Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 101 of 318
Found at i:30825078 original size:45 final size:47
Alignment explanation
Indices: 30824963--30825123 Score: 135
Period size: 46 Copynumber: 3.5 Consensus size: 47
30824953 AGTGCTAGTA
* * * *
30824963 TAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG-ACGTA-AGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATC-GGCACG-GTATGTAGAG-CAGTG
*
30825009 TAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG-ATGT-G-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-ACG-GTATGTAGAGCAGTG
30825053 TAAGACCATGTCT-GGACATGGCATCGGCACGGTTATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACGG-TATGT-AGAGC-AGTG
30825102 TAAGACCATGTCTGGGACATGG
1 TAAGACCATGTCTGGGACATGG
30825124 TGTGACATCC
Statistics
Matches: 98, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
43 1 0.01
44 18 0.18
45 21 0.21
46 31 0.32
47 1 0.01
48 1 0.01
49 17 0.17
50 8 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACGGTATGTAGAGCAGTG
Found at i:30826704 original size:29 final size:29
Alignment explanation
Indices: 30826662--30826734 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
30826652 GTGACAAGAT
30826662 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
30826691 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
30826720 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
30826735 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:30826753 original size:29 final size:29
Alignment explanation
Indices: 30826721--30826793 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
30826711 TGAAAAGTAT
* * *
30826721 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
30826750 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
30826779 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
30826794 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:30830746 original size:89 final size:87
Alignment explanation
Indices: 30830617--30830791 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 87
30830607 CAAATTCATC
* *
30830617 CACCGGTATTTTACCTGCTAGGCTCGAAACCCGATATCATTTCACCAGCATTATAGCCTGCTAGG
1 CACCGGCATTATACCTGCTAGGCTCGAAACCCGATATCATTTCACCAGCATTATAGCCTGCTAGG
*
30830682 CTCGAAGGCCCGAATAGTATCT
66 CTCAAAGGCCCGAATAGTATCT
*
30830704 CACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGATATCATTTCACCAGTATTATAGCCTGCT
1 CACCGGCATTATA-CCTGCTAGGCTCGAAA--CCCGATATCATTTCACCAGCATTATAGCCTGCT
*
30830768 AGGCTCAAAGGCCCGATTAGTATC
63 AGGCTCAAAGGCCCGAATAGTATC
30830792 GTATGATATT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
87 14 0.17
88 12 0.15
89 54 0.68
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (87 bp):
CACCGGCATTATACCTGCTAGGCTCGAAACCCGATATCATTTCACCAGCATTATAGCCTGCTAGG
CTCAAAGGCCCGAATAGTATCT
Found at i:30830766 original size:44 final size:44
Alignment explanation
Indices: 30830630--30830784 Score: 226
Period size: 44 Copynumber: 3.5 Consensus size: 44
30830620 CGGTATTTTA
30830630 CCTGCTAGGCTCGAAA--CCCGATATCATTTCACCAGCATTATAG
1 CCTGCTAGGCTC-AAAGGCCCGATATCATTTCACCAGCATTATAG
* * *
30830673 CCTGCTAGGCTCGAAGGCCCGAATAGT-ATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCG-ATA-TCATTTCACCAGCATTATAG
*
30830718 CCTGCTAGGCTCAAAGGCCCGATATCATTTCACCAGTATTATAG
1 CCTGCTAGGCTCAAAGGCCCGATATCATTTCACCAGCATTATAG
30830762 CCTGCTAGGCTCAAAGGCCCGAT
1 CCTGCTAGGCTCAAAGGCCCGAT
30830785 TAGTATCGTA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.13
44 45 0.45
45 39 0.39
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
CCTGCTAGGCTCAAAGGCCCGATATCATTTCACCAGCATTATAG
Found at i:30835139 original size:10 final size:10
Alignment explanation
Indices: 30835124--30835150 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30835114 AAATCGGTAT
30835124 TCATTTTATA
1 TCATTTTATA
30835134 TCATTTTATA
1 TCATTTTATA
30835144 TCATTTT
1 TCATTTT
30835151 GTTTCTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
TCATTTTATA
Found at i:30838037 original size:48 final size:48
Alignment explanation
Indices: 30837976--30838260 Score: 329
Period size: 48 Copynumber: 5.9 Consensus size: 48
30837966 ATACTAGGGT
* * * *
30837976 TATGTGAGCTAGTGAAAGACCATATTTGGAACATGACATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * * * * **
30838024 TATGAGAGCTAGTGTAAGTCCATGTCTGGAGCATGGCATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * * *
30838072 TATGTGAGCCAATGTAAGACCATGTTTGAAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * * * **
30838120 TATGAGAGCTAGTGTAAGACCATGTCTGGAATATGGCATCGTCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* *
30838168 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* *
30838216 TATGAGAGCTAGTGTAAGACCATGTCT-GAGACATGGCATCAGCAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGGCAT
30838261 CTTACCCTTT
Statistics
Matches: 192, Mismatches: 44, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
47 2 0.01
48 190 0.99
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
Found at i:30838143 original size:96 final size:96
Alignment explanation
Indices: 30837976--30838258 Score: 453
Period size: 96 Copynumber: 2.9 Consensus size: 96
30837966 ATACTAGGGT
* * * *
30837976 TATGTGAGCTAGTGAAAGACCATATTTGGAACATGACATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
30838041 GTCCATGTCTGGAGCATGGCATCAGCCTCGA
66 GACCATGTCTGGAGCATGGCATCAGCCTCGA
* *
30838072 TATGTGAGCCAATGTAAGACCATGTTTGAAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
**
30838137 GACCATGTCTGGAATATGGCATC-GTCCTCGA
66 GACCATGTCTGGAGCATGGCATCAG-CCTCGA
30838168 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
30838233 GACCATGTCT-GAGACATGGCATCAGC
66 GACCATGTCTGGAG-CATGGCATCAGC
30838259 ATCTTACCCT
Statistics
Matches: 171, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
95 3 0.02
96 167 0.98
97 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGAGCATGGCATCAGCCTCGA
Found at i:30850256 original size:41 final size:41
Alignment explanation
Indices: 30850211--30850328 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30850201 TGAAAGATAA
30850211 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30850252 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30850282 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30850323 ATGTAG
1 ATGTAG
30850329 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30850267 original size:71 final size:71
Alignment explanation
Indices: 30850179--30850342 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30850169 CGAGATGTAC
30850179 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30850244 AGGACA
66 AGGACA
30850250 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30850315 AGGACA
66 AGGACA
30850321 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30850343 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30857835 original size:41 final size:41
Alignment explanation
Indices: 30857790--30857907 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30857780 TGAAAGATAA
30857790 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30857831 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30857861 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30857902 ATGTAG
1 ATGTAG
30857908 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30857846 original size:71 final size:71
Alignment explanation
Indices: 30857758--30857921 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30857748 GAGATGTATC
30857758 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30857823 AGGACA
66 AGGACA
30857829 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30857894 AGGACA
66 AGGACA
30857900 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30857922 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30865382 original size:32 final size:32
Alignment explanation
Indices: 30865345--30865409 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
30865335 AATGCTTACC
30865345 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
30865377 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
30865409 A
1 A
30865410 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:30867476 original size:93 final size:93
Alignment explanation
