Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 67 of 290
Found at i:22132778 original size:46 final size:46
Alignment explanation
Indices: 22132603--22132778 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
22132593 TGTAACCCGC
* * * *
22132603 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
22132649 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
22132699 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* *
22132742 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
22132779 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:22140350 original size:93 final size:93
Alignment explanation
Indices: 22140191--22140361 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22140181 GCCCATAAGT
*
22140191 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAACTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAACTGAACTCGGACTCAACTCAA
22140256 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
22140284 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAACTGAACTCGGACTCAACTCA
22140348 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
22140362 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAACTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:22140357 original size:46 final size:47
Alignment explanation
Indices: 22140183--22140358 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 47
22140173 TGTAACCCGC
* *
22140183 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
22140229 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * *
22140279 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
22140322 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22140359 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.55
47 31 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:22141760 original size:16 final size:16
Alignment explanation
Indices: 22141739--22141769 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22141729 ATAAATTTGA
22141739 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
22141755 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
22141770 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:22147059 original size:130 final size:130
Alignment explanation
Indices: 22146881--22147140 Score: 484
Period size: 130 Copynumber: 2.0 Consensus size: 130
22146871 GTTATTCAGG
*
22146881 TACTTGAAGATATGCTTAGATGCTGTGTACTGGAATTTCAAGGTAGTTGGGAAAAATATTTACCA
1 TACTTGAAGATATGCTTAGATGCTGTGTACTGGAATTTCAAGGCAGTTGGGAAAAATATTTACCA
* *
22146946 TTAGTAGAGTTTTCCTACAATAATAGTTATCAGTCGAGTTTGAAGATGGCACCTTATGAAGCTTT
66 TTAGTAGAGTTTGCCTACAATAATAGTTATCAGTCGAGTTTAAAGATGGCACCTTATGAAGCTTT
*
22147011 TACTTGAAGATATGCTTAGATGTTGTGTACTGGAATTTCAAGGCAGTTGGGAAAAATATTTACCA
1 TACTTGAAGATATGCTTAGATGCTGTGTACTGGAATTTCAAGGCAGTTGGGAAAAATATTTACCA
22147076 TTAGTAGAGTTTGCCTACAATAATAGTTATCAGTCGAGTTTAAAGATGGCACCTTATGAAGCTTT
66 TTAGTAGAGTTTGCCTACAATAATAGTTATCAGTCGAGTTTAAAGATGGCACCTTATGAAGCTTT
22147141 GTATGGACGT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 126 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (130 bp):
TACTTGAAGATATGCTTAGATGCTGTGTACTGGAATTTCAAGGCAGTTGGGAAAAATATTTACCA
TTAGTAGAGTTTGCCTACAATAATAGTTATCAGTCGAGTTTAAAGATGGCACCTTATGAAGCTTT
Found at i:22147738 original size:17 final size:17
Alignment explanation
Indices: 22147713--22147746 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22147703 AGGCTATGCG
22147713 AAAACAGTACCCAAATC
1 AAAACAGTACCCAAATC
*
22147730 AAAATAGTACCCAAATC
1 AAAACAGTACCCAAATC
22147747 TCTTCATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.26, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAACAGTACCCAAATC
Found at i:22149100 original size:55 final size:54
Alignment explanation
Indices: 22149013--22149267 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
22149003 ATTAGGGTTT
*
22149013 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
22149068 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
22149123 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
22149176 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
22149225 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
22149268 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:22149219 original size:108 final size:110
Alignment explanation
Indices: 22149020--22149220 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
22149010 TTTAAGGATA
*
22149020 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
22149085 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
22149130 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
22149192 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
22149221 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:22149480 original size:16 final size:16
Alignment explanation
Indices: 22149459--22149489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22149449 ATAAATTTGA
22149459 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
22149475 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
22149490 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:22153804 original size:20 final size:20
Alignment explanation
Indices: 22153779--22153825 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
22153769 GATTTGATGT
22153779 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
22153799 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22153819 ACATGAT
1 ACATGAT
22153826 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22153964 original size:24 final size:24
Alignment explanation
Indices: 22153873--22153980 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
22153863 AGGAAGTGCA
* *
22153873 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
22153897 GAGAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
22153923 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
22153948 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
22153971 AAAAGAGGCT
1 AAAAG-GGCT
22153981 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.19
25 38 0.51
26 13 0.18
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:22153991 original size:49 final size:50
Alignment explanation
Indices: 22153873--22153993 Score: 158
Period size: 49 Copynumber: 2.4 Consensus size: 50
22153863 AGGAAGTGCA
*
22153873 AAAAGGGCTATGCCCCAGTTTACCGAGAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
* *
22153923 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
*
22153971 AAAAGAGGCTAGGCCTCCAGTTT
1 AAAAG-GGCTATGCC-CCAGTTT
22153994 TATGATAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
48 14 0.22
49 20 0.32
50 15 0.24
51 14 0.22
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:22154224 original size:31 final size:31
Alignment explanation
Indices: 22154189--22154252 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
22154179 CATTTACAAT
22154189 AAAGGCTTC-ATCCTAGTAATATGAAATATGA
1 AAAGGCTTCGATCC-AGTAATATGAAATATGA
* **
22154220 AAAGGCTTCGGTCCAGTGTTATGAAATATGA
1 AAAGGCTTCGATCCAGTAATATGAAATATGA
22154251 AA
1 AA
22154253 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGATCCAGTAATATGAAATATGA
Found at i:22155117 original size:20 final size:20
Alignment explanation
Indices: 22155078--22155130 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
22155068 TTTCTATAAA
*
22155078 TATTTTGAA-TCTTAAAAAT
1 TATTTTGAATTTTTAAAAAT
*
22155097 TATTTTGAATTTTTGAAAAT
1 TATTTTGAATTTTTAAAAAT
22155117 TATTTTGAATTTTT
1 TATTTTGAATTTTT
22155131 TTTTGTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (20 bp):
TATTTTGAATTTTTAAAAAT
Found at i:22159276 original size:115 final size:115
Alignment explanation
Indices: 22159142--22159601 Score: 857
Period size: 115 Copynumber: 4.0 Consensus size: 115
22159132 TATGTAATTC
* * *
22159142 ACAATACTAGGACTTCTTCTCCAAGAGAGTGTAAGGTTGTTGGTGGAAGTGCATGGTTGACCTTT
1 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
*
22159207 CACTCGATCCATGATGAGACCACAAGTAAGGTAGTAAAAACATATTTCCT
66 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
22159257 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
1 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
*
22159322 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACAGATTTCCT
66 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
22159372 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
1 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
*
22159437 CACTCGATCCATGATGAGACCACAAGTAAGGTAGTAAAAACATATTTCCT
66 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
*
22159487 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTAGAAGTGAATGGTTGACCTTT
1 ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
22159552 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
66 CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
22159602 GAGGTAATAG
Statistics
Matches: 336, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 336 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (115 bp):
ACAATAGTAGGACTTCTTCTCCAAGAGAGGGTAAGGTTGTTGGTGGAAGTGAATGGTTGACCTTT
CACTCGATCCATGATGAGACCACAAGTAAGGTAGGAAAAACATATTTCCT
Found at i:22178600 original size:55 final size:56
Alignment explanation
Indices: 22178428--22178630 Score: 327
Period size: 56 Copynumber: 3.6 Consensus size: 56
22178418 TACTCGTAAA
* *
22178428 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATTGGAAT
* *
22178484 CACATATCGATGCCAACGTATTAGATGTGGTCTTACTTGCACACACATATCGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATTGGAAT
* *
22178540 TACATATCGATGCCAACGTATTAAATGT-GTCTTACTCGCACACACATATTGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATTGGAAT
* *
22178595 CACATATCGATACCAACGCATTAAATGTGGTCTTAC
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTAC
22178631 ACTTAATCAC
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
55 50 0.37
56 85 0.63
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACACATATTGGAAT
Found at i:22178624 original size:111 final size:112
Alignment explanation
Indices: 22178429--22178630 Score: 343
Period size: 111 Copynumber: 1.8 Consensus size: 112
22178419 ACTCGTAAAC
*
