAAATATAATATAAAT
*
38898 -TATTAATATATAAA-ATTATATAAAAT
1 ATA-TAATATATAAATATAATAT-AAAT
38924 ATATAATA
1 ATATAATA
38932 CGTTAAACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
22 4 0.05
23 7 0.08
24 5 0.06
25 9 0.10
26 17 0.20
27 23 0.26
28 22 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
ATATAATATATAAATATAATATAAAT
Found at i:45500 original size:32 final size:32
Alignment explanation
Indices: 45459--45527 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
45449 ACGTAATGAA
*
45459 AATAACATGATTCTAACTCCTGAGATATAAAC
1 AATAACATGATTCTAACTCCTGAGAAATAAAC
*
45491 AATAACATGATTCTAACTCCTGAGAAATAAAT
1 AATAACATGATTCTAACTCCTGAGAAATAAAC
45523 AATAA
1 AATAA
45528 AAATTGCTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (32 bp):
AATAACATGATTCTAACTCCTGAGAAATAAAC
Found at i:53132 original size:52 final size:51
Alignment explanation
Indices: 52977--53406 Score: 393
Period size: 52 Copynumber: 8.4 Consensus size: 51
52967 ATATCATGAT
* *
52977 TATTTAAAAACTAATAAATATTTTTAAAAATATTTTATATTAAATCTCAAATTAC
1 TATTTAAAAA-TAATAAA-A--ATTAAAAATAATTTATATTAAATCTCAAATTAC
* ** *
53032 TATTT---AATAATAAAAATTAAAAA-AAATTATATCGAATCTTAAATTAC
1 TATTTAAAAATAATAAAAATTAAAAATAATTTATATTAAATCTCAAATTAC
* *
53079 TATTTAAAAATAATAAAGAATTTAAAAA-AATTTATATTAAATATCAAAATAC
1 TATTTAAAAATAATAAA-AA-TTAAAAATAATTTATATTAAATCTCAAATTAC
* * * *
53131 TATTT-AAAATAATTAAAGTATTAAAAATATTTTATATTAAAT-ACAAATCAC
1 TATTTAAAAATAA-TAAA-AATTAAAAATAATTTATATTAAATCTCAAATTAC
* * * *
53182 TATTTAAAAATAATAAAAATTAAAAATATTTTATACTAAAACTTAAATTAC
1 TATTTAAAAATAATAAAAATTAAAAATAATTTATATTAAATCTCAAATTAC
*
53233 TATTTAAAATTAATAATAAATTAAAAATATATTTTATATTAAATC-CTAAATTAC
1 TATTTAAAAATAATAA-AAATTAAAAATA-A-TTTATATTAAATCTC-AAATTAC
* **
53287 TATTT-AAAATAATAAAAAATT-AAAA-AATTTATTTTAAATCTTGAATTAC
1 TATTTAAAAATAAT-AAAAATTAAAAATAATTTATATTAAATCTCAAATTAC
* * * *
53336 AATTT-AAAA-AATAAAAAATAAAAAACATATTTTATATTAAATCTTAAATTAC
1 TATTTAAAAATAAT-AAAAAT-TAAAA-ATAATTTATATTAAATCTCAAATTAC
*
53388 TATTTAAAAA-ATTAAAAAT
1 TATTTAAAAATAATAAAAAT
53407 ATTTTATATT
Statistics
Matches: 316, Mismatches: 39, Indels: 43
0.79 0.10 0.11
Matches are distributed among these distances:
47 24 0.08
48 17 0.05
49 26 0.08
50 35 0.11
51 61 0.19
52 105 0.33
53 18 0.06
54 25 0.08
55 5 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (51 bp):
TATTTAAAAATAATAAAAATTAAAAATAATTTATATTAAATCTCAAATTAC
Found at i:53135 original size:24 final size:24
Alignment explanation
Indices: 53108--53187 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
53098 ATTTAAAAAA
53108 ATTTATATTAAATATCAAAATACT
1 ATTTATATTAAATATCAAAATACT
*
53132 ATTTAAAATAATTAAAGTATTAAAA-A-T
1 ATTT---AT-ATTAAA-TATCAAAATACT
53159 ATTTTATATTAAATA-C-AAATCACT
1 A-TTTATATTAAATATCAAAAT-ACT
53183 ATTTA
1 ATTTA
53188 AAAATAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
21 3 0.07
23 7 0.16
24 12 0.27
25 2 0.04
27 4 0.09
28 10 0.22
29 7 0.16
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (24 bp):
ATTTATATTAAATATCAAAATACT
Found at i:53384 original size:101 final size:104
Alignment explanation
Indices: 52977--53542 Score: 463
Period size: 101 Copynumber: 5.7 Consensus size: 104
52967 ATATCATGAT
**
52977 TATTTAAAAACTAATAAATATTTTTAAAAATATTTTATATTAAATCTCAAATTACTATTT--AAT
1 TATTTAAAAA-TAATAAA-A-AATTAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAT
* **
53040 AATAAAAATTAAAAAAA-A--TTATATCGAATCTTAAATTAC
63 AATAAAAAATAAAAAAATATTTTATATTAAATCTTAAATTAC
* * * *
53079 TATTTAAAAATAATAAAGAATTTAAAAA-AATTTATATTAAATATCAAAATACTATTTAAAATAA
1 TATTTAAAAATAATAAA-AAATTAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAATAA
* * * *
53143 T-TAAAGTATTAAAAATATTTTATATTAAATAC--AAATCAC
65 TAAAAAATA-AAAAAATATTTTATATTAAAT-CTTAAATTAC
* * *
53182 TATTTAAAAATAAT-AAAAATTAAAAATATTTTATACTAAAACTTAAATTACTATTTAAAATTAA
1 TATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAA-TAA
* * *
53246 TAATAAATTAAAAATATATTTTATATTAAATCCTAAATTAC
65 TAA-AAAATAAAAAAATATTTTATATTAAATCTTAAATTAC
* ** *
53287 TATTT-AAAATAATAAAAAATTAAAAA-A-TTTATTTTAAATCTTGAATTACAATTTAAAA-AAT
1 TATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAATAAT
53348 AAAAAATAAAAAACATATTTTATATTAAATCTTAAATTAC
66 AAAAAATAAAAAA-ATATTTTATATTAAATCTTAAATTAC
53388 TA--T-----T--TAAAAAATTAAAAATATTTTATATTAAAATC-CTAAATTACTATTTAAAA-A
1 TATTTAAAAATAATAAAAAATTAAAAATATTTTATATT-AAATCTC-AAATTACTATTTAAAATA
* *
53442 AT------T--AAAAATATTTTATATTAAATCCT-GATTAC
64 ATAAAAAATAAAAAAATATTTTATATTAAATCTTAAATTAC
* *** *
53474 TA-TTAAAAATAA-AATTAAAA-TAAAAATATTGTAGGGTAAATGC-CTAATTACTATTTAAAA-
1 TATTTAAAAATAATAA--AAAATTAAAAATATTTTATATTAAAT-CTCAAATTACTATTTAAAAT
53534 AATAAAAAA
63 AATAAAAAA
53543 ATTTACATAT
Statistics
Matches: 386, Mismatches: 42, Indels: 75
0.77 0.08 0.15
Matches are distributed among these distances:
86 7 0.02
87 19 0.05
88 4 0.01
90 1 0.00
92 1 0.00
93 38 0.10
94 16 0.04
95 12 0.03
96 22 0.06
99 27 0.07
100 22 0.06
101 60 0.16
102 40 0.10
103 51 0.13
104 37 0.10
105 29 0.08
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (104 bp):
TATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAATAAT
AAAAAATAAAAAAATATTTTATATTAAATCTTAAATTAC
Found at i:53397 original size:51 final size:50
Alignment explanation
Indices: 53002--53542 Score: 368
Period size: 52 Copynumber: 10.9 Consensus size: 50
52992 AAATATTTTT
* * *
53002 AAAAATATTTTATATTAAATCTCAAATTACTATTTAATAATAAAAATTAA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAAAAAATAA
** *
53052 AAAAA-A--TTATATCGAATCTTAAATTACTATTTAAAAATAATAAAGAATTTA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAAT-A-AAA-AA-TAA
* * * * *
53103 AAAAA-A-TTTATATTAAATATCAAAATACTATTT-AAAATAATTAAAGTATT
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAA--AAAATA-A
* *
53153 AAAAATATTTTATATTAAATAC--AAATCACTATTTAAAAATAATAAAA-ATT
1 AAAAATATTTTATATTAAAT-CTTAAATTACTATTTAAAAATAA-AAAATA-A
* * *
53203 AAAAATATTTTATACTAAAACTTAAATTACTATTTAAAATTAATAATAAATTAA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTT-AAA--AATAA-AAAATAA
* * *
53257 AAATATATTTTATATTAAATCCTAAATTACTATTTAAAATAATAAAAAAT-T
1 AAAAATATTTTATATTAAATCTTAAATTACTATTT-AAA-AATAAAAAATAA
* * *
53308 AAAAA-A-TTTATTTTAAATCTTGAATTACAATTTAAAAAATAAAAAATAA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTT-AAAAATAAAAAATAA
*
53357 AAAACATATTTTATATTAAATCTTAAATTACTA-TT-----TAAAAAAT-T
1 AAAA-ATATTTTATATTAAATCTTAAATTACTATTTAAAAATAAAAAATAA
* *
53401 AAAAATATTTTATATTAAAATCCTAAATTACTA-TT-----TAAAAAAT-T
1 AAAAATATTTTATATT-AAATCTTAAATTACTATTTAAAAATAAAAAATAA
* *
53445 AAAAATATTTTATATTAAATCCT-GATTACTA-TTAAAAATAAAATTAA-AA
1 AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAAAA--AATAA
* *** *
53494 TAAAAATATTGTAGGGTAAATGCCT-AATTACTATTTAAAAAATAAAAAA
1 -AAAAATATTTTATATTAAAT-CTTAAATTACTATTT-AAAAATAAAAAA
53543 ATTTACATAT
Statistics
Matches: 409, Mismatches: 47, Indels: 69
0.78 0.09 0.13
Matches are distributed among these distances:
42 9 0.02
43 19 0.05
44 46 0.11
45 8 0.02
47 33 0.08
48 11 0.03
49 40 0.10
50 52 0.13
51 60 0.15
52 70 0.17
53 16 0.04
54 44 0.11
55 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (50 bp):
AAAAATATTTTATATTAAATCTTAAATTACTATTTAAAAATAAAAAATAA
Found at i:53428 original size:44 final size:43
Alignment explanation
Indices: 53347--53482 Score: 204
Period size: 44 Copynumber: 3.1 Consensus size: 43
53337 ATTTAAAAAA
* *
53347 TAAAAAATAAAAAACATATTTTATATTAAATCTTAAATTACTATT
1 TAAAAAAT-TAAAA-ATATTTTATATTAAATCCTAAATTACTATT