Indices: 30867364--30867535 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30867354 CGCCCATAAG
* *
30867364 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30867429 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30867457 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30867522 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30867536 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30867532 original size:46 final size:46
Alignment explanation
Indices: 30867357--30867532 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30867347 TGTAACCCGC
* * *
30867357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30867403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30867453 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30867496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30867533 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30875015 original size:92 final size:92
Alignment explanation
Indices: 30874904--30875074 Score: 297
Period size: 92 Copynumber: 1.9 Consensus size: 92
30874894 CGCCCATAAG
* * *
30874904 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
30874969 ACGAGCTCGGATGCCTAGTTACATTCA
66 ACGAGCTCGGATGCCTAGTTACATTCA
*
30874996 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
30875061 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
30875075 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTCA
Found at i:30875071 original size:46 final size:46
Alignment explanation
Indices: 30874897--30875071 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
30874887 TGTAACCCGC
* * *
30874897 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
30874943 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* *
30874993 ---TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
30875035 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
30875072 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 1 0.01
45 2 0.02
46 92 0.84
47 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:30878420 original size:31 final size:31
Alignment explanation
Indices: 30878382--30878445 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30878372 CCTTTTCATA
30878382 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
30878413 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
30878444 TT
1 TT
30878446 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:30878690 original size:24 final size:24
Alignment explanation
Indices: 30878639--30878733 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
30878629 GCTTTATCAT
*
30878639 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
30878664 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
30878688 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
30878711 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
30878734 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 29 0.46
25 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:30878714 original size:23 final size:23
Alignment explanation
Indices: 30878660--30878732 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
30878650 CCTAGCCTCT
* *
30878660 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30878683 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
30878707 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
30878730 TTT
1 TTT
30878733 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:30878808 original size:20 final size:20
Alignment explanation
Indices: 30878783--30878849 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
30878773 TTATGAATAC
30878783 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30878803 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
30878823 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
30878843 ACCATGT
1 ATCATGT
30878850 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:30879620 original size:27 final size:27
Alignment explanation
Indices: 30879559--30879622 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
30879549 GGCGTATTCA
30879559 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
30879586 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
30879613 TCTTTTTACC
1 TCATTTTACC
30879623 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:30879733 original size:27 final size:26
Alignment explanation
Indices: 30879655--30879833 Score: 126
Period size: 27 Copynumber: 6.7 Consensus size: 26
30879645 TCATCCTACA
* * * *
30879655 AGGGTGTTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAAT-T
* **
30879682 AGGGTATTTCT-GAAATTTTGTAAATT
1 AGGGTATTT-TGGTAATTTTACAAATT
30879708 AGGGATATTTTGGTAATTTTACAAATT
1 AGGG-TATTTTGGTAATTTTACAAATT
* ** * **
30879735 GAAGGTATTTCAGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAATT
* *
30879762 AGTGGTATTTTGGTAATTTTACTAACT
1 AG-GGTATTTTGGTAATTTTACAAATT
* *
30879789 AGGGGTGTTTTGGTAATTTTACAAACTA
1 A-GGGTATTTTGGTAATTTTACAAA-TT
*
30879817 AGGGTATTGTGGTAATT
1 AGGGTATTTTGGTAATT
30879834 CTATCCTATA
Statistics
Matches: 117, Mismatches: 28, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
26 6 0.05
27 105 0.90
28 6 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAATT
Found at i:30879899 original size:27 final size:27
Alignment explanation
Indices: 30879869--30880020 Score: 234
Period size: 27 Copynumber: 5.7 Consensus size: 27
30879859 TTTCACAATT
30879869 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
30879896 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* * *
30879923 GAGGGTAAAATGGTAATTCTAT-AATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
* *
30879949 GAGGGTAAAACGGTAATTTTGCAAATT
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
30879976 GAGGGTAAAACGGTAATTTTATAAATC
1 GAGGGTAAAACGGTAATTTTGTAAATC
*
30880003 GAGGGTAAAATGGTAATT
1 GAGGGTAAAACGGTAATT
30880021 CTACAAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
26 22 0.20
27 90 0.80
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTTTGTAAATC
Found at i:30879911 original size:80 final size:80
Alignment explanation
Indices: 30879854--30880026 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 80
30879844 GGGGTATTTC
* * * *
30879854 AGTAATT-TCACAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGT
1 AGTAATTCT-ACAATCGAGGGTAAAACGGTAATTTTGCAAATCGAGGGTAAAACGGTAATTCTAT
*
30879918 AAATCGAGGGTAAAAT
65 AAATAGAGGGTAAAAT
* * * *
30879934 GGTAATTCTATAATCGAGGGTAAAACGGTAATTTTGCAAATTGAGGGTAAAACGGTAATTTTATA
1 AGTAATTCTACAATCGAGGGTAAAACGGTAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATA
*
30879999 AATCGAGGGTAAAAT
66 AATAGAGGGTAAAAT
*
30880014 GGTAATTCTACAA
1 AGTAATTCTACAA
30880027 ATTGAGGGCA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
80 84 0.99
81 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (80 bp):
AGTAATTCTACAATCGAGGGTAAAACGGTAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATA
AATAGAGGGTAAAAT
Found at i:30880028 original size:54 final size:54
Alignment explanation
Indices: 30879865--30880034 Score: 261
Period size: 54 Copynumber: 3.2 Consensus size: 54
30879855 GTAATTTCAC
* *
30879865 AATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTA
1 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGCA
* * *
30879919 AATCGAGGGTAAAATGGTAATTCTAT-AATCGAGGGTAAAACGGTAATTTTGCA
1 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGCA
* * *
30879972 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTACA
1 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGCA
30880026 AATTGAGGG
1 AATTGAGGG
30880035 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 49 0.47
54 55 0.53
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (54 bp):
AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGCA
Found at i:30881955 original size:13 final size:13
Alignment explanation
Indices: 30881937--30881962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30881927 TAACTATGTG
30881937 GGTAGGAATCAAT
1 GGTAGGAATCAAT
30881950 GGTAGGAATCAAT
1 GGTAGGAATCAAT
30881963 TCATTCTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GGTAGGAATCAAT
Found at i:30888180 original size:26 final size:26
Alignment explanation