22178429 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAATCACATATCGA
1 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATTGAAATCACATATCGA
* * *
22178494 TGCCAACGTATTAGATGTGGTCTTACTTGCACACACATATCGGAATT
66 TACCAACGCATTAAATGTGGTCTTACTTGCACACACATATCGGAATT
* *
22178541 ACATATCGATGCCAACGTATTAAATGT-GTCTTACTCGCACACACATATTGGAATCACATATCGA
1 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATTGAAATCACATATCGA
22178605 TACCAACGCATTAAATGTGGTCTTAC
66 TACCAACGCATTAAATGTGGTCTTAC
22178631 ACTTAATCAC
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 58 0.69
112 26 0.31
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (112 bp):
ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATTGAAATCACATATCGA
TACCAACGCATTAAATGTGGTCTTACTTGCACACACATATCGGAATT
Found at i:22178668 original size:43 final size:43
Alignment explanation
Indices: 22178621--22178801 Score: 163
Period size: 43 Copynumber: 4.2 Consensus size: 43
22178611 CGCATTAAAT
* * *
22178621 GTGGTCTTACACT-TAATCACATATCTATGCTAATGTCCCAAAC
1 GTGGTCTTACA-TGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * * **
22178664 GTGGTGTTACACAAG-AA-CACCTATCAATGCCACTGTCCTTGAC
1 GTGGTCTT--ACATGTAATCACATATCGATGCCAATGTCCCAGAC
** *
22178707 AG-GGTCAAACATGTAATCACATATCGATGCCAACGTCCCAGAC
1 -GTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
*
22178750 GTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAT
1 GTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
*
22178793 GTAGTCTTA
1 GTGGTCTTA
22178802 ATCGATGCCA
Statistics
Matches: 107, Mismatches: 24, Indels: 14
0.74 0.17 0.10
Matches are distributed among these distances:
41 4 0.04
42 3 0.03
43 94 0.88
44 3 0.03
45 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
GTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:22178806 original size:30 final size:30
Alignment explanation
Indices: 22178772--22178831 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22178762 GTAATCACAT
* *
22178772 ATCGATGCCAATGTCCCAGATGTAGTCTTA
1 ATCGATGCCAACGTCCCAGACGTAGTCTTA
*
22178802 ATCGATGCCAACGTCCCAGACGTTGTCTTA
1 ATCGATGCCAACGTCCCAGACGTAGTCTTA
22178832 CATGTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (30 bp):
ATCGATGCCAACGTCCCAGACGTAGTCTTA
Found at i:22178816 original size:73 final size:73
Alignment explanation
Indices: 22178729--22178947 Score: 420
Period size: 73 Copynumber: 3.0 Consensus size: 73
22178719 GTAATCACAT
*
22178729 ATCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
1 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
22178794 TAGTCTTA
66 TAGTCTTA
22178802 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
1 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
22178867 TAGTCTTA
66 TAGTCTTA
22178875 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
1 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
*
22178940 TGGTCTTA
66 TAGTCTTA
22178948 CACGTAATCA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 144 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (73 bp):
ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGATG
TAGTCTTA
Found at i:22178879 original size:30 final size:30
Alignment explanation
Indices: 22178845--22178904 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22178835 GTAATCACAT
* *
22178845 ATCGATGCCAATGTCCCAGATGTAGTCTTA
1 ATCGATGCCAACGTCCCAGACGTAGTCTTA
*
22178875 ATCGATGCCAACGTCCCAGACGTTGTCTTA
1 ATCGATGCCAACGTCCCAGACGTAGTCTTA
22178905 CATGTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (30 bp):
ATCGATGCCAACGTCCCAGACGTAGTCTTA
Found at i:22178924 original size:43 final size:43
Alignment explanation
Indices: 22178875--22178972 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
22178865 TGTAGTCTTA
* *
22178875 ATCGATGCCAACGTCCCAGACGTTGTCTTACATGTAATCACAT
1 ATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAT
* *
22178918 ATCGATGCCAATGTCCCAGATGTGGTCTTACACGTAATCACAT
1 ATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAT
22178961 ATCGATGCCAAC
1 ATCGATGCCAAC
22178973 TCAAAAATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (43 bp):
ATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAT
Found at i:22185394 original size:27 final size:27
Alignment explanation
Indices: 22185364--22185476 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
22185354 TACTGAAATG
*
22185364 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
* * * * *
22185391 CCCTCGATTCAAAGAATTATCGTTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
*
22185418 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
** *
22185445 CCCTTGATTTACAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
22185472 CCCTC
1 CCCTC
22185477 GATCAGTAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTATAGAATTACCATTTTA
Found at i:22185433 original size:54 final size:54
Alignment explanation
Indices: 22185364--22185476 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
22185354 TACTGAAATG
* * *
22185364 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTCAAAGAATTATCGTTTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
* * * *
22185418 CCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
22185472 CCCTC
1 CCCTC
22185477 GATCAGTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (54 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
Found at i:22185489 original size:27 final size:28
Alignment explanation
Indices: 22185376--22185493 Score: 122
Period size: 27 Copynumber: 4.4 Consensus size: 28
22185366 CTCAATTTGT
22185376 AGAATTACCATTTTACCCTCGATTCA-A
1 AGAATTACCATTTTACCCTCGATTCATA
* * * *
22185403 AGAATTATCGTTTTACCCTCAATTTAT-
1 AGAATTACCATTTTACCCTCGATTCATA
* *
22185430 AGAATTACCGTTTTACCCTTGATT--TA
1 AGAATTACCATTTTACCCTCGATTCATA
22185456 CAGAATTACCATTTTACCCTCGA-TCAGTA
1 -AGAATTACCATTTTACCCTCGATTCA-TA
22185485 A-AATTACCA
1 AGAATTACCA
22185494 AAATACCCTG
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 71 0.93
28 1 0.01
29 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (28 bp):
AGAATTACCATTTTACCCTCGATTCATA
Found at i:22185490 original size:54 final size:54
Alignment explanation
Indices: 22185364--22185493 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
22185354 TACTGAAATG
** * * *
22185364 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTCAAAGAATTATCGTTTTA
1 CCCTCAATTCATAAAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
* * * * * *
22185418 CCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTA
1 CCCTCAATTCATAAAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
*
22185472 CCCTCGA-TCAGTAAAATTACCA
1 CCCTCAATTCA-TAAAATTACCA
22185494 AAATACCCTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.03
54 62 0.97
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
CCCTCAATTCATAAAATTACCATTTTACCCTCGATTCAAAGAATTACCATTTTA
Found at i:22185500 original size:27 final size:27
Alignment explanation
Indices: 22185470--22185658 Score: 170
Period size: 27 Copynumber: 7.1 Consensus size: 27
22185460 ATTACCATTT
**
22185470 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
22185497 TACCCT-GGTCTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
22185523 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
22185550 TACCC-CTAGTTTGTAAAGTTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * * *
22185577 TACACT-GGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
22185603 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
22185630 TACCC-CTGATTTACAAAATTACAAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
22185657 TA
1 TA
22185659 TCCTTGACTT
Statistics
Matches: 131, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 43 0.33
27 88 0.67
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:22185541 original size:53 final size:53
Alignment explanation
Indices: 22185482--22185739 Score: 214
Period size: 53 Copynumber: 4.8 Consensus size: 53
22185472 CCCTCGATCA
* * *
22185482 GTAAAATTACCAAAATACCCTGGTCTGTAAAATTACTAAAATACCATTGGTTT
1 GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCACTGGTTT
* *
22185535 GTAAAATTACCAAAATACCCCTAGTTTGTAAAGTTACCAAAATA-CACTGGTTT
1 GTAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCACTGGTTT
* * ** * *
22185588 GTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCT-GGTTTGTAAAATTACCAAAATACCACTGGTTT
** * * * * * *
22185642 ACAAAATTACAAAAATATCCTTGACTTTTTAAAAATTA-TAGAAATACCATTGGTTT
1 GTAAAATTACCAAAATA-CCCTG-GTTTGT-AAAATTACCA-AAATACCACTGGTTT
** ** * *
22185698 ACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 GTAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAA
22185740 CACCCTTATA
Statistics
Matches: 164, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
52 4 0.02
53 60 0.37
54 49 0.30
55 15 0.09
56 36 0.22
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCACTGGTTT
Found at i:22185566 original size:80 final size:79
Alignment explanation
Indices: 22185482--22185745 Score: 242
Period size: 80 Copynumber: 3.3 Consensus size: 79
22185472 CCCTCGATCA
*
22185482 GTAAAATTACCAAAATACCCTGGTCTGTAAAATTACTAAAATACCATTGGTTTGTAAAATTACCA
1 GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCATTGGTTTGTAAAATTACCA
22185547 AAATACCCCTAGTTT
66 AAATACCCCT-GTTT
* * * ** * ***
22185562 GTAAAGTTACCAAAATACACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCATTGGTTTGTAAAATTACCA
22185627 AAATACCCCTGATTT
66 AAATACCCCTG-TTT
** * * * * **
22185642 ACAAAATTACAAAAATATCCTTGACTTTTTAAAAATTA-TAGAAATACCATTGGTTTACAAAATT
1 GTAAAATTACCAAAATA-CCCTG-GTTTGT-AAAATTACTA-AAATACCATTGGTTTGTAAAATT
** *
22185706 ACTGAAATACCCTTGGTTT
62 ACCAAAATACCCCT-GTTT
* * *
22185725 GTAGATTTACCAAAACACCCT
1 GTAAAATTACCAAAATACCCT
22185746 TATAGGATGA
Statistics
Matches: 141, Mismatches: 37, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
79 1 0.01
80 81 0.57
81 3 0.02
82 7 0.05
83 48 0.34
84 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (79 bp):
GTAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCATTGGTTTGTAAAATTACCA
AAATACCCCTGTTT
Found at i:22185712 original size:27 final size:26
Alignment explanation
Indices: 22185669--22185724 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