53392 TAAAAAATTAAAAATATTTTATATTAAAATCCTAAATTACTATT
1 TAAAAAATTAAAAATATTTTATATT-AAATCCTAAATTACTATT
*
53436 TAAAAAATTAAAAATATTTTATATTAAATCCT-GATTACTA-T
1 TAAAAAATTAAAAATATTTTATATTAAATCCTAAATTACTATT
53477 TAAAAA
1 TAAAAA
53483 TAAAATTAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
41 7 0.08
42 7 0.08
43 19 0.22
44 46 0.53
45 8 0.09
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.40
Consensus pattern (43 bp):
TAAAAAATTAAAAATATTTTATATTAAATCCTAAATTACTATT
Found at i:53447 original size:20 final size:20
Alignment explanation
Indices: 53379--53447 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
53369 ATATTAAATC
53379 TTAAATTACTATTTAAAAAA
1 TTAAATTACTATTTAAAAAA
*
53399 TTAAA--AATATTTTATATTAAAA
1 TTAAATTACTA-TTTA-A--AAAA
53421 TCCTAAATTACTATTTAAAAAA
1 T--TAAATTACTATTTAAAAAA
53443 TTAAA
1 TTAAA
53448 AATATTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
18 3 0.08
19 4 0.10
20 10 0.26
22 10 0.26
24 5 0.13
25 4 0.10
26 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAATTACTATTTAAAAAA
Found at i:53503 original size:137 final size:141
Alignment explanation
Indices: 53250--53546 Score: 335
Period size: 137 Copynumber: 2.1 Consensus size: 141
53240 AATTAATAAT
53250 AAATTAAAAATATATTTTATATTAAATCCTAAATTACTATTTAAAATAATAAAAAATTAAAAAAT
1 AAATT-AAAA-ATATTTTATATTAAATCCTAAATTACTATTTAAAATAATAAAAAATT---AAAT
* * * * *
53315 TTATTTTAAATCTTGAATTACAATTTAAAAAATAAAAAATAAAAAACATATTTTATATTAAAT-C
61 TTATATTAAATCCTGAATTACAATTTAAAAAATAAAAAATAAAAAACATATTGTAGAGTAAATGC
*
53379 TTAAATTACTATTTAAA
126 CT-AATTACTATTTAAA
* *
53396 AAATTAAAAATATTTTATATTAAAATCCTAAATTACTATTTAAAA-AATTAAAAA-T-ATTTTAT
1 AAATTAAAAATATTTTATATT-AAATCCTAAATTACTATTTAAAATAATAAAAAATTAAATTTAT
* *
53458 ATTAAATCCTG-ATTACTA-TT-AAAAATAAAATTAA-AATAAAA-ATATTGTAGGGTAAATGCC
65 ATTAAATCCTGAATTACAATTTAAAAAATAAAA--AATAA-AAAACATATTGTAGAGTAAATGCC
53518 TAATTACTATTTAAA
127 TAATTACTATTTAAA
*
53533 AAA-TAAAAAAATTT
1 AAATTAAAAATATTT
53547 ACATATGTAT
Statistics
Matches: 135, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
136 20 0.15
137 33 0.24
138 14 0.10
139 15 0.11
143 1 0.01
144 20 0.15
145 27 0.20
146 5 0.04
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (141 bp):
AAATTAAAAATATTTTATATTAAATCCTAAATTACTATTTAAAATAATAAAAAATTAAATTTATA
TTAAATCCTGAATTACAATTTAAAAAATAAAAAATAAAAAACATATTGTAGAGTAAATGCCTAAT
TACTATTTAAA
Found at i:53544 original size:50 final size:47
Alignment explanation
Indices: 53152--53544 Score: 126
Period size: 50 Copynumber: 8.0 Consensus size: 47
53142 ATTAAAGTAT
* * * * * *
53152 TAAAAATATTTTATATTAAATACAAATCACTATTTAAAAATAATAAAAA
1 TAAAAATATTGTAGAGTAAATCCTAATTACTA-TTAAAAATAA-AAAAA
* * * * * *
53201 TTAAAAATATTTTATACTAAAACTTAAATTACTATTTAAAATTAATAATAAA
1 -TAAAAATATTGTAGAGTAAATCCT-AATTACTA-TTAAAAATAA-AA-AAA
* * * *
53253 TTAAAAATATATTTTATATTAAATCCTAAATTACTATTTAAAATAATAAAAAAT
1 -T-AAAA-ATATTGTAGAGTAAATCCT-AATTACTA-TT-AAA-AATAAAAAAA
*** * *
53307 TAAAAA-ATT-TATTTTAAATCTTGAATTACAATTTAAAAAATAAAAAATA
1 TAAAAATATTGTAGAGTAAATCCT-AATTACTA-TT-AAAAATAAAAAA-A
* * * * * *
53356 AAAAACATATTTTATATTAAATCTTAAATTACTATT-----TAAAAAAT
1 TAAAA-ATATTGTAGAGTAAATCCT-AATTACTATTAAAAATAAAAAAA
* * * *
53400 TAAAAATATTTTATATTAAAATCCTAAATTACTATT-----TAAAAAAT
1 TAAAAATATTGTAGAGT-AAATCCT-AATTACTATTAAAAATAAAAAAA
* * * *
53444 TAAAAATATTTTATATTAAATCCTGATTACTATTAAAAATAAAATTAAAA
1 TAAAAATATTGTAGAGTAAATCCTAATTACTATTAAAAAT-AAA--AAAA
*
53494 TAAAAATATTGTAGGGTAAATGCCTAATTACTATTTAAAAAATAAAAAAA
1 TAAAAATATTGTAGAGTAAAT-CCTAATTACTA-TT-AAAAATAAAAAAA
53544 T
1 T
53545 TTACATATGT
Statistics
Matches: 290, Mismatches: 31, Indels: 44
0.79 0.08 0.12
Matches are distributed among these distances:
42 9 0.03
43 19 0.07
44 46 0.16
45 7 0.02
47 1 0.00
48 12 0.04
49 29 0.10
50 48 0.17
51 36 0.12
52 33 0.11
53 11 0.04
54 30 0.10
55 5 0.02
56 4 0.01
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (47 bp):
TAAAAATATTGTAGAGTAAATCCTAATTACTATTAAAAATAAAAAAA
Found at i:53933 original size:22 final size:22
Alignment explanation
Indices: 53908--53957 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
53898 TATATGTACT
53908 TATTGTTTTTACTAAATGTAAA
1 TATTGTTTTTACTAAATGTAAA
* * * *
53930 TATTATTTTTAGTGAATGTATA
1 TATTGTTTTTACTAAATGTAAA
53952 TATTGT
1 TATTGT
53958 CTTATTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (22 bp):
TATTGTTTTTACTAAATGTAAA
Found at i:54321 original size:22 final size:21
Alignment explanation
Indices: 54296--54365 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
54286 ATGAATTTAT
*
54296 ATATGAGTATAACTAATAGTAC
1 ATATGATTATAACTAATA-TAC
54318 ATATGATTATAAC-AGTATATAC
1 ATATGATTATAACTA--ATATAC
*
54340 ATATGATTTTAACTAAATATAC
1 ATATGATTATAACT-AATATAC
54362 ATAT
1 ATAT
54366 AACTTTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.02
22 37 0.88
23 3 0.07
24 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATGATTATAACTAATATAC
Found at i:54385 original size:22 final size:22
Alignment explanation
Indices: 54334--54375 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
54324 TTATAACAGT
* *
54334 ATATACATATGATTTTAACTAA
1 ATATACATATAACTTTAACTAA
54356 ATATACATATAACTTTAACT
1 ATATACATATAACTTTAACT
54376 GAATCAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATACATATAACTTTAACTAA
Found at i:54626 original size:99 final size:101
Alignment explanation
Indices: 54521--55110 Score: 383
Period size: 105 Copynumber: 5.7 Consensus size: 101
54511 ATATAAAATA
* * ** * * *
54521 TTTTTTAATTATTTTGTTATTTTTAAATGAT-ATTTGGGTTTTAATGTAAAATA-TTTTACTTTT
1 TTTTTTAATT-TTATATTATTTTTAAATGATAATTTAAGATTTAATATAAAATATTTTTAATTTT
54584 TCA-T-TTTTCAAATAGTAAATCA-AGATTTAATATAAT
65 T-ATTATTTTCAAATAGT-AATCAGAGATTTAATATAAT
*
54620 TTTTTTAATTTTATATTATTTTTAAATGGTAATTTAAGATTTAATATAAAATATTTTTAATTTTT
1 TTTTTTAATTTTATATTATTTTTAAATGATAATTTAAGATTTAATATAAAATATTTTTAATTTTT
* *
54685 ATTATTTTTAAATAGTAATTAGAGATTTAATATAAAAT
66 ATTATTTTCAAATAGTAATCAGAGATTTAATAT--AAT
* * * * *
54723 ATGTTTGTAATTTT-TTTTGTTCTTTAAAT-AGCAATTT-AGATTTAATAGAAAATATTTTTTAA
1 -T-TTTTTAATTTTATATTATT-TTTAAATGA-TAATTTAAGATTTAATATAAAATA-TTTTT--
** * *
54785 AATTTTTATTATTTTTTAATAATAATTCA-AGATTTAGTATAAAAT
59 AATTTTTATTATTTTCAAATAGTAA-TCAGAGATTTA--ATATAAT
* * **
54830 ATTTTTAAATTTT-TTTTATTTTTAAAT-AGTAATTCGAGATTTAATATTAAATATATTTTTAAT
1 -TTTTTTAATTTTATATTATTTTTAAATGA-TAATTTAAGATTTAATA-TAAA-ATATTTTTAAT
* ** *
54893 TTTAATTATTTTTTAATAGTAATTTAG-GATTTAATATGAAAT
62 TTTTATTATTTTCAAATAGTAA-TCAGAGATTTAATAT--AAT
* * * ** *
54935 ATTTTTTAAATTTT-TATTATTTTT-AATTAGTAATTTTAGGATTTAATATTAGTTATTTTTAAA
1 -TTTTTT-AATTTTATATTATTTTTAAATGA-TAA-TTTAAGATTTAATATAAAATATTTTTAAT
** *
54998 TTTTA--AGGTT-AAATAGTAATTC-GAGATTTAATATAAA
62 TTTTATTATTTTCAAATAGTAA-TCAGAGATTTAATATAAT
* * * * *
55035 TTTTTTAAGTTTTTTATTA-TTTTAAATTG-TAATTCAGGATTTAATTTGAAATATTTTTAAAAT
1 TTTTTTAA-TTTTATATTATTTTTAAA-TGATAATTTAAGATTTAATATAAAATATTTTT--AAT
55098 TTTTCATTATTTT
62 TTTT-ATTATTTT
55111 TAAGTAATTA
Statistics
Matches: 401, Mismatches: 54, Indels: 68
0.77 0.10 0.13
Matches are distributed among these distances:
98 40 0.10
99 46 0.11
100 30 0.07
101 25 0.06
102 20 0.05
103 12 0.03
104 22 0.05
105 97 0.24
106 47 0.12
107 54 0.13
108 5 0.01
109 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (101 bp):
TTTTTTAATTTTATATTATTTTTAAATGATAATTTAAGATTTAATATAAAATATTTTTAATTTTT
ATTATTTTCAAATAGTAATCAGAGATTTAATATAAT
Found at i:54767 original size:53 final size:52