Indices: 30888144--30888196 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
30888134 TTTTTATGAG
*
30888144 AAAGGCTCAATAAAAACTGCATCATT
1 AAAGGCACAATAAAAACTGCATCATT
30888170 AAAGGCACAATAAAAACTGCATCATT
1 AAAGGCACAATAAAAACTGCATCATT
30888196 A
1 A
30888197 CAGTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (26 bp):
AAAGGCACAATAAAAACTGCATCATT
Found at i:30893401 original size:33 final size:33
Alignment explanation
Indices: 30893359--30893424 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
30893349 TTTCTTCTTG
30893359 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
30893392 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
30893425 CCACTCAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.42, G:0.09, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:30898754 original size:5 final size:6
Alignment explanation
Indices: 30898736--30898772 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
30898726 TATCTTTAAT
30898736 CCTCCC CCTCCC CCTCCC CCTCCC CCT-CC CCTCCC CC
1 CCTCCC CCTCCC CCTCCC CCTCCC CCTCCC CCTCCC CC
30898773 CACCATGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.00, C:0.84, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTCCC
Found at i:30898773 original size:18 final size:18
Alignment explanation
Indices: 30898736--30898772 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
30898726 TATCTTTAAT
30898736 CCTCCCCCTCCCCCTCCC
1 CCTCCCCCTCCCCCTCCC
30898754 CCTCCCCCT-CCCCTCCC
1 CCTCCCCCTCCCCCTCCC
30898771 CC
1 CC
30898773 CACCATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.00, C:0.84, G:0.00, T:0.16
Consensus pattern (18 bp):
CCTCCCCCTCCCCCTCCC
Found at i:30905050 original size:45 final size:45
Alignment explanation
Indices: 30904999--30905084 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
30904989 ATGTAATCTG
*
30904999 AACTCATTA-AGTTGTGGTCTGAGTTCATGATATATGTGACATCCA
1 AACTCA-TAGAGTTGTGGTCTGAGTTCATGATATATATGACATCCA
30905044 AACTCATAGAGTTGTGGTCTGAGTTCATGATATATATGACA
1 AACTCATAGAGTTGTGGTCTGAGTTCATGATATATATGACA
30905085 CATGTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (45 bp):
AACTCATAGAGTTGTGGTCTGAGTTCATGATATATATGACATCCA
Found at i:30909907 original size:23 final size:23
Alignment explanation
Indices: 30909880--30909925 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30909870 AAAATTTGAT
30909880 TATTTGTATGCTTAATATAATAA
1 TATTTGTATGCTTAATATAATAA
30909903 TATTTGTATGCTTAATATAATAA
1 TATTTGTATGCTTAATATAATAA
30909926 GACTTAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (23 bp):
TATTTGTATGCTTAATATAATAA
Found at i:30912512 original size:29 final size:29
Alignment explanation
Indices: 30912479--30912552 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30912469 GTGACGAGAT
30912479 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30912508 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30912537 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30912553 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30912568 original size:29 final size:29
Alignment explanation
Indices: 30912536--30912611 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
30912526 CTGGAAATAT
* *
30912536 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30912565 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30912594 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30912612 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30912579 original size:58 final size:58
Alignment explanation
Indices: 30912479--30912611 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30912469 GTGACGAGAT
* * * * * *
30912479 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
30912537 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
30912595 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30912612 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:30920392 original size:29 final size:29
Alignment explanation
Indices: 30920359--30920432 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
30920349 GTGACGAGAT
30920359 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30920388 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30920417 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30920433 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30920448 original size:29 final size:29
Alignment explanation
Indices: 30920416--30920491 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
30920406 CTGGAAATAT
* *
30920416 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
30920445 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
30920474 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
30920492 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:30920459 original size:58 final size:58
Alignment explanation
Indices: 30920359--30920491 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
30920349 GTGACGAGAT
* * * * * *
30920359 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
30920417 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
30920475 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
30920492 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:30926820 original size:93 final size:93
Alignment explanation
Indices: 30926708--30926878 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30926698 GCCCATAAGT
* *
30926708 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30926773 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30926801 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30926866 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30926879 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30926894 original size:46 final size:46
Alignment explanation
Indices: 30926700--30926880 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
30926690 TGTAACCCGC
* * *
30926700 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30926746 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30926796 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
30926839 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
30926881 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30935077 original size:40 final size:40
Alignment explanation
Indices: 30935032--30935161 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
30935022 CGGAATATAA
30935032 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
30935072 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
30935112 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
30935152 CCGGATATAA
1 CCGGATATAA
30935162 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30935176 original size:40 final size:40
Alignment explanation
Indices: 30935048--30935199 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
30935038 ATAAGCATGT
* * *
30935048 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
30935088 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
30935128 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
30935168 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
30935200 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:30935182 original size:80 final size:80
Alignment explanation
Indices: 30935048--30935199 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
30935038 ATAAGCATGT
* *
30935048 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
30935113 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
30935128 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
30935191 CCCGGATAT
64 CCCGGATAT
30935200 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:30940718 original size:40 final size:39
Alignment explanation
Indices: 30940673--30940880 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
30940663 CGGAATACAA
*
30940673 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30940713 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30940753 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
30940793 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
30940833 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
30940873 CCGGATAT
1 CCGGATAT
30940881 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30940813 original size:80 final size:80