22185659 TCCTTGACTT
22185669 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
22185695 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
22185722 TTT
1 TTT
22185725 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:22185808 original size:27 final size:27
Alignment explanation
Indices: 22185765--22185838 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
22185755 AAACGACTAA
*
22185765 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
22185792 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
22185819 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
22185839 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:22185842 original size:27 final size:27
Alignment explanation
Indices: 22185778--22185842 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
22185768 ACCCCTAATA
*
22185778 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
22185805 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
22185832 GGTAAAATGAC
1 GGTAAAATGAC
22185843 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:22186515 original size:26 final size:25
Alignment explanation
Indices: 22186463--22186511 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
22186453 CCCTTATAAT
22186463 GTGAAAATGACTATTTTTCCCCTAG
1 GTGAAAATGACTATTTTTCCCCTAG
*
22186488 GTGAAAATGACTGTTTTTCCCCTA
1 GTGAAAATGACTATTTTTCCCCTA
22186512 AGGTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (25 bp):
GTGAAAATGACTATTTTTCCCCTAG
Found at i:22186574 original size:20 final size:20
Alignment explanation
Indices: 22186540--22186616 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
22186530 GATACGTGGG
22186540 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
22186557 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
* *
22186578 GTATAATATGTACATGATAT
1 GTATGATATGCACATGATAT
*
22186598 GTATGAAATGCACATGATA
1 GTATGATATGCACATGATA
22186617 AATTCATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.16
20 40 0.78
21 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:22186576 original size:11 final size:10
Alignment explanation
Indices: 22186542--22186616 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 10
22186532 TACGTGGGGT
22186542 ATGATAT-AC
1 ATGATATGAC
*
22186551 ATGAT-TGAT
1 ATGATATGAC
22186560 ATGATATGCAC
1 ATGATATG-AC
*
22186571 ATGATATG-T
1 ATGATATGAC
*
22186580 ATAATATGTAC
1 ATGATATG-AC
*
22186591 ATGATATG-T
1 ATGATATGAC
*
22186600 ATGAAATGCAC
1 ATGATATG-AC
22186611 ATGATA
1 ATGATA
22186617 AATTCATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.51
10 2 0.04
11 21 0.43
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:22186694 original size:26 final size:26
Alignment explanation
Indices: 22186665--22186787 Score: 160
Period size: 26 Copynumber: 4.8 Consensus size: 26
22186655 GAGGAAGTGC
*
22186665 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
22186691 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
22186717 AAAAGGGCTTATGCTCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * * *
22186743 AAAAAGACTT-TGCCCGAGTTTAACG
1 AAAAGGGCTTATGCCCCAGTTTATCG
22186768 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
22186788 ATTAAAGAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 28 0.34
26 55 0.66
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:22186743 original size:52 final size:51
Alignment explanation
Indices: 22186665--22186787 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 51
22186655 GAGGAAGTGC
* * *
22186665 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGACTT-TGCCCCAGTTTAACG
* *
22186717 AAAAGGGCTTATGCTCCAGTTTATTGAAAAAGACTTTGCCCGAGTTTAACG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGACTTTGCCCCAGTTTAACG
22186768 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
22186788 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 9 0.14
51 23 0.35
52 33 0.51
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGACTTTGCCCCAGTTTAACG
Found at i:22186996 original size:42 final size:42
Alignment explanation
Indices: 22186932--22187023 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
22186922 TAGTCTCCCC
* *
22186932 AAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
22186974 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
22187016 AAATGGGC
1 AAATGGGC
22187024 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:22191524 original size:31 final size:31
Alignment explanation
Indices: 22191489--22191550 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
22191479 GACCAGAGAA
*
22191489 AGAACAAGATTTTGGACTAAATCGTATAAAT
1 AGAACAAGATTTTGGACTAAATCATATAAAT
22191520 AGAACAAGATTTTGGACTAAATCATATAAAT
1 AGAACAAGATTTTGGACTAAATCATATAAAT
22191551 TATCCATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.29
Consensus pattern (31 bp):
AGAACAAGATTTTGGACTAAATCATATAAAT
Found at i:22197530 original size:27 final size:27
Alignment explanation
Indices: 22197511--22197613 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
22197501 ATTACCAAAG
**
22197511 TACCCTCGATTTATAGAATTACGGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
22197538 TATCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
22197565 TACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
22197592 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
22197614 TAATACCCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:22197569 original size:54 final size:54
Alignment explanation
Indices: 22197511--22197613 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
22197501 ATTACCAAAG
* * * * * *
22197511 TACCCTCGATTTATAGAATTA-CGGTTTTATCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTATC-GTTTTACCCTCAATTTACAAAATTACCATTT
22197565 TACCCTCAATTTACAGAATTATCGTTTTACCCTCAATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTATCGTTTTACCCTCAATTTACAAAATTAC
22197614 TAATACCCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTATCGTTTTACCCTCAATTTACAAAATTACCATTT
Found at i:22197752 original size:54 final size:52
Alignment explanation
Indices: 22197592--22197813 Score: 171
Period size: 54 Copynumber: 4.1 Consensus size: 52
22197582 ATTATCGTTT
** * *
22197592 TACCCTCAATTTACAAAATTAC-TAATACCCTTGGTTTACAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACAAAATACCCCTGGTTTAC-AAATTA-CAGAAA
* * ** *
22197644 TACCC-CTAGTTTGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTA-CAAAATACCCCTGGTTT-ACAAATTACAGAAA
*
22197698 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCCTGGTTTACAAA-TTACAGAAA
* * * * ** *
22197752 TACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACA-AAATACCCCTGGTTTAC-AAATTACAGAAA
22197808 TACCCT
1 TACCCT
22197814 TGGTTTGTAG
Statistics
Matches: 135, Mismatches: 24, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
51 1 0.01
52 16 0.12
53 5 0.04
54 67 0.50
55 9 0.07
56 34 0.25
57 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (52 bp):
TACCCTCAATTTGTAAAATTACAAAATACCCCTGGTTTACAAATTACAGAAA
Found at i:22197807 original size:27 final size:27
Alignment explanation
Indices: 22197601--22197819 Score: 126
Period size: 27 Copynumber: 8.1 Consensus size: 27
22197591 TTACCCTCAA
22197601 TTTACAAAATTACT--AATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
** * *
22197626 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACTGAAATACCCTTGG
** *
22197653 TTTGTAAAATTA-TCAAAATACCAC-TGG
1 TTTACAAAATTACT-GAAATACC-CTTGG
*** * ***
22197680 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTGAAATACCCTTGG
** ** * *
22197707 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACTGAAATACCCTTGG
* * *
22197734 TTTACAAAGTTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
22197762 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCCTTGG
22197790 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
22197817 TTT
1 TTT
22197820 GTAGATTTAC
Statistics
Matches: 152, Mismatches: 30, Indels: 22
0.75 0.15 0.11
Matches are distributed among these distances:
25 13 0.09
26 1 0.01
27 112 0.74
28 8 0.05
29 18 0.12
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:22197834 original size:110 final size:108
Alignment explanation
Indices: 22197592--22197813 Score: 254
Period size: 110 Copynumber: 2.1 Consensus size: 108
22197582 ATTATCGTTT
** * * * *
22197592 TACCCTCAATTTACAAAATTA-C-TAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTACTT
* ***
22197655 TGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAA
66 TCTAAAATTATCAAAATACCACTGGTTTACAAAATTACCGAAA
* *
22197698 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGAC
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCA-AAATACCCCT-AC
* *
22197762 TTTCTAAAAATTAT-AGAAATACCATTGGTTTACAAAATTACTGAAA
64 TTTCT-AAAATTATCA-AAATACCACTGGTTTACAAAATTACCGAAA
22197808 TACCCT
1 TACCCT
22197814 TGGTTTGTAG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
106 19 0.20
107 3 0.03
108 29 0.30
109 6 0.06
110 39 0.41
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCCTACTT
TCTAAAATTATCAAAATACCACTGGTTTACAAAATTACCGAAA
Found at i:22197902 original size:27 final size:27
Alignment explanation
Indices: 22197872--22197964 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
22197862 TACCCCTATT
*
22197872 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
22197899 AGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
22197926 GGGTAAAGTGACTGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
22197953 TGGTAAAATGAC
1 AGGTAAAATGAC
22197965 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:22198847 original size:52 final size:52
Alignment explanation
Indices: 22198767--22198915 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
22198757 GAGGAAGTGC
22198767 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
* *
22198819 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
* *
22198871 AAAAGTGCTT-TGCCCCAGTCTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
22198916 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 9 0.10
51 23 0.25
52 59 0.65
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:22198898 original size:25 final size:26
Alignment explanation