Alignment explanation
Indices: 54511--55419 Score: 524
Period size: 53 Copynumber: 17.7 Consensus size: 52
54501 TTCAATACAT
* * * *
54511 ATATAAAATATTTTTTAATTATTTTGTTATTTTTAAAT-G-ATATTTGGGTTTTA
1 ATATAAAATATTTTTTAAAT-TTTTATTATTTTTAAATAGTA-ATTT-AGATTTA
* * * **
54564 ATGTAAAATA--TTTT-ACTTTTTCA-T-TTTTCAAATAGTAAATCAAGATTTA
1 ATATAAAATATTTTTTAAATTTTT-ATTATTTTTAAATAGT-AATTTAGATTTA
*
54613 ATAT--AAT-TTTTTT-AATTTTATATTATTTTTAAATGGTAATTTAAGATTTA
1 ATATAAAATATTTTTTAAATTTT-TATTATTTTTAAATAGTAATTT-AGATTTA
*
54663 ATATAAAATA-TTTTT-AATTTTTATTATTTTTAAATAGTAATTAGAGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAATT-TAGATTTA
* * * *
54714 ATATAAAATATGTTTGT-AATTTTTTTTGTTCTTTAAATAGCAATTTAGATTTA
1 ATATAAAATAT-TTTTTAAATTTTTATTATT-TTTAAATAGTAATTTAGATTTA
* * * *
54767 ATAGAAAATATTTTTTAAAATTTTTATTATTTTTTAATAATAATTCAAGATTTA
1 ATATAAAATATTTTTT-AAATTTTTATTATTTTTAAATAGTAATT-TAGATTTA
* * *
54821 GTATAAAATA-TTTTTAAATTTTTTTTATTTTTAAATAGTAATTCGAGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAATT-TAGATTTA
* * *
54873 ATATTAAATATATTTTT-AATTTTAATTATTTTTTAATAGTAATTTAGGATTTA
1 ATATAAAATAT-TTTTTAAATTTTTATTATTTTTAAATAGTAATTTA-GATTTA
* *
54926 ATATGAAATATTTTTTAAATTTTTATTATTTTTAATTAGTAATTTTAGGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAA-TTTA-GATTTA
* ** ** *
54980 ATATTAGTTA-TTTTTAAA-TTTTA--A-GGTTAAATAGTAATTCGAGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAATT-TAGATTTA
* * *
55028 ATAT--AA-ATTTTTTAAGTTTTTTATTA-TTTTAAATTGTAATTCAGGATTTA
1 ATATAAAATATTTTTTAA-ATTTTTATTATTTTTAAATAGTAATTTA-GATTTA
* * * *
55078 ATTTGAAATATTTTTAAAATTTTTCATTATTTTT--A-AGTAATTATGGATTTA
1 ATATAAAATATTTTTTAAATTTTT-ATTATTTTTAAATAGTAATT-TAGATTTA
* ** *
55129 ATATAAAATA---TTT--A---TTA-T-TTTTTAAATAATAACTAGAGATTAA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAA-TTTAGATTTA
* * * * *
55172 ATTTGACATA-TTTTAAAATTTTTATTATTTTTAAATAGTATTTTTAGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTA-ATTTAGATTTA
* *
55224 ATATGAAATA-----T---TTTTTATTATTTTT-AATAGTAATTCGAGATTTA
1 ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAATT-TAGATTTA
* * *
55268 ATAT--AAT-TTTTTT-AATTCTTTAAGTAATTTTGAAATATGTTATTATTTTTTAAATGGTTTA
1 ATATAAAATATTTTTTAAATT-TTT-A-TTATTTTTAAATA-G-TA--A---TTT--A-GATTTA
* * *
55329 ATCTGAAAT-GTTTTTAAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTA
1 ATATAAAATATTTTTTAAA-TTTTTATTATTTTTAAATAGTAATTT-AGATTTA
*
55382 ATA-AGAAATA-TTTTTAATTTTTTATTAATTTTTTAAAT
1 ATATA-AAATATTTTTTAAATTTTTATT-A-TTTTTAAAT
55420 TTTAGTTCAA
Statistics
Matches: 674, Mismatches: 100, Indels: 163
0.72 0.11 0.17
Matches are distributed among these distances:
40 5 0.01
41 1 0.00
42 5 0.01
43 20 0.03
44 19 0.03
45 17 0.03
46 9 0.01
47 4 0.01
48 39 0.06
49 34 0.05
50 52 0.08
51 69 0.10
52 117 0.17
53 159 0.24
54 78 0.12
55 3 0.00
56 1 0.00
58 1 0.00
59 2 0.00
60 3 0.00
61 9 0.01
62 11 0.02
63 9 0.01
64 5 0.01
65 2 0.00
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (52 bp):
ATATAAAATATTTTTTAAATTTTTATTATTTTTAAATAGTAATTTAGATTTA
Found at i:54801 original size:159 final size:151
Alignment explanation
Indices: 54511--55249 Score: 599
Period size: 159 Copynumber: 4.8 Consensus size: 151
54501 TTCAATACAT
* * * * *
54511 ATATAAAATATTTTTTAATTATTTTGTTATTTTTAAAT-G-ATATTTGGGTTTTAATGTAAA-AT
1 ATATAAAATA-TTTTTAA-T-TTTTATTATTTTTAAATAGTA-ATTCGAGATTTAATATAAATAT
* ** * * * * *
54573 ATTTTACTTTTTCATTTTTCAAATAGTAAATCAAGATTTAATA-TAAT-TTTTTT-AATTTTATA
62 -TTTTAATTTTTTTTTTTTTAAATAGTAATTTAGGATTTAATAGAAATATTTTTTAAATTTT-TA
*
54635 TTATTTTTAAATGGTAATTTAAGATTTA
125 TTATTTTT-AATAGTAATTTAAGATTTA
*
54663 ATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTAGAGATTTAATATAAAATATGTT
1 ATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATAT-AAATAT-TT
*
54728 TGTAATTTTTTTTGTTCTTTAAATAGCAATTTA-GATTTAATAGAAAATATTTTTTAAAATTTTT
64 T-TAATTTTTTTT-TT-TTTAAATAGTAATTTAGGATTTAATAG-AAATATTTTTT-AAATTTTT
* *
54792 ATTATTTTTTAATAATAATTCAAGATTTA
124 ATTA-TTTTTAATAGTAATTTAAGATTTA
* *
54821 GTATAAAATATTTTTAAATTTTTTTTATTTTTAAATAGTAATTCGAGATTTAATATTAAATATAT
1 ATATAAAATATTTTT-AATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATA-T-AA-ATAT
*
54886 TTTTAATTTTAATTATTTTTT-AATAGTAATTTAGGATTTAATATGAAATATTTTTTAAATTTTT
62 TTTTAATTTT--TTTTTTTTTAAATAGTAATTTAGGATTTAATA-GAAATATTTTTTAAATTTTT
*
54950 ATTATTTTTAATTAGTAATTTTAGGATTTA
124 ATTATTTTTAA-TAGTAA-TTTAAGATTTA
* ** * **
54980 ATATTAGTTATTTTTAAATTTTA--A-GGTTAAATAGTAATTCGAGATTTAATATAAAT-TTTTT
1 ATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATATAAATATTTTT
* * * * *
55041 AAGTTTTTTATTATTTTAAATTGTAATTCAGGATTTAATTTGAAATATTTTTAAAATTTTTCATT
66 AA-TTTTTT-TTTTTTTAAATAGTAATTTAGGATTTAA-TAGAAATATTTTTTAAATTTTT-ATT
*
55106 ATTTTT-A-AGTAA-TTATGGATTTA
127 ATTTTTAATAGTAATTTA-AGATTTA
* * * * * *
55129 ATATAAAATA--TTT-A---TTA-T-TTTTTAAATAATAACTAGAGATTAAATTTGACATATTTT
1 ATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATAT-AAATATTTT
* * * *
55186 AAAATTTTTATTATTTTTAAATAGTATTTTTA-GATTTAATATGAAATATTTTTTATTATTTTTA
65 -TAATTTTT-TTTTTTTTAAATAGTA-ATTTAGGATTTAATA-GAAATATTTTTTA-AATTTTTA
55250 ATAGTAATTC
Statistics
Matches: 491, Mismatches: 59, Indels: 80
0.78 0.09 0.13
Matches are distributed among these distances:
143 3 0.01
144 21 0.04
145 4 0.01
146 42 0.09
147 15 0.03
148 3 0.01
149 30 0.06
150 21 0.04
151 23 0.05
152 59 0.12
153 20 0.04
154 12 0.02
155 37 0.08
156 4 0.01
157 13 0.03
158 69 0.14
159 98 0.20
160 10 0.02
161 7 0.01
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (151 bp):
ATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATATAAATATTTTT
AATTTTTTTTTTTTTAAATAGTAATTTAGGATTTAATAGAAATATTTTTTAAATTTTTATTATTT
TTAATAGTAATTTAAGATTTA
Found at i:54890 original size:18 final size:17
Alignment explanation
Indices: 54869--54943 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 17
54859 TAATTCGAGA
54869 TTTAATATTAAATATATT
1 TTTAATATTAAATAT-TT
* *
54887 TTTAATTTTAATTATTT
1 TTTAATATTAAATATTT
* * ***
54904 TTTAATAGTAATTTAGGA
1 TTTAATATTAA-ATATTT
*
54922 TTTAATATGAAATATTT
1 TTTAATATTAAATATTT
54939 TTTAA
1 TTTAA
54944 ATTTTTATTA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
17 18 0.42
18 25 0.58
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAATATTAAATATTT
Found at i:54915 original size:17 final size:18
Alignment explanation
Indices: 54869--54916 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
54859 TAATTCGAGA
*
54869 TTTAATATTAAATATATT
1 TTTAATATTAATTATATT
*
54887 TTTAATTTTAATTAT-TT
1 TTTAATATTAATTATATT
*
54904 TTTAATAGTAATT
1 TTTAATATTAATT
54917 TAGGATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTAATATTAATTATATT
Found at i:55221 original size:52 final size:53
Alignment explanation
Indices: 55132--55237 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 53
55122 GGATTTAATA
* *
55132 TAAAATATTTATTATTTTTTAAATAATAACTAGAGATTAAATTTGACATATTT
1 TAAAATATTTATTATTTTTTAAATAATAACTAGAGATTAAATATGAAATATTT
* * ** ** *
55185 TAAAATTTTTATTA-TTTTTAAATAGTATTTTTAGATTTAATATGAAATATTT
1 TAAAATATTTATTATTTTTTAAATAATAACTAGAGATTAAATATGAAATATTT
55237 T
1 T
55238 TTATTATTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
52 31 0.70
53 13 0.30
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (53 bp):
TAAAATATTTATTATTTTTTAAATAATAACTAGAGATTAAATATGAAATATTT
Found at i:55281 original size:95 final size:94
Alignment explanation
Indices: 55044--55282 Score: 263