Alignment explanation
Indices: 30940673--30940879 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
30940663 CGGAATACAA
* * *
30940673 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
30940737 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
30940753 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
30940817 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
30940833 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
30940880 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:30948756 original size:40 final size:39
Alignment explanation
Indices: 30948711--30948918 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
30948701 CGGAATACAA
*
30948711 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30948751 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
30948791 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
30948831 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
30948871 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
30948911 CCGGATAT
1 CCGGATAT
30948919 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30948851 original size:80 final size:80
Alignment explanation
Indices: 30948711--30948917 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
30948701 CGGAATACAA
* * *
30948711 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
30948775 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
30948791 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
30948855 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
30948871 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
30948918 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:30955144 original size:16 final size:16
Alignment explanation
Indices: 30955119--30955172 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
30955109 TGAATTACTT
30955119 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
30955135 ATTACGGCTCTATTCA
1 ATTACAGCTCTATTCC
*
30955151 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
30955167 ATTACA
1 ATTACA
30955173 ACCAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:30955575 original size:13 final size:13
Alignment explanation
Indices: 30955541--30955576 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 13
30955531 AATTTTGAAA
30955541 TGATAATATTTAG
1 TGATAATATTTAG
30955554 -GAT--TATTTAG
1 TGATAATATTTAG
30955564 TGATAATATTTAG
1 TGATAATATTTAG
30955577 GAAAAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.35
11 3 0.15
12 3 0.15
13 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (13 bp):
TGATAATATTTAG
Found at i:30955979 original size:30 final size:30
Alignment explanation
Indices: 30955945--30956007 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
30955935 ACTTATTTTA
**
30955945 TTGTTAATTTTGTTCTTATTTTAAAGACAT
1 TTGTTAATTTTGTTAATATTTTAAAGACAT
*
30955975 TTGTTAATTTTGTTAATATTTTAGAGACAT
1 TTGTTAATTTTGTTAATATTTTAAAGACAT
30956005 TTG
1 TTG
30956008 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTAATATTTTAAAGACAT
Found at i:30958163 original size:35 final size:31
Alignment explanation
Indices: 30958134--30958201 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
30958124 TATTTGCTTA
30958134 TGATTAATTATATAAAATTTATTATTATTTG
1 TGATTAATTATATAAAATTTATTATTATTTG
* *
30958165 TGTTTAATTATATAAAATTTATTATCATTTG
1 TGATTAATTATATAAAATTTATTATTATTTG
30958196 TGATTA
1 TGATTA
30958202 TTAATTGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.54
Consensus pattern (31 bp):
TGATTAATTATATAAAATTTATTATTATTTG
Found at i:30962594 original size:18 final size:19
Alignment explanation
Indices: 30962573--30962610 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30962563 AACATCGAAT
30962573 CCTAAAAT-GGTATCGATA
1 CCTAAAATGGGTATCGATA
**
30962591 CCTAGGATGGGTATCGATA
1 CCTAAAATGGGTATCGATA
30962610 C
1 C
30962611 ATGTTCTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (19 bp):
CCTAAAATGGGTATCGATA
Found at i:30962963 original size:40 final size:40
Alignment explanation
Indices: 30962908--30962990 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
30962898 ACATTGTTGG
30962908 ATCAAGCTGCTAAAAGATTATGATTGAATAATTAATTATC
1 ATCAAGCTGCTAAAAGATTATGATTGAATAATTAATTATC
30962948 ATCAAGCTGCTAAAAGATTATGATTGAATAATTAATTATC
1 ATCAAGCTGCTAAAAGATTATGATTGAATAATTAATTATC
30962988 ATC
1 ATC
30962991 CTGGGAAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (40 bp):
ATCAAGCTGCTAAAAGATTATGATTGAATAATTAATTATC
Found at i:30965541 original size:48 final size:46
Alignment explanation
Indices: 30965360--30965584 Score: 210
Period size: 44 Copynumber: 4.8 Consensus size: 46
30965350 CATAGGGTAT
* * *
30965360 AATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACATATC
1 AATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCTC
** * *
30965410 CGTGCCGATGCATGTCCCAGATATGTCTTACACTAG--CACATCTC
1 AATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* * *
30965454 -ATAGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTC
1 AAT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
* *
30965500 AATGCCGATGCCATGTCCCAAACATGATCTTACACTGGCTCTCA--T-
1 AATGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCATCTC
30965545 AATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 AA--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
30965585 ACACACACAT
Statistics
Matches: 146, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 35 0.24
45 2 0.01
46 25 0.17
47 30 0.21
48 32 0.22
49 13 0.09
50 8 0.05
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
AATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC
Found at i:30969085 original size:13 final size:13
Alignment explanation
Indices: 30969053--30969088 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30969043 TCAAGTATCA
* *
30969053 ATTTCAAATGACC
1 ATTTCATATAACC
30969066 ATTTCATATAACC
1 ATTTCATATAACC
30969079 ATTTCATATA
1 ATTTCATATA
30969089 CATATTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:30972134 original size:22 final size:22
Alignment explanation
Indices: 30972106--30972149 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30972096 AGAGTTAGCT
30972106 TAGAAACTCACTTGAAAACCAC
1 TAGAAACTCACTTGAAAACCAC
*
30972128 TAGAAACTCACTTGACAACCAC
1 TAGAAACTCACTTGAAAACCAC
30972150 GGATAAACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.09, T:0.18
Consensus pattern (22 bp):
TAGAAACTCACTTGAAAACCAC
Found at i:30976376 original size:50 final size:50
Alignment explanation
Indices: 30976296--30976474 Score: 146
Period size: 50 Copynumber: 3.4 Consensus size: 50
30976286 ATGATATATG
*
30976296 GCATAAGACCATATATGAAAGAGGCTATGGTAGCCTGGTAGAGGTACATA
1 GCATAAGACCATAGATGAAAGAGGCTATGGTAGCCTGGTAGAGGTACATA
* * * ** * * *
30976346 GCATAAGATCATGGATGAAAGATG-TCATGGTGGAATGGTACAAGGTAAAAGGTATATG
1 GCATAAGACCATAGATGAAAGAGGCT-ATGGT---A--G--CCTGGT-AGAGGTACATA
* *
30976404 GCGTAAGACCAT-GATGAAAGAGGCTATGATAGCCTGGTATGAGGTACATA
1 GCATAAGACCATAGATGAAAGAGGCTATGGTAGCCTGGTA-GAGGTACATA
*
30976454 GCATAAGATCATAGATGAAAG
1 GCATAAGACCATAGATGAAAG
30976475 GTCCCATGAC
Statistics
Matches: 97, Mismatches: 20, Indels: 23
0.69 0.14 0.16
Matches are distributed among these distances:
49 2 0.02
50 46 0.47
51 8 0.08
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
57 18 0.19
58 19 0.20
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.22
Consensus pattern (50 bp):
GCATAAGACCATAGATGAAAGAGGCTATGGTAGCCTGGTAGAGGTACATA
Found at i:30976501 original size:7 final size:7
Alignment explanation
Indices: 30976489--30976514 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30976479 CATGACAGAT
30976489 GGTATAA
1 GGTATAA
30976496 GGTATAA
1 GGTATAA
30976503 GGTATAA
1 GGTATAA
30976510 GGTAT
1 GGTAT
30976515 TCAGTGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (7 bp):
GGTATAA
Found at i:30976513 original size:64 final size:64
Alignment explanation
Indices: 30976439--30976571 Score: 178
Period size: 64 Copynumber: 2.1 Consensus size: 64
30976429 ATGATAGCCT
* * *
30976439 GGTATGAGGTACAT-AGCATAAGATCATAGATGAAAGGTCCCATGACAGATGGTATAAGGTATAA
1 GGTATAAGGTA-ATCAGCATAAGACCATAGATGAAAAGTCCCATGACAGATGGTATAAGGTATAA
* ** *