Indices: 22198767--22198915 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
22198757 GAGGAAGTGC
*
22198767 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
22198793 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
22198819 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
22198845 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * *
22198871 AAAAGTGCTT-TGCCCCAGTCTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
22198896 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
22198916 ATTAAAGAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
25 29 0.26
26 82 0.74
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:22199119 original size:42 final size:42
Alignment explanation
Indices: 22199060--22199151 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
22199050 TAGTCTCCCC
* ** ** *
22199060 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATCACATATGATATTG
22199102 AAATGGGCTTGCATACATACATTGACATCACATATGATATTG
1 AAATGGGCTTGCATACATACATTGACATCACATATGATATTG
22199144 AAATGGGC
1 AAATGGGC
22199152 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATACATTGACATCACATATGATATTG
Found at i:22201474 original size:27 final size:26
Alignment explanation
Indices: 22201413--22201524 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
22201403 CAGCATGGTT
*
22201413 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGACAGAGCC
*
22201439 ACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGACAGAGCC
*
22201466 ACCATAACAGATATATGTGACAGAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCC
* * *
22201493 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGACAGAGCC
22201520 ACCAG
1 ACCAG
22201525 GACGCTCCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.21
27 57 0.76
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGACAGAGCC
Found at i:22201496 original size:54 final size:53
Alignment explanation
Indices: 22201413--22201524 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 53
22201403 CAGCATGGTT
*
22201413 ACCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
* * * *
22201466 ACCATAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
22201520 ACCAG
1 ACCAG
22201525 GACGCTCCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (53 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
Found at i:22202920 original size:24 final size:24
Alignment explanation
Indices: 22202892--22202992 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
22202882 CCAACACTAT
* *
22202892 TCTCCCTAATCGGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
22202916 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
22202940 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
22202964 TCTCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
22202988 TCTCC
1 TCTCC
22202993 TGACAGACTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:22209258 original size:40 final size:40
Alignment explanation
Indices: 22209205--22209468 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
22209195 TATTCGAATG
* *
22209205 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
22209245 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * *
22209285 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
22209325 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
22209365 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
22209405 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
22209445 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
22209469 CTTGTGCGAG
Statistics
Matches: 198, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 194 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:22209338 original size:80 final size:80
Alignment explanation
Indices: 22209205--22209468 Score: 415
Period size: 80 Copynumber: 3.3 Consensus size: 80
22209195 TATTCGAATG
* * * ** *
22209205 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAATGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGGC
* * *
22209269 ATTTGTGCGAGTTG-CT
65 ATTTATGCTAG-TGACC
22209285 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
22209350 TTTATGCTAGTGACC
66 TTTATGCTAGTGACC
22209365 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
22209430 TTTATGCTAGTGACC
66 TTTATGCTAGTGACC
22209445 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
22209469 CTTGTGCGAG
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
79 3 0.02
80 170 0.98
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTATGCTAGTGACC
Found at i:22219744 original size:27 final size:26
Alignment explanation
Indices: 22219687--22219797 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
22219677 AGCATGGCTG
* *
22219687 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
22219713 GCAGAACAGATAATCATGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
22219740 CCAGAACAGATATATGTGGCAGAACCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
22219767 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22219794 CCAG
1 CCAG
22219798 GACGCATCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22221234 original size:24 final size:24
Alignment explanation
Indices: 22221196--22221272 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
22221186 CCAACACTAT
* *
22221196 TCTCCCTAAGCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
22221220 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
22221244 TCTCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
22221268 TCTCC
1 TCTCC
22221273 TGATAGACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:22225669 original size:42 final size:46
Alignment explanation
Indices: 22225555--22225673 Score: 138
Period size: 48 Copynumber: 2.6 Consensus size: 46
22225545 ATAATAAGAT
22225555 GCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCACTCGAA
1 GCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCACT--AA
* * * *
22225603 GCCAATGCCATGTCCCAGACATGGTCTTATATGGGATC-TCA-T-A
1 GCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCACTAA
* *
22225646 -TCAACGCCATTTCCCAGATATGGTCTTA
1 GCCAACGCCATATCCCAGATATGGTCTTA
22225674 CATGATAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.38
43 1 0.02
46 1 0.02
47 2 0.03
48 35 0.56
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCACTAA
Found at i:22225688 original size:42 final size:42
Alignment explanation
Indices: 22225609--22225689 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
22225599 CGAAGCCAAT
* * * *
22225609 GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAGAACACATATCAAC
* * *
22225651 GCCATTTCCCAGATATGGTCTTACATGATAACACATATC
1 GCCATGTCCCAGACATGGTCTTACATGAGAACACATATC
22225690 GATGCCGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAGAACACATATCAAC
Found at i:22225709 original size:90 final size:89
Alignment explanation
Indices: 22225557--22225732 Score: 219
Period size: 90 Copynumber: 2.0 Consensus size: 89
22225547 AATAAGATGC
* * * * *
22225557 CAACGCCATATCCCAGATATGGTCTTATATGGGATCACCACTCGAAGCCAATGCCATGTCCCAGA
1 CAACGCCATATCCCAGATATGGTCTTACAT-GGATAACCAATCGAAGCCAATACCATATCCCAGA
* *
22225622 CATGGTCTTATATGGGATCTCATAT
65 CATAGTCTTATACGGGATCTCATAT
* * *
22225647 CAACGCCATTTCCCAGATATGGTCTTACAT-GATAACACATATCGATGCCGATACCATATCCCAG
1 CAACGCCATATCCCAGATATGGTCTTACATGGATAAC-CA-ATCGAAGCCAATACCATATCCCAG
*
22225711 ATATAGTCTTATACGGGATCTC
64 ACATAGTCTTATACGGGATCTC
22225733 TTTAACCCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 5 0.07
89 2 0.03
90 66 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (89 bp):
CAACGCCATATCCCAGATATGGTCTTACATGGATAACCAATCGAAGCCAATACCATATCCCAGAC
ATAGTCTTATACGGGATCTCATAT
Found at i:22230007 original size:43 final size:43
Alignment explanation
Indices: 22229959--22230218 Score: 290
Period size: 43 Copynumber: 6.0 Consensus size: 43
22229949 TATATGTGAT
* *
22229959 ATCGATATGTAATTGCGTGTAAGACCACATCTGGGACGTTGGC
1 ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
* *
22230002 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGA
1 ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * ** *
22230045 ATCGATATGTAATTATGTGTAAGACTACACCTGAGACGTTGGC
1 ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * * * *
22230088 ACCGATATATAATTATGTGTAAGACTACGTTTGGGATGTTGGC
1 ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
** * *
22230131 ATTAATATGTGATTACGTGTAAGACC-CTGTCTGGGATAG-TGGC
1 ATCGATATGTAATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGC
* * *
22230174 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGC
1 ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
22230217 AT
1 AT
22230219 TGTACGATAT
Statistics
Matches: 183, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 180 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
ATCGATATGTAATTACGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:22237808 original size:14 final size:14
Alignment explanation
Indices: 22237784--22237817 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22237774 TCTTTTCTGT
22237784 TTTATTATGTGTGAA
1 TTTA-TATGTGTGAA
*
22237799 TTTATATGTGTTAA
1 TTTATATGTGTGAA
22237813 TTTAT
1 TTTAT
22237818 CGTGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTTATATGTGTGAA
Found at i:22239382 original size:43 final size:43
Alignment explanation
Indices: 22239318--22239577 Score: 371
Period size: 43 Copynumber: 6.0 Consensus size: 43
22239308 TATATGTGAT
22239318 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* * *
22239361 ATTGATATGTAATTATGTGTAAGACCATGTCTAGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* *
22239404 ATCGATATGTAATTATATGTAAGACCACGTCTGGGACGTTGGG
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
*
22239447 ATCGATATAG-AATTATGTGTAAGACCACGTCTGGGATGTTGGC
1 ATCGATAT-GTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* * **
22239490 ATCGATATGTGATTACGTGTAAGACCTTGTCTGGGACAG-TGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGAC-GTTGGC
* **
22239533 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
22239576 AT
1 AT
22239578 TGTACGATAT
Statistics
Matches: 194, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
42 2 0.01