Period size: 95 Copynumber: 2.5 Consensus size: 94
55034 ATTTTTTAAG
* *
55044 TTTTTTATTATTTTAAATTGTAATTC-AGGATTTAATTTGAAATATTTTTAAAATTTTTCATTAT
1 TTTTTTATTATTTTAAATAGTAATTCGA-GATTTAATTTG-AATTTTTTTAAAATTTTTCATTAT
*
55108 TTTTAAGTAATTATGGATTTAATATAAAATA
64 TTTTAAGTAATTATAGATTTAATATAAAATA
* * * * * *
55139 TTTATTATT-TTTTAAATAATAACTAGAGATTAAATTTGACA-TATTTTAAAATTTTT-ATTATT
1 TTTTTTATTATTTTAAATAGTAATTCGAGATTTAATTTGA-ATTTTTTTAAAATTTTTCATTATT
* * *
55201 TTTAAATAGTATTTTTAGATTTAATATGAAATA
65 TTT--A-AGTAATTATAGATTTAATATAAAATA
* *
55234 TTTTTTATTATTTTTAATAGTAATTCGAGATTTAATAT-AATTTTTTTAA
1 TTTTTTATTATTTTAAATAGTAATTCGAGATTTAATTTGAATTTTTTTAA
55283 TTCTTTAAGT
Statistics
Matches: 117, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
92 9 0.08
93 14 0.12
94 25 0.21
95 47 0.40
96 22 0.19
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (94 bp):
TTTTTTATTATTTTAAATAGTAATTCGAGATTTAATTTGAATTTTTTTAAAATTTTTCATTATTT
TTAAGTAATTATAGATTTAATATAAAATA
Found at i:55435 original size:54 final size:54
Alignment explanation
Indices: 55325--55451 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
55315 TTTTAAATGG
* * ** *
55325 TTTAAT-CTGAAATGTTTTTAAATTTTTTATTATTTTTAAATAGTAATTTGAGA
1 TTTAATACAGAAATATTTTTAAATTTTTTATTATTTTTAAATAGTAATTCAAAA
** *
55378 TTTAATA-AGAAATATTTTT-AATTTTTTATTAATTTTTTAAATTTTAGTTCAAAA
1 TTTAATACAGAAATATTTTTAAATTTTTTATT-A-TTTTTAAATAGTAATTCAAAA
55432 TTTAATACA-AAATAGTTTTT
1 TTTAATACAGAAATA-TTTTT
55452 GAAGTTGGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
52 11 0.18
53 17 0.28
54 27 0.44
55 6 0.10
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.54
Consensus pattern (54 bp):
TTTAATACAGAAATATTTTTAAATTTTTTATTATTTTTAAATAGTAATTCAAAA
Found at i:56833 original size:27 final size:27
Alignment explanation
Indices: 56767--56994 Score: 120
Period size: 27 Copynumber: 8.4 Consensus size: 27
56757 ATACAAAAGC
*
56767 TTAATTAACAAAT-TCATATGTAAAAAAAT
1 TTAATTAAAAAATCT-ATATGT--AAAAAT
* *
56796 TTGATTGAAAAATCTATATGTAAAAAT
1 TTAATTAAAAAATCTATATGTAAAAAT
* * *
56823 TTAATTAAAAATTCTAGAGGTAAAAAGT
1 TTAATTAAAAAATCTATATGTAAAAA-T
* * * * * *
56851 TTAAATAAAAATTTTATATGT-GAGAG
1 TTAATTAAAAAATCTATATGTAAAAAT
* * * * *
56877 TTAATTGAAAAATGTACATATAAAAGT
1 TTAATTAAAAAATCTATATGTAAAAAT
* * * * *
56904 TTAATTACAAATTTTATATATAAAAGT
1 TTAATTAAAAAATCTATATGTAAAAAT
* * *
56931 TTAATCAACAAATCTCATGTGTAAAAAT
1 TTAATTAAAAAATCT-ATATGTAAAAAT
* * * * *
56959 CTAATTAAAAATTCTTTAAGTAAAACT
1 TTAATTAAAAAATCTATATGTAAAAAT
56986 TTAA-TAAAA
1 TTAATTAAAA
56995 GTTTCATATA
Statistics
Matches: 148, Mismatches: 47, Indels: 11
0.72 0.23 0.05
Matches are distributed among these distances:
26 20 0.14
27 73 0.49
28 38 0.26
29 16 0.11
30 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (27 bp):
TTAATTAAAAAATCTATATGTAAAAAT
Found at i:59402 original size:2 final size:2
Alignment explanation
Indices: 59395--59430 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59385 AAATATAACG
59395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59431 CCAATCAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63157 original size:11 final size:11
Alignment explanation
Indices: 63141--63167 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
63131 ATTTTAATTT
63141 TTAAAATTAAA
1 TTAAAATTAAA
63152 TTAAAATTAAA
1 TTAAAATTAAA
63163 TTAAA
1 TTAAA
63168 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:63203 original size:28 final size:28
Alignment explanation
Indices: 63150--63205 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
63140 TTTAAAATTA
*
63150 AATTAAAATTAAATTAAATAATTTTTAT
1 AATTAAAATTAAATTAAATAAATTTTAT
* *
63178 AATT-AAATTAATTTGAATTAAATTTTAT
1 AATTAAAATTAAATT-AAATAAATTTTAT
63206 TGATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
AATTAAAATTAAATTAAATAAATTTTAT
Found at i:63335 original size:21 final size:22
Alignment explanation
Indices: 63311--63365 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 22
63301 ATATTATAAA
63311 AATTTAAAAATAATTA-AA-TTT
1 AATTT-AAAATAATTATAATTTT
63332 AA-TT-AAATAATTATAATTTTT
1 AATTTAAAATAATTATAA-TTTT
63353 AATTTATAAATAA
1 AATTTA-AAATAA
63366 AAAATAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 2 0.07
21 7 0.25
22 2 0.07
24 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTAAAATAATTATAATTTT
Found at i:65035 original size:12 final size:13
Alignment explanation
Indices: 65018--65057 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
65008 TTTACTATTT
65018 ATAATGAA-ATAA
1 ATAATGAATATAA
65030 ATAATGAATATAA
1 ATAATGAATATAA
*
65043 AT-AT-AATTTAA
1 ATAATGAATATAA
65054 ATAA
1 ATAA
65058 ATTAAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 8 0.32
12 11 0.44
13 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (13 bp):
ATAATGAATATAA
Found at i:65648 original size:16 final size:16
Alignment explanation
Indices: 65627--65690 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
65617 TGTTTTTTTT
65627 TTTATATCATATTATA
1 TTTATATCATATTATA
* *
65643 TTTATATTATTTTTTAATTA
1 TTTATATCA--TATT-A-TA
*
65663 TTTA-ATCATATTTTA
1 TTTATATCATATTATA
65678 TTTATATCATATT
1 TTTATATCATATT
65691 CAAAATGGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.16
16 16 0.42
17 3 0.08
18 3 0.08
19 4 0.11
20 6 0.16
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATATCATATTATA
Found at i:65650 original size:35 final size:34
Alignment explanation
Indices: 65604--65684 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 34
65594 GACGTATTCG
* * *
65604 TATATTAATATTGTGTTTTT-TTTTTTATATCATAT
1 TATATTTATATTAT-TTTTTATTATTTA-ATCATAT
65639 TATATTTATATTATTTTTTAATTATTTAATCATAT
1 TATATTTATATTATTTTTT-ATTATTTAATCATAT
*
65674 TTTATTTATAT
1 TATATTTATAT
65685 CATATTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 5 0.12
35 29 0.73
36 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (34 bp):
TATATTTATATTATTTTTTATTATTTAATCATAT
Found at i:69222 original size:155 final size:153
Alignment explanation
Indices: 68936--69297 Score: 395
Period size: 155 Copynumber: 2.3 Consensus size: 153
68926 GATGAAATTA
* * * * * *
68936 TCCCTAGGGAATATCTTCGATATAGAAGTACTCGATGCACCTAAAAGACTTAAAAAGGATTTTAA
1 TCCCTAGGGGATACCTTCGATATAAAAGTACTCGATACCCCTAAAGGACTT--AAAGGATTTTAA
* * * ** * *
69001 AAGGGATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAAACCCTCTGACAACTTATGAC
64 AAGAGATAAAACTATCCTAAATATCTACCTTCAGCATAAAAGCAAACCCTCTGACAACCTAGGAC
*
69066 TCGATTCTAAAAAATTACCAAAATG
129 TCGATTCTAAAAAATTACAAAAATG
* *
69091 TCCCTAGGGGATACCTTCGATATAAAAGTACCCGATACCCCCTAAAGGACTTAAAGGATTTATAG
1 TCCCTAGGGGATACCTTCGATATAAAAGTACTCGATA-CCCCTAAAGGACTTAAAGGATTT-TAA
* * *** * *
69156 ATGAGATAAAACTATCTTAAATATCTACCTTCAGCATAAAAGTGGA-CCTGGTGATAACCTAGGA
64 AAGAGATAAAACTATCCTAAATATCTACCTTCAGCATAAAAGCAAACCCT-CTGACAACCTAGGA
*
69220 CTCGATTCTGAAAAATTACAAAAATG
128 CTCGATTCTAAAAAATTACAAAAATG
* * * * *
69246 -CCTCAAGGGGATACCTTCGTTGTAAAAGTACTCGGTACCCTTAAAGGACTTA
1 TCC-CTAGGGGATACCTTCGATATAAAAGTACTCGATACCCCTAAAGGACTTA
69298 GGATAATGCT
Statistics
Matches: 173, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
154 28 0.16
155 133 0.77
156 12 0.07
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (153 bp):
TCCCTAGGGGATACCTTCGATATAAAAGTACTCGATACCCCTAAAGGACTTAAAGGATTTTAAAA
GAGATAAAACTATCCTAAATATCTACCTTCAGCATAAAAGCAAACCCTCTGACAACCTAGGACTC
GATTCTAAAAAATTACAAAAATG
Found at i:71417 original size:165 final size:162
Alignment explanation
Indices: 71225--71713 Score: 559