30976503 GGTATAAGGTATTCAGTGTAAGGCCATAGATGAAAAGTCCCATGACAGATGGTATAAGGTATAA
1 GGTATAAGGTAATCAGCATAAGACCATAGATGAAAAGTCCCATGACAGATGGTATAAGGTATAA
*
30976567 AGTAT
1 GGTAT
30976572 TCAGTGTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 59 0.98
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (64 bp):
GGTATAAGGTAATCAGCATAAGACCATAGATGAAAAGTCCCATGACAGATGGTATAAGGTATAA
Found at i:30976638 original size:58 final size:58
Alignment explanation
Indices: 30976496--30976773 Score: 301
Period size: 58 Copynumber: 4.8 Consensus size: 58
30976486 GATGGTATAA
* ** * * * * *
30976496 GGTATAAGGTATAAGGTATTCAGTGTAAGGCCATAGATGAAA-AGTCCCATGACAG-AT
1 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGA-TGCCATGGCTGCAT
* * **
30976553 GGTATAAGGTATAAAGTATTCAGTGTAAGACCATGGATGAAAGATGCCATGGC-GACAT
1 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGCCATGGCTG-CAT
* * * *
30976611 GGTACAATGTATAAGGTATTTGGTGTAAGACCATGAATGAAAGATGCCACGGCTGCAA
1 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGCCATGGCTGCAT
* *
30976669 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGTCATGGCTGTAT
1 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGCCATGGCTGCAT
* * ** * *
30976727 GGTATAAGGTATAAGGTATATGGCATAAGACCATAGAAGAAAGATGC
1 GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGC
30976774 TACGAAAGTC
Statistics
Matches: 191, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
56 1 0.01
57 46 0.24
58 143 0.75
59 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (58 bp):
GGTACAAGGTATAAGGTATTTGGTGTAAGACCATGGATGAAAGATGCCATGGCTGCAT
Found at i:30977118 original size:33 final size:32
Alignment explanation
Indices: 30977004--30977123 Score: 154
Period size: 31 Copynumber: 3.8 Consensus size: 32
30976994 GCACCTACAA
*
30977004 AGATAGTCCGCTGGGACAGTAAACACA-AAAT
1 AGATAGTCCGCTAGGACAGTAAACACAGAAAT
* * *
30977035 AGATAGTCCGTTGGGATAGTAAACACAG-AAT
1 AGATAGTCCGCTAGGACAGTAAACACAGAAAT
*
30977066 AGATAGTCCGCTAGGACAGTAAACACAGAACAG
1 AGATAGTCCGCTAGGACAGTAAACACAGAA-AT
* *
30977099 AGATAGTCCACTAGAACAGTAAACA
1 AGATAGTCCGCTAGGACAGTAAACA
30977124 TAGATAGAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
31 53 0.68
32 1 0.01
33 24 0.31
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (32 bp):
AGATAGTCCGCTAGGACAGTAAACACAGAAAT
Found at i:30978734 original size:20 final size:20
Alignment explanation
Indices: 30978709--30978746 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30978699 CTTATGATTG
30978709 ATTAAAAAAGTAATTATCTA
1 ATTAAAAAAGTAATTATCTA
* *
30978729 ATTAAATAATTAATTATC
1 ATTAAAAAAGTAATTATC
30978747 CTCGATTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTAAAAAAGTAATTATCTA
Found at i:30983241 original size:13 final size:13
Alignment explanation
Indices: 30983223--30983247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30983213 TAATGGTATA
30983223 TTGAATCCATGAT
1 TTGAATCCATGAT
30983236 TTGAATCCATGA
1 TTGAATCCATGA
30983248 AAATTTAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:30984776 original size:48 final size:48
Alignment explanation
Indices: 30984707--30984978 Score: 454
Period size: 48 Copynumber: 5.7 Consensus size: 48
30984697 TCGTAGTGTA
* * * ** *
30984707 TATATGTGATAAGGCCTAATGGCCGATGTGAAATACATGTGTGTTATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
30984755 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
30984803 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
30984851 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * *
30984899 TATATGTGGTAAAGCAGAATGGCTAATGTGAAATATACGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
30984947 AATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
30984979 TGTTGTAACA
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 213 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:30985073 original size:37 final size:37
Alignment explanation
Indices: 30985023--30985108 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
30985013 GGAAATATAT
*
30985023 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
30985060 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
*
30985097 TCCTGGTAAGAC
1 TCCGGGTAAGAC
30985109 TTCGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
Found at i:30988060 original size:58 final size:58
Alignment explanation
Indices: 30987990--30988111 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
30987980 TTCAAGGCAA
*
30987990 AAGATAGAAAAAATTCATACTACAGGGGTCACACAGCTGAGACACACGCTCGTGTCTC
1 AAGATGGAAAAAATTCATACTACAGGGGTCACACAGCTGAGACACACGCTCGTGTCTC
30988048 AAGATGGAAAAAATTCATACTACAGGGGTCACACAGCTGAGACACACGCTCGTGTCTC
1 AAGATGGAAAAAATTCATACTACAGGGGTCACACAGCTGAGACACACGCTCGTGTCTC
30988106 AAGATG
1 AAGATG
30988112 CGTGGGTATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (58 bp):
AAGATGGAAAAAATTCATACTACAGGGGTCACACAGCTGAGACACACGCTCGTGTCTC
Found at i:30989132 original size:38 final size:38
Alignment explanation
Indices: 30989081--30989157 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
30989071 ATGCTTAGTA
30989081 AGTTCATATAAACTTTCAGCACAACATTCTATTTCAAT
1 AGTTCATATAAACTTTCAGCACAACATTCTATTTCAAT
30989119 AGTTCATATAAACTTTCAGCACAACATTCTATTTCAAT
1 AGTTCATATAAACTTTCAGCACAACATTCTATTTCAAT
30989157 A
1 A
30989158 ACAAACTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (38 bp):
AGTTCATATAAACTTTCAGCACAACATTCTATTTCAAT
Found at i:30992723 original size:11 final size:11
Alignment explanation
Indices: 30992683--30992722 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
30992673 ACAATAACAA
30992683 CAAAATAATAG
1 CAAAATAATAG
*
30992694 CAACATAATAG
1 CAAAATAATAG
* *
30992705 TAAAATAGTAG
1 CAAAATAATAG
30992716 CAAAATA
1 CAAAATA
30992723 GAAAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:30992731 original size:22 final size:22
Alignment explanation
Indices: 30992684--30992745 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
30992674 CAATAACAAC
* *
30992684 AAAATAATAGCAACATAATAGT
1 AAAATAATAGCAAAATAAAAGT
*
30992706 AAAATAGTAGCAAAATAGAAAG-
1 AAAATAATAGCAAAATA-AAAGT
* **
30992728 AAAACAATAAAAAAATAA
1 AAAATAATAGCAAAATAA
30992746 CATTCAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.03
22 28 0.88
23 3 0.09
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAATAATAGCAAAATAAAAGT
Found at i:30999363 original size:62 final size:62
Alignment explanation
Indices: 30999287--30999429 Score: 268
Period size: 62 Copynumber: 2.3 Consensus size: 62
30999277 TCAAGTCTAG
30999287 TAACAGCTACTCAACAAAAATTAACATGTGGGTACCGTATGTAATTAATTTTTTTATTTTAA
1 TAACAGCTACTCAACAAAAATTAACATGTGGGTACCGTATGTAATTAATTTTTTTATTTTAA
30999349 TAACAGCTACTCAACAAAAATTAACATGTGGGTACCGTATGTAATTAATTTTTTTATTTTAA
1 TAACAGCTACTCAACAAAAATTAACATGTGGGTACCGTATGTAATTAATTTTTTTATTTTAA
* *
30999411 TAATAGCTACTCAATAAAA
1 TAACAGCTACTCAACAAAA
30999430 TAAAATAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 79 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (62 bp):
TAACAGCTACTCAACAAAAATTAACATGTGGGTACCGTATGTAATTAATTTTTTTATTTTAA
Found at i:30999856 original size:30 final size:31
Alignment explanation
Indices: 30999790--30999860 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
30999780 TGAGAAGTAG
* * *
30999790 TGACTAAAATTGACAAATTTGAAAAGTTTAG
1 TGACTAAAATTAACAAATTTGAAAAGTATAA
*
30999821 GGACTAAAATTAATCAAA-TT-AAAAGTATAA
1 TGACTAAAATTAA-CAAATTTGAAAAGTATAA
30999851 TGACTAAAAT
1 TGACTAAAAT
30999861 CCACAACTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 17 0.50
31 13 0.38
32 4 0.12
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.30
Consensus pattern (31 bp):
TGACTAAAATTAACAAATTTGAAAAGTATAA
Found at i:31000538 original size:16 final size:16
Alignment explanation
Indices: 31000514--31000562 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
31000504 TCTGAAGACA
*
31000514 TTTAGAATGCTAGCAT
1 TTTAAAATGCTAGCAT
*
31000530 TTTAAAATGC-ATCAT
1 TTTAAAATGCTAGCAT
* *
31000545 TTTAAAATACTAGTAT
1 TTTAAAATGCTAGCAT
31000561 TT
1 TT
31000563 GTGATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (16 bp):
TTTAAAATGCTAGCAT
Found at i:31006406 original size:24 final size:22
Alignment explanation
Indices: 31006361--31006414 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
31006351 ATAATTTTTT