43 190 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:22239553 original size:129 final size:129
Alignment explanation
Indices: 22239318--22239574 Score: 410
Period size: 129 Copynumber: 2.0 Consensus size: 129
22239308 TATATGTGAT
* *
22239318 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATTGATATGTAATTATGTGTAA
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
*
22239383 GACCATGTCTAGGACGTTGGCATCGATATGTAATTATATGTAAGACCACGTCTGGGACGTTGGG
66 GACCATGTCTAGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGGG
* *
22239447 ATCGATATAG-AATTATGTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTA
1 ATCGATAT-GTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTA
* * *
22239511 AGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
65 AGACCATGTCTAGGAC-GTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGG
22239575 CATTGTACGA
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 116 0.98
130 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (129 bp):
ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
GACCATGTCTAGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGGG
Found at i:22240685 original size:43 final size:43
Alignment explanation
Indices: 22240621--22240880 Score: 371
Period size: 43 Copynumber: 6.0 Consensus size: 43
22240611 TATATGTGAT
22240621 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* * *
22240664 ATTGATATGTAATTATGTGTAAGACCATGTCTAGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* *
22240707 ATCGATATGTAATTATATGTAAGACCACGTCTGGGACGTTGGG
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
*
22240750 ATCGATATAG-AATTATGTGTAAGACCACGTCTGGGATGTTGGC
1 ATCGATAT-GTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
* * **
22240793 ATCGATATGTGATTACGTGTAAGACCTTGTCTGGGACAG-TGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGAC-GTTGGC
* **
22240836 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
22240879 AT
1 AT
22240881 TGTACGATAT
Statistics
Matches: 194, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
42 2 0.01
43 190 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:22240856 original size:129 final size:129
Alignment explanation
Indices: 22240621--22240877 Score: 410
Period size: 129 Copynumber: 2.0 Consensus size: 129
22240611 TATATGTGAT
* *
22240621 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATTGATATGTAATTATGTGTAA
1 ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
*
22240686 GACCATGTCTAGGACGTTGGCATCGATATGTAATTATATGTAAGACCACGTCTGGGACGTTGGG
66 GACCATGTCTAGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGGG
* *
22240750 ATCGATATAG-AATTATGTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTA
1 ATCGATAT-GTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTA
* * *
22240814 AGACCTTGTCTGGGACAG-TGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
65 AGACCATGTCTAGGAC-GTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGG
22240878 CATTGTACGA
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 116 0.98
130 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (129 bp):
ATCGATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTACGTGTAA
GACCATGTCTAGGACGTTGGCATCGATATGTAATTACATGTAAGACCACGTCTGGGACGTTGGG
Found at i:22241872 original size:17 final size:17
Alignment explanation
Indices: 22241850--22241886 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
22241840 AATAATTATA
22241850 TATATAAGTATAGGATG
1 TATATAAGTATAGGATG
22241867 TATATAAGTATAGGATG
1 TATATAAGTATAGGATG
22241884 TAT
1 TAT
22241887 TAGTGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
TATATAAGTATAGGATG
Found at i:22250357 original size:27 final size:26
Alignment explanation
Indices: 22250305--22250356 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
22250295 CTAATAAGAC
22250305 AAAAATGATAAAAGCTATCATTTTTT
1 AAAAATGATAAAAGCTATCATTTTTT
22250331 AAAAATGATAAAAGCTATCATTTTTT
1 AAAAATGATAAAAGCTATCATTTTTT
22250357 TTCATTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
AAAAATGATAAAAGCTATCATTTTTT
Found at i:22250773 original size:25 final size:25
Alignment explanation
Indices: 22250739--22250789 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
22250729 GAAGAGAAAA
22250739 ATGTTCAGCATGTCTTAAACCTTAT
1 ATGTTCAGCATGTCTTAAACCTTAT
*
22250764 ATGTTCAGCATGTCTTAAGCCTTAT
1 ATGTTCAGCATGTCTTAAACCTTAT
22250789 A
1 A
22250790 GAAATTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (25 bp):
ATGTTCAGCATGTCTTAAACCTTAT
Found at i:22251585 original size:68 final size:67
Alignment explanation
Indices: 22251513--22251662 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
22251503 CATCATGTGT
* * * *
22251513 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
22251575 ATGTAG
62 ATGTAG
** * *
22251581 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
22251646 AG
66 AG
22251648 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
22251663 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:22251618 original size:64 final size:64
Alignment explanation
Indices: 22251537--22251720 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
22251527 AGACATTATG
* *
22251537 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
22251601 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
22251666 AA
63 AA
* * * *
22251668 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
22251721 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:22259889 original size:6 final size:6
Alignment explanation
Indices: 22259878--22259903 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22259868 TAAACAAACT
22259878 AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AA
22259904 GGCATAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:22259957 original size:7 final size:6
Alignment explanation
Indices: 22259921--22259955 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
22259911 ATAAAATTGG
*
22259921 AAAATA AAAATA AAACTA AAAATAA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAA
22259956 ATTCAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:22263905 original size:28 final size:28
Alignment explanation
Indices: 22263842--22264023 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
22263832 ATATTAAGTC
*
22263842 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
22263869 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
22263897 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
22263925 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
22263953 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
22263981 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
22264010 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22264024 CAATCTCATG
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
27 22 0.15
28 107 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22264481 original size:2 final size:2
Alignment explanation
Indices: 22264474--22264503 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22264464 CATACTTGTG
22264474 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
22264504 CTTCGGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22278832 original size:5 final size:5
Alignment explanation
Indices: 22278822--22278899 Score: 68
Period size: 5 Copynumber: 14.2 Consensus size: 5
22278812 TTGAATCCTC
22278822 TTATT TTATTT TTATTT TTATT TTATTT TTATT TTA-T TTATT TTATT
1 TTATT TTA-TT TTA-TT TTATT TTA-TT TTATT TTATT TTATT TTATT
*
22278869 CTTATTT TTCTT TTGATTT TTATT TTCATT T
1 -TTA-TT TTATT TT-A-TT TTATT TT-ATT T
22278900 CAATTTTCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 15
0.79 0.03 0.19
Matches are distributed among these distances:
4 4 0.06
5 27 0.43
6 26 0.41
7 6 0.10
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:22278836 original size:6 final size:6
Alignment explanation
Indices: 22278825--22278899 Score: 80
Period size: 6 Copynumber: 12.3 Consensus size: 6
22278815 AATCCTCTTA
* *
22278825 TTTTAT TTTTAT TTTTA- TTTTAT TTTTAT TTTATTT ATTTTAT TCTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT
* * *
22278874 TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
22278900 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
5 5 0.09
6 45 0.79
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:22281874 original size:13 final size:13
Alignment explanation
Indices: 22281858--22281890 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22281848 TTTAATTAAA
*
22281858 TTAGTTAATTAGT
1 TTAGATAATTAGT
22281871 TTAGATAATTAGT
1 TTAGATAATTAGT
22281884 TTA-ATAA
1 TTAGATAA
22281891 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:22284351 original size:71 final size:71
Alignment explanation
Indices: 22284246--22284379 Score: 268
Period size: 71 Copynumber: 1.9 Consensus size: 71
22284236 TTCTTTTTAT
22284246 TTTCAATTGATTTTTATTTTGCTCATTCACTTTTCACAAAATCTTCTCCCTTATTCTTAATTTTT
1 TTTCAATTGATTTTTATTTTGCTCATTCACTTTTCACAAAATCTTCTCCCTTATTCTTAATTTTT
22284311 TTTTTC
66 TTTTTC
22284317 TTTCAATTGATTTTTATTTTGCTCATTCACTTTTCACAAAATCTTCTCCCTTATTCTTAATTT
1 TTTCAATTGATTTTTATTTTGCTCATTCACTTTTCACAAAATCTTCTCCCTTATTCTTAATTT
22284380 ATTTATTCCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.21, C:0.20, G:0.03, T:0.56
Consensus pattern (71 bp):
TTTCAATTGATTTTTATTTTGCTCATTCACTTTTCACAAAATCTTCTCCCTTATTCTTAATTTTT
TTTTTC
Found at i:22285213 original size:26 final size:26
Alignment explanation
Indices: 22285156--22285218 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
22285146 TTTTACTGAA
*
22285156 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCT-AGTATGAAAATGACCATT
* *
22285183 TTACCCCTAG-ATGCAAAATGACCGTT
1 ATACCCCTAGTATG-AAAATGACCATT
22285209 ATACCCCTAG
1 ATACCCCTAG
22285219 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (26 bp):
ATACCCCTAGTATGAAAATGACCATT
Found at i:22285631 original size:59 final size:59
Alignment explanation
Indices: 22285554--22285694 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 59
22285544 CCTAACTGTG
* *
22285554 CTGATATGGG-TAAAGCCCAATATA-TCTCGACT-TGTATA-GGGCTACGGCCCAGATTGATA