Period size: 165 Copynumber: 2.9 Consensus size: 162
71215 TCCAAAACTC
*
71225 ATAAAAATGAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTCGATGGATTT
1 ATAAAAATGAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATT-GATGAATTT
* *
71290 TAAAAACTAAAAACCAAGAAAAAACCCATCGAAAAAATTTACGGAGTAGAAAACTCCATCTTTTT
65 TAAAAATTAAAAACCAAGAAAAATCCC-TCGAAAAAATTTACGGAGTAGAAAACTCCAT-TTTTT
**
71355 G-AAATAAGGGAATTTCAAAAAAAATTCAAAAATGA
128 GAAAATAA-GGAATTTCAAAAAAAATTCAAAAACCA
* * * * *
71390 ATGAAAATGAATGAATTTTTCAAAACTAATATATTATGAAATAAATAATAATAATTAATGAATTT
1 ATAAAAATGAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAAT-ATTGATGAATTT
* * * ** *
71455 TAAAAATTAAAAATCAAGAAAAATCTCCCCGAAAAAATTTACGAAGTAGAAAACTTTATTTTTCG
65 TAAAAATTAAAAACCAAGAAAAATC-CCTCGAAAAAATTTACGGAGTAGAAAACTCCATTTTTTG
* *
71520 AAAACATAA-GAATTTCAAGGAAAAATTCAAAAACCT
129 -AAA-ATAAGGAATTTCAA-AAAAAATTCAAAAACCA
* * * *
71556 ATAAAAATGAATGAATTTTTGAAAACTGATTCAATATGTATTAAATAATAATATTTGATGAATTT
1 ATAAAAATGAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATA-TTGATGAATTT
* * * * * *
71621 TAAAAATTTTAAACCCATGAAAAATTCCCCTCGAAAATATTTACGGAATAGAAAACTCCATATTT
65 TAAAAA-TTAAAAACCAAGAAAAA-T-CCCTCGAAAAAATTTACGGAGTAGAAAACTCCATTTTT
* *
71686 TGAAAATAAGAAAAATTTCAAAGAAAAT
127 TGAAAATAAG--GAATTTCAAAAAAAAT
71714 CAATAACTCG
Statistics
Matches: 269, Mismatches: 42, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
164 5 0.02
165 114 0.42
166 84 0.31
167 20 0.07
168 37 0.14
169 9 0.03
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.30
Consensus pattern (162 bp):
ATAAAAATGAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTGATGAATTTT
AAAAATTAAAAACCAAGAAAAATCCCTCGAAAAAATTTACGGAGTAGAAAACTCCATTTTTTGAA
AATAAGGAATTTCAAAAAAAATTCAAAAACCA
Found at i:75988 original size:58 final size:57
Alignment explanation
Indices: 75898--76149 Score: 240
Period size: 57 Copynumber: 4.4 Consensus size: 57
75888 GAATGATGCC
** * * * *
75898 AAAATACATGAAATTATATAATAGTTCC-TAAAACATAAAAAATGACTAAAATGGTTTT
1 AAAATACATGAAATTGCATAA-A-ATCCTTAAAACATGAAAAATGACTAAAATGATCTT
* * *
75956 AAAATATATGAAATTGCATAGAAATCCTTAAAACATG-AAAATGATTAAAATTATCTT
1 AAAATACATGAAATTGCATA-AAATCCTTAAAACATGAAAAATGACTAAAATGATCTT
* * ** * *
76013 AAAATGCATGAAATTGAATAAAAATATTTAAAATATGAAAAATGGCTAAAATGATCTT
1 AAAATACATGAAATTGCAT-AAAATCCTTAAAACATGAAAAATGACTAAAATGATCTT
* ** ** *
76071 AAAATGA-ATGAAATTGCATAAAAACCTTTTAACATGGCAAATTACTAAAATGATCTT
1 AAAAT-ACATGAAATTGCATAAAATCCTTAAAACATGAAAAATGACTAAAATGATCTT
*
76128 AAAATGCATGAAATTGCATAAA
1 AAAATACATGAAATTGCATAAA
76150 TGGTCATAAA
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
57 96 0.61
58 60 0.38
59 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (57 bp):
AAAATACATGAAATTGCATAAAATCCTTAAAACATGAAAAATGACTAAAATGATCTT
Found at i:76044 original size:29 final size:28
Alignment explanation
Indices: 75953--76052 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 28
75943 CTAAAATGGT
* * * *
75953 TTTAAAATATATGAAATTGCATAGAAATC
1 TTTAAAAT-CATGAAATTGAATAAAAATA
* * * *
75982 CTTAAAA-CATGAAAATGATTAAAATTA
1 TTTAAAATCATGAAATTGAATAAAAATA
76009 TCTTAAAATGCATGAAATTGAATAAAAATA
1 T-TTAAAAT-CATGAAATTGAATAAAAATA
76039 TTTAAAAT-ATGAAA
1 TTTAAAATCATGAAA
76053 AATGGCTAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
27 19 0.34
28 6 0.11
29 13 0.23
30 18 0.32
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (28 bp):
TTTAAAATCATGAAATTGAATAAAAATA
Found at i:76143 original size:115 final size:115
Alignment explanation
Indices: 75926--76149 Score: 299
Period size: 115 Copynumber: 1.9 Consensus size: 115
75916 TAATAGTTCC
* * *
75926 TAAAACATAAAAAATGACTAAAATGGTTTTAAAATATATGAAATTGCATAGAAATCCTTAAAACA
1 TAAAACATAAAAAATGACTAAAATGATCTTAAAATATATGAAATTGCATAGAAAACCTTAAAACA
* *
75991 TGAAAATGATTAAAATTATCTTAAAATGCATGAAATTGAATAAAAATATT
66 TGAAAATGACTAAAATGATCTTAAAATGCATGAAATTGAATAAAAATATT
* * * **
76041 TAAAATATGAAAAATGGCTAAAATGATCTTAAAATGA-ATGAAATTGCATA-AAAACCTTTTAAC
1 TAAAACATAAAAAATGACTAAAATGATCTTAAAAT-ATATGAAATTGCATAGAAAACCTTAAAAC
* * *
76104 ATGGCAAATTACTAAAATGATCTTAAAATGCATGAAATTGCATAAA
65 AT-GAAAATGACTAAAATGATCTTAAAATGCATGAAATTGAATAAA
76150 TGGTCATAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
114 12 0.13
115 81 0.86
116 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (115 bp):
TAAAACATAAAAAATGACTAAAATGATCTTAAAATATATGAAATTGCATAGAAAACCTTAAAACA
TGAAAATGACTAAAATGATCTTAAAATGCATGAAATTGAATAAAAATATT
Found at i:76151 original size:29 final size:29
Alignment explanation
Indices: 75944--76149 Score: 112
Period size: 29 Copynumber: 7.1 Consensus size: 29
75934 AAAAAATGAC
* * *
75944 TAAAATGGTTTTAAAATATATGAAATTGCA
1 TAAAATGATCTTAAAAT-CATGAAATTGCA
* *
75974 TAGAAAT--CCTTAAAA-CATGAAAATG-A
1 TA-AAATGATCTTAAAATCATGAAATTGCA
* *
76000 TTAAAATTATCTTAAAATGCATGAAATTGAA
1 -TAAAATGATCTTAAAAT-CATGAAATTGCA
*
76031 TAAAAAT-AT-TTAAAAT-ATGAAAAATGGC-
1 T-AAAATGATCTTAAAATCATG--AAATTGCA
*
76059 TAAAATGATCTTAAAATGAATGAAATTGCA
1 TAAAATGATCTTAAAAT-CATGAAATTGCA
* ** *
76089 TAAAA--ACCTTTTAA-CATGGCAAATTAC-
1 TAAAATGATCTTAAAATCAT-G-AAATTGCA
76116 TAAAATGATCTTAAAATGCATGAAATTGCA
1 TAAAATGATCTTAAAAT-CATGAAATTGCA
76146 TAAA
1 TAAA
76150 TGGTCATAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
26 7 0.05
27 24 0.18
28 22 0.16
29 43 0.32
30 24 0.18
31 16 0.12
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (29 bp):
TAAAATGATCTTAAAATCATGAAATTGCA
Found at i:76257 original size:58 final size:57
Alignment explanation
Indices: 76101--76240 Score: 174
Period size: 58 Copynumber: 2.4 Consensus size: 57
76091 AAAACCTTTT
* *
76101 AACATGGCAAATTACTAAAATGATCTTAAAATGCATGAAATTGCATAAATGGTCATAA
1 AACATGGCAAATTACTAAAATGATC-TAAAATGCATGAAATGGCATAAAGGGTCATAA
* * * * * *
76159 AACATAGCATATTATTAGAATAACTTTAAAATGCATGAAATGGCATAAAGGGT-ATTAA
1 AACATGGCAAATTACTAAAATGA-TCTAAAATGCATGAAATGGCATAAAGGGTCA-TAA
76217 AACATGGCAAATTACTAAAATGAT
1 AACATGGCAAATTACTAAAATGAT
76241 GCAAAAATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
57 2 0.03
58 64 0.96
59 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (57 bp):
AACATGGCAAATTACTAAAATGATCTAAAATGCATGAAATGGCATAAAGGGTCATAA
Found at i:76333 original size:58 final size:57
Alignment explanation
Indices: 76270--76429 Score: 171
Period size: 58 Copynumber: 2.8 Consensus size: 57
76260 CTTAATAACC
*
76270 TCTAAATCATGAAAAATTACTAAAATGACCTTAAAGTATATGAGAATGCATAAATGG
1 TCTAAATCATGAAAAATTACTAAAATGACCTTAAAGTATATGAAAATGCATAAATGG
** * ** * *
76327 TACTAAAGGAAGGCAAATTACTAAAGTGACCTTAAAATATATGAAAATGCATAAATGG
1 T-CTAAATCATGAAAAATTACTAAAATGACCTTAAAGTATATGAAAATGCATAAATGG
* * * *
76385 TC-ATAATCATGAAAATTTATTAAAAT-AGCATTAAAGTGTATGAAA
1 TCTA-AATCATGAAAAATTACTAAAATGA-CCTTAAAGTATATGAAA
76430 TAATATAAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
56 2 0.02
57 30 0.37
58 49 0.60
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.28
Consensus pattern (57 bp):
TCTAAATCATGAAAAATTACTAAAATGACCTTAAAGTATATGAAAATGCATAAATGG
Found at i:78932 original size:20 final size:19
Alignment explanation
Indices: 78898--78937 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
78888 GATATTACAA
78898 ATTTATATAGTATTTTGTAT
1 ATTTATATAGTA-TTTGTAT
78918 ATTTATATA-TGATTTGTAT
1 ATTTATATAGT-ATTTGTAT
78937 A
1 A
78938 CAATTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTTATATAGTATTTGTAT
Found at i:82763 original size:17 final size:17
Alignment explanation