31006361 ATAATATTTAATTTTAAAAATTA
1 ATAA-ATTTAATTTTAAAAATTA
* *
31006384 ATTAATTTCATTTTAAAATAATTA
1 ATAAATTTAATTTT-AAA-AATTA
31006408 ATAAATT
1 ATAAATT
31006415 AAAAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 6 0.23
24 11 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTTAATTTTAAAAATTA
Found at i:31006407 original size:20 final size:22
Alignment explanation
Indices: 31006366--31006409 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
31006356 TTTTTATAAT
31006366 ATTTAATTTTAAAAATTAATTA
1 ATTTAATTTTAAAAATTAATTA
*
31006388 ATTTCATTTT-AAAA-TAATTA
1 ATTTAATTTTAAAAATTAATTA
31006408 AT
1 AT
31006410 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAATTTTAAAAATTAATTA
Found at i:31006574 original size:28 final size:28
Alignment explanation
Indices: 31006498--31006574 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 28
31006488 TTAATATTAA
* * *
31006498 AATAATATAAAAATTTATCATGATTTAAAT
1 AATAATATTAAAA--TATTATGCTTTAAAT
* *
31006528 ATTAATATTAATATATTATGCTTTAAAT
1 AATAATATTAAAATATTATGCTTTAAAT
*
31006556 AATATTATTAACAAT-TTAT
1 AATAATATTAA-AATATTAT
31006575 TACAAATGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 26 0.68
29 2 0.05
30 10 0.26
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (28 bp):
AATAATATTAAAATATTATGCTTTAAAT
Found at i:31007245 original size:22 final size:22
Alignment explanation
Indices: 31007220--31007263 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31007210 TAGTCATATA
31007220 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
31007242 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
31007264 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:31007316 original size:16 final size:17
Alignment explanation
Indices: 31007288--31007319 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
31007278 ATTTTATTTT
31007288 AATAATAAATTTTAAAA
1 AATAATAAATTTTAAAA
31007305 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
31007320 TATTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATAAATTTTAAAA
Found at i:31007408 original size:15 final size:15
Alignment explanation
Indices: 31007357--31007408 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
31007347 ATTCAATATT
*
31007357 AATATTTTAATAATA
1 AATATATTAATAATA
*
31007372 AATACTTATTACAATTATA
1 AATA--TATT--AATAATA
31007391 AATATATTAATAATA
1 AATATATTAATAATA
31007406 AAT
1 AAT
31007409 GTTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 7 0.23
19 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:31009995 original size:8 final size:8
Alignment explanation
Indices: 31009972--31010007 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
31009962 AAATTAAATT
31009972 AATAATGAA
1 AATAAT-AA
*
31009981 AAAAATAA
1 AATAATAA
31009989 AATAATAA
1 AATAATAA
31009997 AATAATAA
1 AATAATAA
31010005 AAT
1 AAT
31010008 TCAATAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 20 0.80
9 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:31014219 original size:59 final size:58
Alignment explanation
Indices: 31014146--31014277 Score: 158
Period size: 59 Copynumber: 2.3 Consensus size: 58
31014136 ATTTAAGCCC
* * * * *
31014146 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATA-TATTTCCAGCAT
* * **
31014205 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
31014263 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
31014278 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 26 0.41
59 36 0.57
60 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:31014235 original size:29 final size:29
Alignment explanation
Indices: 31014195--31014277 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
31014185 TGCCGTATTT
31014195 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
31014224 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
31014253 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
31014278 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:31015474 original size:19 final size:17
Alignment explanation
Indices: 31015440--31015494 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
31015430 GAATGAACAC
*
31015440 TTTTTTT-TTCTTTTCT
1 TTTTTTTCTTCATTTCT
31015456 TTGTTTTTCTTCATATTCT
1 TT-TTTTTCTTCAT-TTCT
*
31015475 CTTTTTTTTTTCATTTCT
1 -TTTTTTTCTTCATTTCT
31015493 TT
1 TT
31015495 ATTCTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 2 0.06
17 7 0.21
18 8 0.24
19 14 0.42
20 2 0.06
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTTCTTCATTTCT
Found at i:31027448 original size:28 final size:28
Alignment explanation
Indices: 31027408--31027463 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31027398 GAAGGTGTGC
31027408 ACAATTGGATTGAATGTTTATGAATGAT
1 ACAATTGGATTGAATGTTTATGAATGAT
31027436 ACAATTGGATTGAATGTTTATGAATGAT
1 ACAATTGGATTGAATGTTTATGAATGAT
31027464 TAGGTTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (28 bp):
ACAATTGGATTGAATGTTTATGAATGAT
Found at i:31029849 original size:26 final size:25
Alignment explanation
Indices: 31029767--31029850 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 25
31029757 ATATATCTTT
31029767 TACACATAGTGGCCTGCACTTAGTAC
1 TACACATAGT-GCCTGCACTTAGTAC
* * * *
31029793 TACACAT-GTG-ATCGAAGC-TATTGAG
1 TACACATAGTGCCT-GCA-CTTAGT-AC
31029818 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGT-GCCTGCACTTAGTAC
31029844 TACACAT
1 TACACAT
31029851 GCGACCTAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 1 0.02
24 6 0.14
25 11 0.26
26 18 0.42
27 6 0.14
28 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
TACACATAGTGCCTGCACTTAGTAC
Found at i:31029898 original size:50 final size:49
Alignment explanation
Indices: 31029768--31029955 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
31029758 TATATCTTTT
* * * * *
31029768 ACACATAGTGGCCTGCACTTAGTACTACACATGTGATCGAAGCTATTGAGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATTG-GA
*
31029819 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGA
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCAT-TGGA
* * * * **
31029869 ACACGTAGTATCCTGCACTTAGCACTACACACGTGACCTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCA-TTGGA
*
31029921 ACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ACACATAGTAGCCTGCACTTAGTACTACACATGTG
31029956 TTCTCACAAT
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 38 0.33
51 39 0.34
52 37 0.32
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (49 bp):
ACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATTGGA
Found at i:31044756 original size:46 final size:46
Alignment explanation
Indices: 31044658--31044877 Score: 162
Period size: 47 Copynumber: 4.7 Consensus size: 46
31044648 TGTAAGAGCT
* * * * *
31044658 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTAGAGAC-A-TAGCC
*
31044706 AGTGTAAGA-CATGTCTAGGACATGCATCAGCCTAGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTAGAGACAT-AGCC
* * * * * *
31044752 AGTGTAAGA-CATGTTTGGGACATGCGT-TGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTA-GAGA-CATAGCC
* * * *
31044798 AGTGTAAGACCATGTCTGGGACATGGCTTCA-ACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTAGAGACAT-AGCC
* *
31044845 AGTGTAAGACCGTGTCTGGGACACGACATCAGC
1 AGTGTAAGACCATGTCTGGGACATG-CATCAGC
31044878 ATCTTACCCC
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 58 0.41
47 62 0.44
48 14 0.10
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCCTAGAGACATAGCC
Found at i:31045911 original size:42 final size:42
Alignment explanation
Indices: 31045843--31045937 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
31045833 GGCATGTCAT
* * *
31045843 GGCCGTGTGAAGGACATGGGCCAGGGACACTGGAGTGTGATA
1 GGCCGTGTGAAGGACACGGGCCAGGGACACGGGAGTGTGACA
* *
31045885 GGCCGTGTGAAGGACACGGGCTAGGGACACGGGTGTGTGACA
1 GGCCGTGTGAAGGACACGGGCCAGGGACACGGGAGTGTGACA
31045927 GGCCGTGTGAA
1 GGCCGTGTGAA
31045938 AACCCTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.22, C:0.18, G:0.44, T:0.16
Consensus pattern (42 bp):
GGCCGTGTGAAGGACACGGGCCAGGGACACGGGAGTGTGACA
Found at i:31052718 original size:52 final size:52
Alignment explanation
Indices: 31052640--31052745 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
31052630 GACAAAGAAA