1 CTGATATGGGCT-AGGCCCAATATACTCT-GA-TATGTA-AGGGGCTACGGCCCAGATTAATA
*
22285613 CTGATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATACTCTGATA-TGTAAGGGGCTACGGCCCAGATTAATA
* *
22285673 TTGATATGGGCCAAGGCCCAAT
1 CTGATATGGG-CTAGGCCCAAT
22285695 TAACTTTGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
58 1 0.01
59 24 0.34
60 36 0.51
61 10 0.14
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
CTGATATGGGCTAGGCCCAATATACTCTGATATGTAAGGGGCTACGGCCCAGATTAATA
Found at i:22290476 original size:20 final size:20
Alignment explanation
Indices: 22290451--22290490 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22290441 TTTGGAGATT
22290451 GAATTATTCGACGTATGGGG
1 GAATTATTCGACGTATGGGG
22290471 GAATTATTCGACGTATGGGG
1 GAATTATTCGACGTATGGGG
22290491 CATTGACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (20 bp):
GAATTATTCGACGTATGGGG
Found at i:22319108 original size:45 final size:45
Alignment explanation
Indices: 22319034--22319132 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
22319024 GATATCGAAA
* * * *
22319034 GCCCGAATAGTATCTCACCGGCATTATAGCATGCTAGGCTCAAAG
1 GCCCGAATAGTATCTCACCAGAATCATAGCATGCTAGGCACAAAG
* *
22319079 GCCCGAATAGTAT-TCCACCAGAATCATAGCCTGCTAGGCACGAAG
1 GCCCGAATAGTATCT-CACCAGAATCATAGCATGCTAGGCACAAAG
*
22319124 GCCTGAATA
1 GCCCGAATA
22319133 CACATCACCG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (45 bp):
GCCCGAATAGTATCTCACCAGAATCATAGCATGCTAGGCACAAAG
Found at i:22322632 original size:20 final size:21
Alignment explanation
Indices: 22322607--22322646 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22322597 TTCTTGAAAC
22322607 AGGGC-ACACGCCCCTGTGGA
1 AGGGCAACACGCCCCTGTGGA
* *
22322627 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCCTGTGG
22322647 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCCTGTGGA
Found at i:22323775 original size:47 final size:48
Alignment explanation
Indices: 22323706--22323974 Score: 209
Period size: 47 Copynumber: 5.6 Consensus size: 48
22323696 GTATAATGCT
*
22323706 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-CATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
* * * *
22323753 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCCAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACAT-CAAGTC
* ** * *
22323802 GACGCCATGTTGCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCA--AGT--C
* * * *
22323852 GATGCCATATCCCAGACATGGTCTTACACTGACACATCTCAT--AGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
* * * *
22323898 GATG-CATGTCCTAGACAT-GTCTTACACTAG-TTATCGTC-TCAA-TACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAGT--C
*
22323944 GATGCCATGTCCCAGACATGGTCCTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
22323975 ACTCTCATAA
Statistics
Matches: 175, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 4 0.02
44 13 0.07
45 13 0.07
46 14 0.08
47 45 0.26
48 17 0.10
49 35 0.20
50 29 0.17
51 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
Found at i:22323825 original size:49 final size:48
Alignment explanation
Indices: 22323706--22324019 Score: 202
Period size: 47 Copynumber: 6.6 Consensus size: 48
22323696 GTATAATGCT
* * * * *
22323706 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC--CATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCAGGCC
22323753 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCCAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAAT-CAGGCC
* ** * * *
22323802 GACGCCATGTTGCAGACATGGTCTTACACT-AGCTCTCACATATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-AAATCAG-GCC
* ** * *
22323852 GATGCCATATCCCAGACATGGTCTTACACTGAC-A-C-ATCTCATAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCA-GGCC
* * *** **
22323898 GATG-CATGTCCTAGACAT-GTCTTACACT-AGTTATC-GTCTCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAAATC-AGGCC
* * * **
22323944 GATGCCATGTCCCAGACATGGTCCTACACTGACTCTCATAATTTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAGGCC
* *
22323992 GATG-TATGTCCCAAACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
22324020 AGCACACAAA
Statistics
Matches: 210, Mismatches: 41, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 13 0.06
46 32 0.15
47 58 0.28
48 22 0.10
49 40 0.19
50 33 0.16
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAGGCC
Found at i:22324015 original size:94 final size:95
Alignment explanation
Indices: 22323706--22324022 Score: 267
Period size: 92 Copynumber: 3.3 Consensus size: 95
22323696 GTATAATGCT
* *
22323706 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCATC-C--ATCAAGT--CGATGCCATGTCCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCACATATCAA-TACCGATGCCATGTCCC
* * *
22323766 AGACATGGTCTTACACTGACTATCAAAATCCAGGCC
62 AGACATGGTCTTACACTGACTCTCATAAT--TGGCC
* ** ** * *
22323802 GACGCCATGTTGCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATATCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCACATATCAATACCGATGCCATGTCCCAG
* * * *
22323867 ACATGGTCTTACACTGACACATC-TCA-TAGTC
64 ACATGGTCTTACACTGACTC-TCATAATTGGCC
* * *
22323898 GATGCATGTCCTAGACATGTCTTACACTAG-T-T-ATCGTCTCAATACCGATGCCATGTCCCAGA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CATATCAATACCGATGCCATGTCCCAGA
*
22323960 CATGGTCCTACACTGACTCTCATAATTTGGCC
65 CATGGTCTTACACTGACTCTCATAA-TTGGCC
* *
22323992 GATGTATGTCCCAAACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
22324023 ACACAAATAA
Statistics
Matches: 178, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
91 3 0.02
92 42 0.24
93 1 0.01
94 42 0.24
95 13 0.07
96 37 0.21
97 1 0.01
98 3 0.02
99 34 0.19
100 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCACATATCAATACCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTCTCATAATTGGCC
Found at i:22330483 original size:109 final size:109
Alignment explanation
Indices: 22330292--22331123 Score: 1603
Period size: 109 Copynumber: 7.6 Consensus size: 109
22330282 TAAATTGTAC
22330292 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330357 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330401 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330466 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330510 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330575 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330619 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330684 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330728 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330793 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330837 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22330902 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
22330946 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
22331011 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
* ** * *
22331055 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGT
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
22331119 GTGCG
65 GTGCG
22331124 GACTCGATAT
Statistics
Matches: 717, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
108 2 0.00
109 715 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:22331134 original size:27 final size:27
Alignment explanation
Indices: 22330292--22331123 Score: 625
Period size: 27 Copynumber: 30.6 Consensus size: 27
22330282 TAAATTGTAC
* *
22330292 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330319 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330347 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330373 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330401 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330428 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330456 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330482 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330510 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330537 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330565 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330591 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330619 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330646 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330674 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330700 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330728 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330755 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330783 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330809 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330837 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330864 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22330892 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22330918 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22330946 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* ** *
22330973 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGACTTGACTAT-AT
* * **
22331001 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGACTTGACTATAT
* * *
22331027 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGACTATAT
* *
22331055 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGACTTGACTATAT
* *
22331082 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGACTATAT
*
22331109 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22331124 GACTCGATAT
Statistics
Matches: 682, Mismatches: 102, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
27 514 0.75
28 168 0.25
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGACTATAT
Found at i:22340124 original size:45 final size:44
Alignment explanation
Indices: 22340029--22340159 Score: 178
Period size: 45 Copynumber: 3.0 Consensus size: 44
22340019 CAAATTCATC
* * * *
22340029 CACCGGCA-TATTGCCTACTAGGCTCAAAGCCCGA-TA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGATTAGT-ATCT
22340071 CACCGGCATTATAGCCTGCTAGGCTCAAGGGCCCGATTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAA-GGCCCGATTAGTATCT
22340116 CACCGGCATTATAGCCTGCTAGGCTCTAAGGCCCGATTAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGATTAGTATC
22340160 GTACGATATT
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