Indices: 82741--82775 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
82731 TATCCACAAT
82741 ATTCACTATATTTATGC
1 ATTCACTATATTTATGC
82758 ATTCACTATATTTATGC
1 ATTCACTATATTTATGC
82775 A
1 A
82776 CAATGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTCACTATATTTATGC
Found at i:88877 original size:2 final size:2
Alignment explanation
Indices: 88870--88910 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
88860 GTTGCTCCCA
88870 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
88911 GGTTTACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:89789 original size:2 final size:2
Alignment explanation
Indices: 89773--89814 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
89763 TTCATAGCCC
*
89773 TA TA CA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89814 T
1 T
89815 CTTATGGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91875 original size:8 final size:8
Alignment explanation
Indices: 91864--91918 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
91854 AATAATAAGT
91864 AAAAAATA
1 AAAAAATA
91872 AAAAAATA
1 AAAAAATA
91880 AAAAAATA
1 AAAAAATA
91888 TAAAAAA-A
1 -AAAAAATA
** *
91896 TCAAATTA
1 AAAAAATA
91904 AAAAAATA
1 AAAAAATA
91912 ATAAAAA
1 A-AAAAA
91919 ATAATTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 3 0.08
8 24 0.63
9 11 0.29
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAAATA
Found at i:91884 original size:10 final size:10
Alignment explanation
Indices: 91871--91931 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 10
91861 AGTAAAAAAT
91871 AAAAAAATAA
1 AAAAAAATAA
*
91881 AAAAATATAAA
1 AAAAAAAT-AA
91892 AAAATCAAATTAA
1 AAAA--AAA-TAA
91905 AAAAATAATAA
1 AAAAA-AATAA
*
91916 AAAATAATTAA
1 AAAA-AAATAA
91927 AAAAA
1 AAAAA
91932 TCAATTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.19
11 22 0.52
12 3 0.07
13 8 0.19
14 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:91892 original size:24 final size:25
Alignment explanation
Indices: 91847--91919 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 25
91837 TATTCAATGT
* *
91847 AAAATATAATAATAAGT-AAAAAATA
1 AAAATAAAAAAATAA-TAAAAAAATA
* *
91872 AAAA-AATAAAAAAATATAAAAAAATC
1 AAAATAA-AAAAATA-ATAAAAAAATA
*
91898 AAATTAAAAAAATAATAAAAAA
1 AAAATAAAAAAATAATAAAAAA
91920 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
24 1 0.03
25 18 0.47
26 17 0.45
27 2 0.05
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (25 bp):
AAAATAAAAAAATAATAAAAAAATA
Found at i:91912 original size:22 final size:21
Alignment explanation
Indices: 91864--91932 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
91854 AATAATAAGT
91864 AAAAAATAAAAAAAT-AA--A
1 AAAAAATAAAAAAATAAATTA
*
91882 AAAATATAAAAAAATCAAATTA
1 AAAAAATAAAAAAAT-AAATTA
91904 AAAAAATAATAAAAA-ATAATTA
1 AAAAAATAA-AAAAATA-AATTA
91926 AAAAAAT
1 AAAAAAT
91933 CAATTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.33
20 2 0.05
21 1 0.02
22 21 0.49
23 5 0.12
ACGTcount: A:0.80, C:0.01, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAAATAAAAAAATAAATTA
Found at i:91920 original size:24 final size:22
Alignment explanation
Indices: 91871--91932 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
91861 AGTAAAAAAT
91871 AAAAA-AA-TAAAAAAATATAA
1 AAAAATAATTAAAAAAATATAA
91891 AAAAATCAAATTAAAAAAATA-ATA
1 AAAAAT--AATTAAAAAAATATA-A
91915 AAAAATAATTAAAAAAAT
1 AAAAATAATTAAAAAAAT
91933 CAATTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.14
22 12 0.32
23 3 0.08
24 17 0.46
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAAATAATTAAAAAAATATAA
Found at i:91929 original size:35 final size:33
Alignment explanation
Indices: 91870--91945 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 33
91860 AAGTAAAAAA
91870 TAAAAAAATAAAAAAATAT-AAAAAAATCAAAT
1 TAAAAAAATAAAAAAATATAAAAAAAATCAAAT
* *
91902 TAAAAAAATAATAAAAAATAATTAAAAAAATCAATT
1 TAAAAAAAT-A-AAAAAAT-ATAAAAAAAATCAAAT
91938 TAAAAAAA
1 TAAAAAAA
91946 AGAGGGGAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 9 0.23
33 1 0.03
34 7 0.18
35 2 0.05
36 20 0.51
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (33 bp):
TAAAAAAATAAAAAAATATAAAAAAAATCAAAT
Found at i:91930 original size:13 final size:13
Alignment explanation
Indices: 91888--91945 Score: 70
Period size: 14 Copynumber: 4.6 Consensus size: 13
91878 TAAAAAAATA
91888 TAAAAAAATCAAAT
1 TAAAAAAATC-AAT
91902 TAAAAAAAT-AA-
1 TAAAAAAATCAAT
91913 T-AAAAAAT-AAT
1 TAAAAAAATCAAT
91924 TAAAAAAATCAATT
1 TAAAAAAATCAA-T
91938 TAAAAAAA
1 TAAAAAAA
91946 AGAGGGGAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.22
11 2 0.05
12 9 0.22
13 2 0.05
14 18 0.45
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAAAAATCAAT
Found at i:91940 original size:14 final size:12
Alignment explanation
Indices: 91878--91945 Score: 72
Period size: 10 Copynumber: 5.7 Consensus size: 12
91868 AATAAAAAAA
91878 TAAAAAAAT-A-
1 TAAAAAAATAAT
91888 TAAAAAAATCAAAT
1 TAAAAAAAT--AAT
91902 TAAAAAAATAA-
1 TAAAAAAATAAT
91913 T-AAAAAATAAT
1 TAAAAAAATAAT
91924 TAAAAAAATCAATT
1 TAAAAAAAT-AA-T
91938 TAAAAAAA
1 TAAAAAAA
91946 AGAGGGGAGC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
10 18 0.36
11 2 0.04
12 9 0.18
13 3 0.06
14 18 0.36
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAAAATAAT
Found at i:92323 original size:16 final size:16
Alignment explanation
Indices: 92302--92332 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
92292 AAAAATATAT
92302 AATAATAATAAATAAA
1 AATAATAATAAATAAA
92318 AATAATAATAAATAA
1 AATAATAATAAATAA
92333 CGGACAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAATAAATAAA
Found at i:92555 original size:10 final size:10
Alignment explanation
Indices: 92536--92624 Score: 51
Period size: 10 Copynumber: 9.0 Consensus size: 10
92526 AGCGATCACC
*
92536 GCAACCTCCA
1 GCAACTTCCA
92546 GCAACTTCCA
1 GCAACTTCCA
*
92556 GCAGCTTCCA
1 GCAACTTCCA
* *
92566 GCAGCTCCCA
1 GCAACTTCCA
*
92576 TGGCAGCCTT-CA
1 --GCA-ACTTCCA
*
92588 GCAGC-T-CA
1 GCAACTTCCA
*
92596 GCAATTTCCA
1 GCAACTTCCA
92606 GCAAC-TCCA
1 GCAACTTCCA
*
92615 GCAGCTTCCA
1 GCAACTTCCA
92625 CGGCAGCCTC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.10
9 10 0.16
10 40 0.63
12 5 0.08
13 2 0.03
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.18
Consensus pattern (10 bp):
GCAACTTCCA
Found at i:92664 original size:31 final size:31
Alignment explanation
Indices: 92605--92665 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
92595 AGCAATTTCC
* * *
92605 AGCAACTCCAGCAGCTTCCACGGCAGCCTCT
1 AGCAACTCCAACAGCTCCCACGACAGCCTCT
*
92636 AGCAACTCCAACAGCTCCCACGATAGCCTC
1 AGCAACTCCAACAGCTCCCACGACAGCCTC
92666 CAATAGCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.43, G:0.16, T:0.15
Consensus pattern (31 bp):
AGCAACTCCAACAGCTCCCACGACAGCCTCT
Found at i:92766 original size:124 final size:123
Alignment explanation
Indices: 92604--92868 Score: 325
Period size: 124 Copynumber: 2.1 Consensus size: 123
92594 CAGCAATTTC
* *
92604 CAGCAACTCCAGCAGCTTCCACGGCAGCCTCTAGCAACTCCAACAGCTCCCACGATAGCCTCCAA
1 CAGCAACTCCAGCAGCTTCCACGGCAGCCTCCAACAACTCCAACAGCTCCCACGATAGCCTCCAA
* * * * * *
92669 TAGCTCAGCAA-CCACGAGCAGCCCCCACAGCTCCTACGGTAACTTTCAGCAGCTCCCA
66 CAGCTCAGCAATCC-CGAGCAGCCCCCACAACTCCCACAGCAACTTCCAGCAGCTCCCA
* * * * * *
92727 CAGCAACTTTCAGCAGCTTGCATGGTAGCCTCCAACAACTCCAGCAGCTCCCACGGTAGCCTCCA
1 CAGCAAC-TCCAGCAGCTTCCACGGCAGCCTCCAACAACTCCAACAGCTCCCACGATAGCCTCCA
* * *