31052640 AAATTGAGGTTATTGAGAAATTGCCACCACCTACTATAGTAAAAGGTATCCG
1 AAATTGAGGTTATTGAGAAATTGCCACCACCTACTATAGTAAAAGGTATCCG
31052692 AAATTGAGGTTATTGAGAAATTGCCACCACCTACTATAGTAAAAGGTATCCG
1 AAATTGAGGTTATTGAGAAATTGCCACCACCTACTATAGTAAAAGGTATCCG
31052744 AA
1 AA
31052746 GCTTGCTCGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (52 bp):
AAATTGAGGTTATTGAGAAATTGCCACCACCTACTATAGTAAAAGGTATCCG
Found at i:31057665 original size:16 final size:16
Alignment explanation
Indices: 31057646--31057677 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31057636 ATTTGTTTTA
31057646 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
31057662 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
31057678 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:31058154 original size:151 final size:151
Alignment explanation
Indices: 31057878--31058272 Score: 612
Period size: 151 Copynumber: 2.6 Consensus size: 151
31057868 TCGAAGCTAT
* * *
31057878 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATATGGTACCCATAGTA
1 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTA
* *
31057943 ACATGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
66 GCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
31058008 TACACACGTGATCCAAGTTAA
131 TACACACGTGATCCAAGTTAA
* * *
31058029 -TGGGTACGCACAGTAGCCTGCACTTAGTACTACGCATGGGACCTATCAATCTGGTACACGTAGT
1 CT-GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGT
* * *
31058093 AGCCTGCACTTAGTACTACACATGTGACTTAACCATCTGATATACGTAGTAGTCTGCACTTAGTA
65 AGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTA
*
31058158 CTACACACGTGATCGAAGTTAA
130 CTACACACGTGATCCAAGTTAA
* * * *
31058180 CTGGTATGCATAGTAGCCTACACTTAGTACTACACATGTGACTTATCAATCTGGTACATGTAGTA
1 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTA
* *
31058245 GCCTGCATTTAGTACTACATACGTGACT
66 GCCTGCACTTAGTACTACACACGTGACT
31058273 CACAACGGAT
Statistics
Matches: 220, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
150 1 0.00
151 218 0.99
152 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (151 bp):
CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTA
GCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
TACACACGTGATCCAAGTTAA
Found at i:31058184 original size:101 final size:99
Alignment explanation
Indices: 31057878--31058271 Score: 358
Period size: 101 Copynumber: 3.9 Consensus size: 99
31057868 TCGAAGCTAT
* * * * * *
31057878 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATATGGTACCCATAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTATCAATCTGATACACGTAGTA
* * * *
31057943 ACATGCACTTAGTACTACACACGTGACTTAACCAT
66 GCCTGCACTTAGTACTACACACGTGAC-GAACCAA
* * * ** * * * * **
31057978 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGTTAAT-GGGTACGCACAG
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CTTA-TCAATCTGATACACGTAG
* * * ** *
31058042 TAGCCTGCACTTAGTACTACGCATGGGACCTATCAA
64 TAGCCTGCACTTAGTACTACACACGTGACGAACCAA
* * * *
31058078 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCATCTGATATACGTAGT
1 -CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTATCAATCTGATACACGTAGT
* **
31058143 AGTCTGCACTTAGTACTACACACGTGATCGAAGTTAA
65 AGCCTGCACTTAGTACTACACACGTGA-CGAA-CCAA
** * * *
31058180 CTGGTATGCATAGTAGCCTACACTTAGTACTACACATGTGACTTATCAATCTGGTACATGTAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTATCAATCTGATACACGTAGTA
* *
31058245 GCCTGCATTTAGTACTACATACGTGAC
66 GCCTGCACTTAGTACTACACACGTGAC
31058272 TCACAACGGA
Statistics
Matches: 238, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
99 2 0.01
100 73 0.31
101 156 0.66
102 7 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (99 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACTTATCAATCTGATACACGTAGTA
GCCTGCACTTAGTACTACACACGTGACGAACCAA
Found at i:31058271 original size:50 final size:50
Alignment explanation
Indices: 31057876--31058272 Score: 384
Period size: 50 Copynumber: 7.9 Consensus size: 50
31057866 AATCGAAGCT
* * * *
31057876 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
* * * * * * *
31057926 ATATGGTACCCATAGTAACATGCACTTAGTACTACACACGTGACTTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
* ** *
31057976 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGTTA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTTA-TCA
* * ** * * * *
31058028 AT-GGGTACGCACAGTAGCCTGCACTTAGTACTACGCATGGGACCTATCA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
* * *
31058077 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
* * * ** *
31058127 ATCTGATATACGTAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGTTA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTTA-TCA
** * * *
31058179 A-CTGGTATGCATAGTAGCCTACACTTAGTACTACACATGTGACTTATCA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
* * *
31058228 ATCTGGTACATGTAGTAGCCTGCATTTAGTACTACATACGTGACT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
31058273 CACAACGGAT
Statistics
Matches: 277, Mismatches: 64, Indels: 12
0.78 0.18 0.03
Matches are distributed among these distances:
49 7 0.03
50 196 0.71
51 71 0.26
52 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCA
Found at i:31058942 original size:30 final size:30
Alignment explanation
Indices: 31058885--31058944 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31058875 CAAAAATCAT
* * *
31058885 ACTTTTACAAATTTTCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
31058915 ACTTTCACATATTTGCACTTTGGCCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
31058945 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:31061877 original size:40 final size:40
Alignment explanation
Indices: 31061769--31061978 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
31061759 CGGGATTTAA
* * * * *
31061769 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
31061809 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31061849 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31061889 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31061929 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31061969 CCGGATATAT
1 CCGGATATAT
31061979 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:31070011 original size:40 final size:40
Alignment explanation
Indices: 31069903--31070112 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
31069893 CGGGATTTAA
* * * * *
31069903 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
31069943 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31069983 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31070023 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31070063 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
31070103 CCGGATATAT
1 CCGGATATAT
31070113 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:31072721 original size:15 final size:15
Alignment explanation
Indices: 31072687--31072746 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
31072677 TATAGATAAC
* * *
31072687 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
31072702 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
31072717 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
31072732 AAGAAATCCATGATA
1 AAGAAATCCAAGATA
31072747 CAATATCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.15
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:31072722 original size:30 final size:30
Alignment explanation
Indices: 31072688--31072746 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
31072678 ATAGATAACA
* * *
31072688 AGAAAACCAGGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATAAAGAAATCCAAGATAG
* *
31072718 AGAAATCCAAGATAAAGAAATCCATGATA
1 AGAAAACCAAGATAAAGAAATCCAAGATA
31072747 CAATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.15
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAATCCAAGATAG
Found at i:31072895 original size:2 final size:2
Alignment explanation
Indices: 31072888--31072927 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
31072878 GTACCTTTCC
31072888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31072928 CGAATAGAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31082632 original size:33 final size:33
Alignment explanation
Indices: 31082593--31082750 Score: 199