42 8 0.10
43 17 0.21
44 6 0.08
45 46 0.57
46 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (44 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGATTAGTATCT
Found at i:22340668 original size:86 final size:86
Alignment explanation
Indices: 22340523--22340691 Score: 286
Period size: 86 Copynumber: 2.0 Consensus size: 86
22340513 GTCATCTCGA
*
22340523 TAATGTTAGTGGTAGCCGAGATACTACCAAGGATACGATAGCTAGATCTGAAGCACGAGCACCTG
1 TAATGTTAGTGGTAGCCGAGATACTACCAAGGATACGACAGCTAGATCTGAAGCACGAGCACCTG
22340588 CAAGAACATATACTATTCCTG
66 CAAGAACATATACTATTCCTG
* *
22340609 TAATGTTAGTGGTA-CTCGAGGTACTACCAAGTATACGACAGCTAGATCTGAAGCACGAGCACCT
1 TAATGTTAGTGGTAGC-CGAGATACTACCAAGGATACGACAGCTAGATCTGAAGCACGAGCACCT
*
22340673 GCAAGAACATATGCTATTC
65 GCAAGAACATATACTATTC
22340692 GTGCTAGAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 1 0.01
86 77 0.99
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (86 bp):
TAATGTTAGTGGTAGCCGAGATACTACCAAGGATACGACAGCTAGATCTGAAGCACGAGCACCTG
CAAGAACATATACTATTCCTG
Found at i:22346667 original size:27 final size:26
Alignment explanation
Indices: 22346634--22346697 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
22346624 ACATCTGATA
* *
22346634 CTGATTCTATATTGGGCTTAGGCCCAC
1 CTGATTCTATAATGGGCTAAGG-CCAC
22346661 CTGATTCCGT-TAATGGGCTAAGGCCAC
1 CTGATT-C-TATAATGGGCTAAGGCCAC
*
22346688 CTGATACTAT
1 CTGATTCTAT
22346698 TTATGTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 2 0.06
27 15 0.48
28 12 0.39
29 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (26 bp):
CTGATTCTATAATGGGCTAAGGCCAC
Found at i:22349612 original size:15 final size:14
Alignment explanation
Indices: 22349579--22349608 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22349569 TCATTCATGG
22349579 ATAAATTTTTAAAC
1 ATAAATTTTTAAAC
22349593 ATAAATTTTTAAAC
1 ATAAATTTTTAAAC
22349607 AT
1 AT
22349609 TAAAAACGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAATTTTTAAAC
Found at i:22354136 original size:35 final size:35
Alignment explanation
Indices: 22354089--22354161 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
22354079 CACAGACATC
* *
22354089 TTTCCCTGCTTCAATTCAAGGAACTCCTTCTTTTT
1 TTTCCCTACTTCAATTCAAGGAACTCCTTCTGTTT
22354124 TTTCCCTACTTCAATTCAAGGAACTCCTTCTGTTT
1 TTTCCCTACTTCAATTCAAGGAACTCCTTCTGTTT
22354159 TTT
1 TTT
22354162 ATCAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.08, T:0.47
Consensus pattern (35 bp):
TTTCCCTACTTCAATTCAAGGAACTCCTTCTGTTT
Found at i:22361850 original size:42 final size:42
Alignment explanation
Indices: 22361801--22361996 Score: 144
Period size: 43 Copynumber: 4.6 Consensus size: 42
22361791 AGATTCCATA
* * * * *
22361801 TAAGACCATATCTGGGATATGGCATTGGTATGCGATTTCGTG
1 TAAGACCATATCTAGGATATGGCATTGATATGAGACTTCATG
** * * * *
22361843 TAAGACCACGTCTAGGACATGGC-TTCAAAAATGAGACTTCATA
1 TAAGACCATATCTAGGATATGGCATT--GATATGAGACTTCATG
* * * * *
22361886 TAAGACTATATCTGGGATATGGCATCGATATGAGACATCGTG
1 TAAGACCATATCTAGGATATGGCATTGATATGAGACTTCATG
* * * * * *
22361928 TAAGACCATAGCTAGGCTATTGGCATCGATTTGTGA-TCCCATG
1 TAAGACCATATCTAGGATA-TGGCATTGATATGAGACT-TCATG
22361971 TAAGACCATATCTAGGATATGGCATT
1 TAAGACCATATCTAGGATATGGCATT
22361997 AGTATCTTAC
Statistics
Matches: 115, Mismatches: 34, Indels: 10
0.72 0.21 0.06
Matches are distributed among these distances:
41 2 0.02
42 51 0.44
43 61 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGGCATTGATATGAGACTTCATG
Found at i:22366929 original size:17 final size:17
Alignment explanation
Indices: 22366909--22366947 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22366899 CCACACAACC
22366909 ATGTGACCCACACGGCT
1 ATGTGACCCACACGGCT
* * *
22366926 ATGTGTCCCAGAGGGCT
1 ATGTGACCCACACGGCT
22366943 ATGTG
1 ATGTG
22366948 TCCAACATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (17 bp):
ATGTGACCCACACGGCT
Found at i:22368989 original size:29 final size:29
Alignment explanation
Indices: 22368911--22368993 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
22368901 ATCTACCACC
* * *
22368911 GATACATAGTACTTGATAAATATAACACT
1 GATACAAAGTACTTGATAACTGTAACACT
** * * *
22368940 GGCACAGAGTGCCTGATAACTGTAACACT
1 GATACAAAGTACTTGATAACTGTAACACT
*
22368969 GATACAAAGTACTTGACAACTGTAA
1 GATACAAAGTACTTGATAACTGTAA
22368994 TCATCGACAC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (29 bp):
GATACAAAGTACTTGATAACTGTAACACT
Found at i:22373870 original size:53 final size:53
Alignment explanation
Indices: 22373692--22373895 Score: 201
Period size: 53 Copynumber: 3.8 Consensus size: 53
22373682 AGGGTTTAAG
* * * * * *
22373692 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * *
22373746 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGACAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * *
22373801 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTTAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* * *
22373854 GATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
22373896 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.38
54 35 0.29
55 39 0.33
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:22380426 original size:253 final size:252
Alignment explanation
Indices: 22379950--22380441 Score: 677
Period size: 253 Copynumber: 1.9 Consensus size: 252
22379940 CATCCCAAAA
* * *
22379950 TAGGGCCTAAACGGAACAGTGGTTGTGAAACCATGAATCCGAGATAGAAAAGTTTATTCGGATTA
1 TAGGGCCTAAACGGAACAGTGGTTGTGAAACCATCAATCCGAGATAGAAAAATTTATTCCGATTA
* * * * *
22380015 ATTTTTATAATTTACCTAGTGATTAGATGCATGTGTTAGAGTATCGATGGAAACTTTTATAGATA
66 ATTTTTATAATTTACCGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATAGATA
* * *
22380080 ACATGCTTAATTTACCTACTAGGGCTTAATTGCAAAAGTTGATAAATATGAGTTTTAGATGCTAA
131 ACATGCTTAATTTACCTACTAGGACTTAATTGCAAAAGTTGATAAATATGAATTCTAGATGCTAA
* *
22380145 AGCATTAAATTGAAGAGTATAATTGAAGTAGAGGTCCTTAAATGTGACAGGCCGAAT
196 AGCATTAAATTGAAGAGCATAATTGAAGTAGAAGTCCTTAAATGTGACAGGCCGAAT
* * * *
22380202 TAGGGCCTAAATGGAATAGTGGTTTTGAAACCA-CAATTTCGA-AGTAGAAAAATTTATTCCGAT
1 TAGGGCCTAAACGGAACAGTGGTTGTGAAACCATCAA-TCCGAGA-TAGAAAAATTTATTCCGAT
*
22380265 TAATTTTTATAATTTATCGAGTGATTAGAATGCATGTGTTAGAATATCGATAGAAAATTTCAT-G
64 TAATTTTTATAATTTACCGAGTGATTAG-ATGCATGTGTTAGAATATCGATAGAAAATTTCATAG
*** * *
22380329 AATTGTATG-TCTAATTTGCCTATTAGGACTTAATTGCAAAAGTTGATAAATATGAATTCTAGAT
128 -ATAACATGCT-TAATTTACCTACTAGGACTTAATTGCAAAAGTTGATAAATATGAATTCTAGAT
* * *
22380393 GTTAAAGGATTTAATTGAAGAGCATAATTGAAGTAGAAGTCCTTAAATG
191 GCTAAAGCATTAAATTGAAGAGCATAATTGAAGTAGAAGTCCTTAAATG
22380442 GTAATTATAC
Statistics
Matches: 209, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
251 3 0.01
252 79 0.38
253 127 0.61
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (252 bp):
TAGGGCCTAAACGGAACAGTGGTTGTGAAACCATCAATCCGAGATAGAAAAATTTATTCCGATTA
ATTTTTATAATTTACCGAGTGATTAGATGCATGTGTTAGAATATCGATAGAAAATTTCATAGATA
ACATGCTTAATTTACCTACTAGGACTTAATTGCAAAAGTTGATAAATATGAATTCTAGATGCTAA
AGCATTAAATTGAAGAGCATAATTGAAGTAGAAGTCCTTAAATGTGACAGGCCGAAT
Found at i:22383441 original size:28 final size:28
Alignment explanation
Indices: 22383405--22383462 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
22383395 TAGAGTGGGA
* *
22383405 ATTTGATGTTTCTGTGGGTAAATAAATT
1 ATTTGATGTTTCCGCGGGTAAATAAATT
22383433 ATTTGATGTTTCCGCGGGTAAATAAATT
1 ATTTGATGTTTCCGCGGGTAAATAAATT
22383461 AT
1 AT
22383463 CAACATGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (28 bp):
ATTTGATGTTTCCGCGGGTAAATAAATT
Found at i:22384089 original size:53 final size:53
Alignment explanation
Indices: 22383906--22384113 Score: 209
Period size: 53 Copynumber: 3.9 Consensus size: 53
22383896 CATTAAGGTT
* * * * *
22383906 TAAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGG
* * * * * * *
22383960 TAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGG
* * * * *
22384015 TAAAGATCCCATGTAAGACCATACCAAGGCATGGCAATGGTGAGTTCATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGG
* * *
22384068 CAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
22384114 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 39 0.32
55 39 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGG
Found at i:22385728 original size:40 final size:39
Alignment explanation
Indices: 22385683--22385761 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 39
22385673 CTTTAGTCTC
22385683 TTTCCCTTCCATTTTCTCTTGCTGTGTTGGCCGAACAGT
1 TTTCCCTTCCATTTTCTCTTGCTGTGTTGGCCGAACAGT
22385722 NTTTCCCTTCCATTTTCTCTTGCTGTGTTGGCCGAACAGT
1 -TTTCCCTTCCATTTTCTCTTGCTGTGTTGGCCGAACAGT
22385762 GATTGGTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.10, C:0.28, G:0.18, T:0.43
Consensus pattern (39 bp):
TTTCCCTTCCATTTTCTCTTGCTGTGTTGGCCGAACAGT
Found at i:22391163 original size:18 final size:18
Alignment explanation
Indices: 22391140--22391182 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22391130 TGCCAGGTGG
* *
22391140 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
22391158 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
22391176 GTTTCCT
1 GTATCCT
22391183 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:22391655 original size:49 final size:49
Alignment explanation
Indices: 22391601--22391770 Score: 295
Period size: 49 Copynumber: 3.5 Consensus size: 49
22391591 ATTTATATTA
22391601 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
22391650 ATGTAATAAAATACAAAATATTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
22391699 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
22391748 ATTTAATAAAATACCAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
22391771 AATATTCTTA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 114 1.00
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:22394063 original size:14 final size:14
Alignment explanation
Indices: 22394044--22394072 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22394034 TCAACATTAT
22394044 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22394058 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22394072 G
1 G
22394073 GTGAGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.21
Consensus pattern (14 bp):
GCATGTGGGCTGGA