92792 ACAGCTCAGCAATCCTGAGCAGCTCCCACAACTCCCACAGCAACTTCCAGCAGCTTCCA
65 ACAGCTCAGCAATCCCGAGCAGCCCCCACAACTCCCACAGCAACTTCCAGCAGCTCCCA
* *
92851 CGGCAGCCTCCAGCAGCT
1 CAGCA-ACTCCAGCAGCT
92869 CCAGCAGCTC
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
123 7 0.06
124 109 0.92
125 3 0.03
ACGTcount: A:0.26, C:0.42, G:0.17, T:0.15
Consensus pattern (123 bp):
CAGCAACTCCAGCAGCTTCCACGGCAGCCTCCAACAACTCCAACAGCTCCCACGATAGCCTCCAA
CAGCTCAGCAATCCCGAGCAGCCCCCACAACTCCCACAGCAACTTCCAGCAGCTCCCA
Found at i:92772 original size:31 final size:30
Alignment explanation
Indices: 92736--92802 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
92726 ACAGCAACTT
** *
92736 TCAGCAGCTTGCATGGTAGCCTCCAACAAC
1 TCAGCAGCTCCCACGGTAGCCTCCAACAAC
*
92766 TCCAGCAGCTCCCACGGTAGCCTCCAACAGC
1 T-CAGCAGCTCCCACGGTAGCCTCCAACAAC
92797 TCAGCA
1 TCAGCA
92803 ATCCTGAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.25, C:0.39, G:0.19, T:0.16
Consensus pattern (30 bp):
TCAGCAGCTCCCACGGTAGCCTCCAACAAC
Found at i:92848 original size:10 final size:10
Alignment explanation
Indices: 92829--92877 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
92819 ACAACTCCCA
*
92829 CAGCAACTTC
1 CAGCAGCTTC
92839 CAGCAGCTTC
1 CAGCAGCTTC
*
92849 CACGGCAGCCTC
1 CA--GCAGCTTC
92861 CAGCAGC-TC
1 CAGCAGCTTC
92870 CAGCAGCT
1 CAGCAGCT
92878 CAACTCCCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.26
10 16 0.47
12 9 0.26
ACGTcount: A:0.22, C:0.43, G:0.20, T:0.14
Consensus pattern (10 bp):
CAGCAGCTTC
Found at i:92851 original size:22 final size:21
Alignment explanation
Indices: 92826--92876 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
92816 CCCACAACTC
*
92826 CCACAGCAACTTCCAGCAGCTT
1 CCACAGCAACCTCCAGCAGC-T
* *
92848 CCACGGCAGCCTCCAGCAGCT
1 CCACAGCAACCTCCAGCAGCT
92869 CCAGCAGC
1 CCA-CAGC
92877 TCAACTCCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.24, C:0.45, G:0.20, T:0.12
Consensus pattern (21 bp):
CCACAGCAACCTCCAGCAGCT
Found at i:99556 original size:222 final size:222
Alignment explanation
Indices: 99170--99617 Score: 878
Period size: 222 Copynumber: 2.0 Consensus size: 222
99160 GGCAGATCTA
99170 GCTAGTGCCTTTCTGCAACAATTTAAGCACATGGTAGAATAGGTACCGGATAGGTTAACTCTCTA
1 GCTAGTGCCTTTCTGCAACAATTTAAGCACATGGTAGAATAGGTACCGGATAGGTTAACTCTCTA
99235 AAACATGAAAAAGAAATCAATAGAATAATTTAAGGAATATGCCCAAAGATGGAGAGACCTTGCTT
66 AAACATGAAAAAGAAATCAATAGAATAATTTAAGGAATATGCCCAAAGATGGAGAGACCTTGCTT
*
99300 CTTAGGTCCAGCCATCCCTAACTGAGAAAGAAACGACAATGCTATTTGTCAATACCTTGCAGCCA
131 CTCAGGTCCAGCCATCCCTAACTGAGAAAGAAACGACAATGCTATTTGTCAATACCTTGCAGCCA
99365 CCTTACTACGACAAGTTGGTGAGAAAC
196 CCTTACTACGACAAGTTGGTGAGAAAC
99392 GCTAGTGCCTTTCTGCAACAATTTAAGCACATGGTAGAATAGGTACCGGATAGGTTAACTCTCTA
1 GCTAGTGCCTTTCTGCAACAATTTAAGCACATGGTAGAATAGGTACCGGATAGGTTAACTCTCTA
99457 AAACATGAAAAAGAAATCAATAGAATAATTTAAGGAATATGCCCAAAGATGGAGAGACCTTGCTT
66 AAACATGAAAAAGAAATCAATAGAATAATTTAAGGAATATGCCCAAAGATGGAGAGACCTTGCTT
*
99522 CTCAGGTCCAGCCATTCCTAACTGAGAAAGAAACGACAATGCTATTTGTCAATACCTTGCAGCCA
131 CTCAGGTCCAGCCATCCCTAACTGAGAAAGAAACGACAATGCTATTTGTCAATACCTTGCAGCCA
99587 CCTTACTACGACAAGTTGGTGAGAAAC
196 CCTTACTACGACAAGTTGGTGAGAAAC
99614 GCTA
1 GCTA
99618 CCAAAAACTT
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 224 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (222 bp):
GCTAGTGCCTTTCTGCAACAATTTAAGCACATGGTAGAATAGGTACCGGATAGGTTAACTCTCTA
AAACATGAAAAAGAAATCAATAGAATAATTTAAGGAATATGCCCAAAGATGGAGAGACCTTGCTT
CTCAGGTCCAGCCATCCCTAACTGAGAAAGAAACGACAATGCTATTTGTCAATACCTTGCAGCCA
CCTTACTACGACAAGTTGGTGAGAAAC
Found at i:107242 original size:42 final size:42
Alignment explanation
Indices: 106760--107431 Score: 432
Period size: 42 Copynumber: 16.0 Consensus size: 42
106750 TATTAAACTT
* * * *
106760 CTGGAGACTTTCTTTCCCTTAGTTTGTCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* * * * *
106802 TTGGAGACTTTCTTTCCCTCAGCCTGCCTGTCAGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* * * * *
106844 CTAGAAACTTTCTTTCCCTTAGTCTGCCTGTCAGCTATGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* * *
106886 TTGGAGACTTTCCTACCCTTCAGTCTGCCTATCAGCTTTGATC
1 CTGGAGACTTTCCTACCCTT-AGTCTGCCTGTCAGCTTTGACC
* * ** * *
106929 CTAGAGA-TTACCT-CATTTAAAGTCTGCCTATCAACTTTGACC
1 CTGGAGACTTTCCTACCCTT--AGTCTGCCTGTCAGCTTTGACC
* * * *
106971 TTGGAGACTTTCCTATCCCTCAGTCTGCCTGTCGGCTTTAACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCAGCTTTGACC
* * * *
107014 CAGGAGACTTTCCTATCCC--AATCTGCCCGTCGGCTTTGACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCAGCTTTGACC
* * * * * *
107055 TTAGG-GACTTTCTTTCCCTCAGTCTGCTTGTTAGCTTTGACC
1 CT-GGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* *
107097 CTAGAGACTTTCCTACCTTTAGTCTGCCTGTC-GACTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAG-CTTTGACC
* * * * *
107139 CTAGAGACTTTCTTACCCTTAGTCTGCCTGTCGGCTCTGACT
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
** * *
107181 CTAAAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* * * * ** *
107223 CTGGAAACTTTTCTACCCTTCAGTTTGTC-GTTGGCTTTGATC
1 CTGGAGACTTTCCTACCCTT-AGTCTGCCTGTCAGCTTTGACC
* * * * * *
107265 TTGGAGAC-TACCT-CATCTAAAGTCTGCCTGTCGGCTTTAACC
1 CTGGAGACTTTCCTAC-CCT-TAGTCTGCCTGTCAGCTTTGACC
* * * * *
107307 CTGGAGAC-TACCT-CATCTAAAGTCT-CTCTGCCGGCTTTGACC
1 CTGGAGACTTTCCTAC-CCT-TAGTCTGC-CTGTCAGCTTTGACC
* * * **
107349 TTGGAGACTTTCCTATCCTCAGTCTGCCTGTTGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
* * * * * * *
107391 ATGAAGACTTTCTTATCCTTCAGTCTACCCGTCGGCTTTGA
1 CTGGAGACTTTCCTACCCTT-AGTCTGCCTGTCAGCTTTGA
107432 TCTTGGGGAT
Statistics
Matches: 505, Mismatches: 105, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
40 4 0.01
41 44 0.09
42 360 0.71
43 95 0.19
45 2 0.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (42 bp):
CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACC
Found at i:107273 original size:84 final size:84
Alignment explanation
Indices: 106763--107431 Score: 500
Period size: 84 Copynumber: 7.9 Consensus size: 84
106753 TAAACTTCTG
* * * * * *
106763 GAGACTTTCTTTCCCTTAGTTTGTCTGTCAGCTTTGACCTTGGAGACTTTCTTTCCCTCAGCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTG
106828 CCTGTCAGCTTTGACCCTA
66 CCTGTCAGCTTTGACCCTA
* * * * *
106847 GAAACTTTCTTTCCCTTAGTCTGCCTGTCAGCTATGACCTTGGAGACTTTCCTACCCTTCAGTCT
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCC-TCAGTCT
* *
106912 GCCTATCAGCTTTGATCCTA
65 GCCTGTCAGCTTTGACCCTA
* ** * ** *
106932 GAGA-TTACC-TCATTTAAAGTCTGCCTATCAACTTTGACCTTGGAGACTTTCCTATCCCTCAGT
1 GAGACTTTCCTTCCCTT--AGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTA-CCCTCAGT
* *
106995 CTGCCTGTCGGCTTTAACCC-A
63 CTGCCTGTCAGCTTTGACCCTA
* * *
107016 GGAGACTTTCCTATCCC--AATCTGCCCGTCGGCTTTGACCTTAGG-GACTTTCTTTCCCTCAGT
1 -GAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCTT-GGAGACTTTCTTACCCTCAGT
* *
107078 CTGCTTGTTAGCTTTGACCCTA
63 CTGCCTGTCAGCTTTGACCCTA
* * * * * *
107100 GAGACTTTCCTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTCTTACCCTTAGTCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTG
* * *
107165 CCTGTCGGCTCTGACTCTA
66 CCTGTCAGCTTTGACCCTA
* * * *
107184 AAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAAACTTT-TCTACCCTTCAGTT
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCT-TACCC-TCAGTC
* ** * * *
107248 TGTC-GTTGGCTTTGATCTTG
64 TGCCTGTCAGCTTTGACCCTA
* * * * * ** * * *
107268 GAGAC-TACC-TCATCTAAAGTCTGCCTGTCGGCTTTAACCCTGGAGACTACCTCA-TCTAAAGT