Found at i:22395190 original size:125 final size:125
Alignment explanation
Indices: 22394968--22395379 Score: 623
Period size: 125 Copynumber: 3.3 Consensus size: 125
22394958 CCCAAACATG
* * * * *
22394968 CTACTGTAGCAAAAACACGTCCACGTGGGAGCGATTTCA-ATATTTCTTCTCATAAAGTATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGA-AATTCTTCTAATAAAGCATCCTG
* * ** *
22395032 CTTAAAGCATTTTACACACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22395093 CTACTGTAGCAAAAGCGCGTCTA-GATGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTG
* *
22395157 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22395218 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTATAATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
22395283 TTGAAGCG-TTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22395342 CTACTGTACCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
22395380 CTTAATAAAT
Statistics
Matches: 263, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
124 86 0.33
125 175 0.67
126 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:22399307 original size:31 final size:32
Alignment explanation
Indices: 22399272--22399343 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
22399262 TTTGGGTTAG
22399272 GACTAAAATT-TCATAATTCAAAAAGTA-AAGA
1 GACTAAAATTGTC-TAATTCAAAAAGTATAAGA
*
22399303 GACTAAAATTGTCTAATTCGAAAAGTATAAGA
1 GACTAAAATTGTCTAATTCAAAAAGTATAAGA
*
22399335 -ACCAAAATT
1 GACTAAAATT
22399344 AACGGTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (32 bp):
GACTAAAATTGTCTAATTCAAAAAGTATAAGA
Found at i:22402662 original size:35 final size:35
Alignment explanation
Indices: 22402590--22402670 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
22402580 GTTATCGACT
** *
22402590 GGTCCTTCAGGGCGACACTGTGTAAATGGTATATA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
* * * *
22402625 GGTCCTTCAGGGTGGCACCATGTGAATGATATTTA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
22402660 GGTCCTT-AGGG
1 GGTCCTTCAGGG
22402671 GCAACACCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (35 bp):
GGTCCTTCAGGGCGACACCATGTAAATGATATATA
Found at i:22403730 original size:35 final size:35
Alignment explanation
Indices: 22403691--22403798 Score: 84
Period size: 35 Copynumber: 3.2 Consensus size: 35
22403681 TACACAAACA
22403691 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
1 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
* *** * * *
22403726 TGCCATTCATAGAAACC-ACAGT--ACACAAAC-A--
1 TGCCATT-TTAGTGTCCTAAAATCAAC-CAACCAATG
*
22403757 TGCCGTTTTAGTGTCCTAAAATCAACCAACCAATG
1 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
22403792 TGCCATT
1 TGCCATT
22403799 CATAGAAACC
Statistics
Matches: 49, Mismatches: 16, Indels: 16
0.60 0.20 0.20
Matches are distributed among these distances:
30 5 0.10
31 9 0.18
32 4 0.08
33 6 0.12
34 4 0.08
35 16 0.33
36 5 0.10
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (35 bp):
TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
Found at i:22403766 original size:66 final size:66
Alignment explanation
Indices: 22403678--22403811 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
22403668 CATCATTCAC
22403678 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
22403743 A
66 A
*
22403744 CAGTACACAAACATGCCGTTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
22403809 A
66 A
22403810 CA
1 CA
22403812 ATTATATCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (66 bp):
CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
A
Found at i:22404358 original size:29 final size:29
Alignment explanation
Indices: 22404316--22404374 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22404306 AAAATACAAG
22404316 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
22404345 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
22404374 T
1 T
22404375 GAACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (29 bp):
TAGAAATTTATTTACATATTGAAACACTA
Found at i:22412231 original size:33 final size:33
Alignment explanation
Indices: 22412186--22412248 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
22412176 TATGTAGAAG
*
22412186 AAAGGGTGCAATGGAAGATAGAAGCCAACCTCT
1 AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
22412219 AAAGGGTACAATGGAAGATAGAAGCCAACC
1 AAAGGGTACAATGGAAGATAGAAGCCAACC
22412249 GCCAAACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.13
Consensus pattern (33 bp):
AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
Found at i:22414694 original size:28 final size:28
Alignment explanation
Indices: 22414654--22414710 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22414644 TACTTCTGTT
22414654 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
22414682 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
22414710 T
1 T
22414711 CACTACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTGACTGAGCTCTCCCCAATTATGTA
Found at i:22415345 original size:44 final size:43
Alignment explanation
Indices: 22415278--22415363 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
22415268 ATCTGCTCCG
*
22415278 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGTTCATTTCC
1 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
*
22415321 GTGCTTAAGGAAAAAACATCTCCTCAATCGGGTTGCTCATTTC
1 GTGCTCAAGG-AAAAACATCTCCTCAATCGGGTTGCTCATTTC
22415364 TGATTAGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 9 0.22
44 31 0.77
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
Found at i:22417796 original size:23 final size:23
Alignment explanation
Indices: 22417770--22417831 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
22417760 TACACCGAAA
* *
22417770 TGTCATTAACACTTGCACCGTAG
1 TGTCATTATCACTTGCACCATAG
* *
22417793 TGTCGTTTTCACTTGCACCATAG
1 TGTCATTATCACTTGCACCATAG
* *
22417816 TGCCACTATCACTTGC
1 TGTCATTATCACTTGC
22417832 GCACATAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (23 bp):
TGTCATTATCACTTGCACCATAG
Found at i:22425953 original size:21 final size:20
Alignment explanation
Indices: 22425929--22425982 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
22425919 CAGCCATGTT
*
22425929 TCTGAGCCACACGGTCTAGGC
1 TCTG-GCCACACGGCCTAGGC
*
22425950 TCT-GTCACACGGCCTAGGC
1 TCTGGCCACACGGCCTAGGC
*
22425969 TCT-GTCACACGGCC
1 TCTGGCCACACGGCC
22425983 ATATGAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 28 0.90
21 3 0.10
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (20 bp):
TCTGGCCACACGGCCTAGGC
Found at i:22425958 original size:19 final size:19
Alignment explanation
Indices: 22425936--22425982 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22425926 GTTTCTGAGC
*
22425936 CACACGGTCTAGGCTCTGT
1 CACACGGCCTAGGCTCTGT
22425955 CACACGGCCTAGGCTCTGT
1 CACACGGCCTAGGCTCTGT
22425974 CACACGGCC
1 CACACGGCC
22425983 ATATGAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.19
Consensus pattern (19 bp):
CACACGGCCTAGGCTCTGT
Found at i:22430930 original size:14 final size:14
Alignment explanation
Indices: 22430911--22430940 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22430901 TCACATCCCA
*
22430911 AAAATCGAGTTAGT
1 AAAATCAAGTTAGT
22430925 AAAATCAAGTTAGT
1 AAAATCAAGTTAGT
22430939 AA
1 AA
22430941 TTGGGGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (14 bp):
AAAATCAAGTTAGT
Found at i:22432412 original size:2 final size:2
Alignment explanation
Indices: 22432400--22432449 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
22432390 AACTAGAAAA
*
22432400 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22432442 TG TG TG TG
1 TG TG TG TG
22432450 ACATGGTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:22434016 original size:22 final size:22
Alignment explanation
Indices: 22433986--22434028 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22433976 ACACCAAAAC
* *
22433986 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
22434008 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
22434029 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:22434161 original size:43 final size:42
Alignment explanation
Indices: 22434100--22434391 Score: 352
Period size: 43 Copynumber: 6.8 Consensus size: 42
22434090 GCGTCGCTAA
*
22434100 CTTTAGCGGCGCTTTTCTCGCAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* * *
22434143 CTTTAGCGGCGCTTTTCTCGCAAATGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* *
22434186 CTTTAGCGGCACTTTTCCCACAATCGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGACCAAGAC
* *
22434229 CTTTAGCGGCGCTTTTCCTGA-AAATGCCTCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCC--ACAAACGCCGCTAAAGACCAAGAC
* *
22434272 CTTTAGCGGCGCTTTTCCAAAAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGAC
* * * * *
22434315 CTTTAGCAGCGCTTTTCCAAAAAACGCCGCAAAATACCAGGAC
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGAC
* *
22434358 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAA
22434392 AACATGACTT
Statistics
Matches: 219, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.01
43 212 0.97
44 4 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
Found at i:22434202 original size:86 final size:86
Alignment explanation
Indices: 22434100--22434391 Score: 397
Period size: 86 Copynumber: 3.4 Consensus size: 86
22434090 GCGTCGCTAA
* * * * *
22434100 CTTTAGCGGCGCTTTTCTCGCAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTC-GC
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CAGA
*
22434164 AAATGCCGCTAAAGACCACGAC
65 AAATGCCGCTAAAGACCAAGAC
* * *
22434186 CTTTAGCGGCACTTTTCCCACAATCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
*
22434251 AATGCCTCTAAAGACCAAGAC
66 AATGCCGCTAAAGACCAAGAC
* * * * *
22434272 CTTTAGCGGCGCTTTTCCAAAAAACACCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCAAAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
* * * *
22434337 AACGCCGCAAAATACCAGGAC
66 AATGCCGCTAAAGACCAAGAC
22434358 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
22434392 AACATGACTT
Statistics
Matches: 182, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 1 0.01
86 181 0.99
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
AATGCCGCTAAAGACCAAGAC
Done.