1 GAGACTTTCCTTC-CCT-TAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCCT-CAGT
* * * *
107330 CT-CTCTGCCGGCTTTGACCTTG
63 CTGC-CTGTCAGCTTTGACCCTA
* * * * *
107352 GAGACTTTCCTAT-CCTCAGTCTGCCTGTTGGCTTTGACCATGAAGACTTTCTTATCCTTCAGTC
1 GAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTA-CCCTCAGTC
* * *
107416 TACCCGTCGGCTTTGA
64 TGCCTGTCAGCTTTGA
107432 TCTTGGGGAT
Statistics
Matches: 463, Mismatches: 95, Indels: 53
0.76 0.16 0.09
Matches are distributed among these distances:
82 5 0.01
83 52 0.11
84 277 0.60
85 117 0.25
86 9 0.02
87 1 0.00
88 2 0.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (84 bp):
GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTG
CCTGTCAGCTTTGACCCTA
Found at i:107994 original size:36 final size:38
Alignment explanation
Indices: 107944--108019 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 38
107934 TGTAAAATAT
**
107944 AATAATAAGTAAAAT-ATCAAAAAAATCAA-ATTAAAA
1 AATAATAACAAAAATAATCAAAAAAATCAATATTAAAA
** *
107980 AATAATAACAAAAATAATTTAAAAAATCAATTTTAAAA
1 AATAATAACAAAAATAATCAAAAAAATCAATATTAAAA
108018 AA
1 AA
108020 AGATGGGAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 13 0.39
37 12 0.36
38 8 0.24
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (38 bp):
AATAATAACAAAAATAATCAAAAAAATCAATATTAAAA
Found at i:108004 original size:12 final size:13
Alignment explanation
Indices: 107963--108019 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
107953 TAAAATATCA
*
107963 AAAAAATCAAATT
1 AAAAAATCAATTT
*
107976 AAAAAAT-AA-TA
1 AAAAAATCAATTT
107987 ACAAAAAT-AATTT
1 A-AAAAATCAATTT
108000 AAAAAATCAATTTT
1 AAAAAATCAA-TTT
108014 AAAAAA
1 AAAAAA
108020 AGATGGGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 2 0.05
12 16 0.42
13 11 0.29
14 9 0.24
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAATCAATTT
Found at i:108112 original size:43 final size:41
Alignment explanation
Indices: 108051--108133 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
108041 AGGATTTGTA
* * * *
108051 GCCACCTAATTGACTTAGGTGGCATTGCATTGCATTGCATGCT
1 GCCACCTAAATCAATTAGGTGGCAATGCA-TGCATT-CATGCT
108094 GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGC
1 GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGC
108134 ATGAAATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 5 0.14
42 6 0.17
43 25 0.69
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGCT
Found at i:108428 original size:20 final size:21
Alignment explanation
Indices: 108398--108436 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
108388 TGCTGCAAAA
108398 AAAATATAATAATAAATAAAT
1 AAAATATAATAATAAATAAAT
108419 AAAA-ATAATAATAAATAA
1 AAAATATAATAATAAATAA
108437 CAGACAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATATAATAATAAATAAAT
Found at i:108723 original size:10 final size:10
Alignment explanation
Indices: 108708--108830 Score: 65
Period size: 10 Copynumber: 12.1 Consensus size: 10
108698 CACCGTAACC
*
108708 TCCAGCAACT
1 TCCAGCAGCT
108718 TCCAGCAGCT
1 TCCAGCAGCT
* *
108728 CCCACGGTAGCT
1 TCCA--GCAGCT
*
108740 TCCAGCATC-
1 TCCAGCAGCT
*
108749 T-CAGCAACT
1 TCCAGCAGCT
108758 TCCAGCAGC-
1 TCCAGCAGCT
108767 TCCAGCAGCT
1 TCCAGCAGCT
* *
108777 TCCATGACAACC
1 TCCA-G-CAGCT
*
108789 TCCAGTAGC-
1 TCCAGCAGCT
108798 TCCAGCAGCT
1 TCCAGCAGCT
* *
108808 CCCACAACAGCT
1 -TC-CAGCAGCT
*
108820 TCCAACAGCT
1 TCCAGCAGCT
108830 T
1 T
108831 AGCAACCATG
Statistics
Matches: 87, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
8 6 0.07
9 19 0.22
10 36 0.41
11 4 0.05
12 22 0.25
ACGTcount: A:0.25, C:0.41, G:0.15, T:0.19
Consensus pattern (10 bp):
TCCAGCAGCT
Found at i:108761 original size:18 final size:19
Alignment explanation
Indices: 108707--108780 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
108697 CCACCGTAAC
108707 CTCCAGCAACTTCCAGCAG
1 CTCCAGCAACTTCCAGCAG
* * *
108726 CTCCCACGGTAGCTTCCAGCAT
1 CT-CCA--GCAACTTCCAGCAG
108748 CT-CAGCAACTTCCAGCAG
1 CTCCAGCAACTTCCAGCAG
*
108766 CTCCAGCAGCTTCCA
1 CTCCAGCAACTTCCA
108781 TGACAACCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 13 0.30
19 13 0.30
20 5 0.11
22 13 0.30
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (19 bp):
CTCCAGCAACTTCCAGCAG
Found at i:108772 original size:9 final size:9
Alignment explanation
Indices: 108707--108809 Score: 55
Period size: 9 Copynumber: 10.4 Consensus size: 9
108697 CCACCGTAAC
*
108707 CTCCAGCAA
1 CTCCAGCAG
108716 CTTCCAGCAG
1 C-TCCAGCAG
*
108726 CTCCCACGGTAG
1 CT-CCA--GCAG
*
108738 CTTCCAGCAT
1 C-TCCAGCAG
*
108748 CT-CAGCAA
1 CTCCAGCAG
108756 CTTCCAGCAG
1 C-TCCAGCAG
108766 CTCCAGCAG
1 CTCCAGCAG
*
108775 CTTCCATGACAAC
1 C-TCCA-G-C-AG
*
108788 CTCCAGTAG
1 CTCCAGCAG
108797 CTCCAGCAG
1 CTCCAGCAG
108806 CTCC
1 CTCC
108810 CACAACAGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 22
0.70 0.10 0.21
Matches are distributed among these distances:
8 6 0.08
9 26 0.36
10 24 0.33
11 2 0.03
12 12 0.16
13 3 0.04
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.18
Consensus pattern (9 bp):
CTCCAGCAG
Found at i:108775 original size:22 final size:21
Alignment explanation
Indices: 108710--108775 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
108700 CCGTAACCTC
108710 CAGCAACTTCCAGCAGCTCCCA
1 CAGCAACTTCCAGCAGCT-CCA
* * * *
108732 CGGTAGCTTCCAGCA--T-CT
1 CAGCAACTTCCAGCAGCTCCA
108750 CAGCAACTTCCAGCAGCTCCA
1 CAGCAACTTCCAGCAGCTCCA
108771 GCAGC
1 -CAGC
108776 TTCCATGACA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 13 0.41
20 2 0.06
21 1 0.03
22 16 0.50
ACGTcount: A:0.24, C:0.41, G:0.18, T:0.17
Consensus pattern (21 bp):
CAGCAACTTCCAGCAGCTCCA
Found at i:108873 original size:22 final size:22
Alignment explanation
Indices: 108848--108891 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
108838 ATGAGCAGCG
* *
108848 CCCACAACTCCTACAGTAACTT
1 CCCACAACTCCCACAGCAACTT
*
108870 CCCACAGCTCCCACAGCAACTT
1 CCCACAACTCCCACAGCAACTT
108892 TCAGCAGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.45, G:0.07, T:0.18
Consensus pattern (22 bp):
CCCACAACTCCCACAGCAACTT
Found at i:108918 original size:22 final size:22
Alignment explanation
Indices: 108893--108945 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
108883 CAGCAACTTT
*
108893 CAGCAGCTTCCACGGTAGCCTC
1 CAGCAGCTCCCACGGTAGCCTC
*
108915 CAGCAGCTCCCATGGTAGCCTC
1 CAGCAGCTCCCACGGTAGCCTC
*
108937 CAACAGCTC
1 CAGCAGCTC
108946 AGCAATCCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.42, G:0.21, T:0.17
Consensus pattern (22 bp):
CAGCAGCTCCCACGGTAGCCTC
Found at i:115930 original size:19 final size:20
Alignment explanation
Indices: 115898--115959 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
115888 TTGCTCCAAT
115898 TTTTTAAAATTATTATTT-TA
1 TTTTTAAAA-TATTATTTATA
*
115918 TTTTTAAAATATTTTTTATA
1 TTTTTAAAATATTATTTATA
*
115938 TTTTTAATATA-TATTTCATA
1 TTTTTAAAATATTATTT-ATA
115958 TT
1 TT
115960 ATATATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 11 0.30
20 26 0.70
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAAAATATTATTTATA
Found at i:116262 original size:12 final size:12
Alignment explanation
Indices: 116245--116274 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
116235 TAAGTATAGT
*
116245 TTTATTGATTAA
1 TTTATTGATCAA
116257 TTTATTGATCAA
1 TTTATTGATCAA
116269 TTTATT
1 TTTATT
116275 AATATATTAA
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:0.03, G:0.07, T:0.60
Consensus pattern (12 bp):
TTTATTGATCAA
Done.