Period size: 33 Copynumber: 4.8 Consensus size: 33
31082583 ACATACATAA
* * *
31082593 CCTTTTCAAGTAGTATACACGAAGCATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* *
31082626 CTTTTTCAAATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * *
31082659 CCTTTTCAATTAGTATACACAAAGTATACGTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * *
31082692 CCTTTTCAAGCGGTATACATAAAGTATATCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* *
31082725 CCTTTTCAATTGGTATACATAAAGTA
1 CCTTTTCAAGTGGTATACACAAAGTA
31082751 CACTGTACAC
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 108 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:31086565 original size:27 final size:26
Alignment explanation
Indices: 31086530--31086640 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
31086520 AGCATGGCTG
* *
31086530 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31086556 CCAGATACAGATAATCGTGGCAGA-CCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
31086583 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
31086610 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31086637 CCAG
1 CCAG
31086641 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
26 21 0.28
27 48 0.63
28 7 0.09
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31086593 original size:53 final size:54
Alignment explanation
Indices: 31086530--31086640 Score: 163
Period size: 53 Copynumber: 2.1 Consensus size: 54
31086520 AGCATGGCTG
*
31086530 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGA-CCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
31086583 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
31086637 CCAG
1 CCAG
31086641 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 27 0.52
54 25 0.48
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:31091856 original size:11 final size:10
Alignment explanation
Indices: 31091836--31091870 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
31091826 AGTACAGACA
31091836 AATAATTCAG
1 AATAATTCAG
31091846 AATATATTCAG
1 AATA-ATTCAG
*
31091857 AAAAATTCAG
1 AATAATTCAG
31091867 AATA
1 AATA
31091871 CTTACAGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (10 bp):
AATAATTCAG
Found at i:31092960 original size:27 final size:26
Alignment explanation
Indices: 31092925--31093036 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
31092915 AGCATGGCTG
* *
31092925 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31092951 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
31092979 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
31093006 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31093033 CCAG
1 CCAG
31093037 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31093017 original size:54 final size:54
Alignment explanation
Indices: 31092925--31093036 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
31092915 AGCATGGCTG
* *
31092925 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
31092979 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
31093033 CCAG
1 CCAG
31093037 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:31097109 original size:68 final size:70
Alignment explanation
Indices: 31097037--31097234 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
31097027 ACACCCTGTA
* * * *
31097037 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
31097099 ATAAAT
65 ATAAAT
*
31097105 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
31097170 ATAAAT
65 ATAAAT
*
31097176 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
31097235 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:31097148 original size:41 final size:41
Alignment explanation
Indices: 31097103--31097220 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31097093 TGAAAGATAA
31097103 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31097144 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31097174 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31097215 ATGTAG
1 ATGTAG
31097221 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31097160 original size:71 final size:71
Alignment explanation
Indices: 31097071--31097234 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31097061 GAGATGTATC
31097071 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31097136 AGGACA
66 AGGACA
31097142 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31097207 AGGACA
66 AGGACA
31097213 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31097235 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31108524 original size:23 final size:24
Alignment explanation
Indices: 31108480--31108524 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
31108470 CCGTATTGTT
31108480 GGAGAAATAAGGAAGGTAAGAGAA
1 GGAGAAATAAGGAAGGTAAGAGAA
*
31108504 GGAGAAATAA-GACGGTAAGAG
1 GGAGAAATAAGGAAGGTAAGAG
31108525 GTAACAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.51, C:0.02, G:0.38, T:0.09
Consensus pattern (24 bp):
GGAGAAATAAGGAAGGTAAGAGAA
Found at i:31115567 original size:40 final size:39
Alignment explanation
Indices: 31115407--31115569 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
31115397 TGTGTATGAA
*
31115407 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
31115446 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
31115485 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
31115524 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
31115564 TGTGCG
1 TGTGCG
31115570 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31115585 original size:40 final size:39
Alignment explanation
Indices: 31115407--31115600 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
31115397 TGTGTATGAA
* *
31115407 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
31115446 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
31115485 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
31115524 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
31115564 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
31115601 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31123458 original size:40 final size:39
Alignment explanation
Indices: 31123299--31123460 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
31123289 TGTGTATGAA
*
31123299 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
31123338 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* **
31123377 GGTGCGAG-CATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
31123415 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
31123455 TGTGCG
1 TGTGCG
31123461 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
38 35 0.31
39 60 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31123476 original size:40 final size:40
Alignment explanation
Indices: 31123316--31123496 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 40
31123306 ATTGTGATAT
* *** *
31123316 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
31123355 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAG-CATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
31123393 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
31123432 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
31123472 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31123497 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 35 0.28
39 44 0.35
40 45 0.36
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:31127331 original size:27 final size:27
Alignment explanation
Indices: 31127301--31127494 Score: 264
Period size: 27 Copynumber: 7.2 Consensus size: 27
31127291 TACTGAAATG
**
31127301 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
31127328 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
31127355 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
31127382 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
**
31127409 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
31127436 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
31127463 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
31127490 CCCTC
1 CCCTC
31127495 AATTGTGAAA
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:31127416 original size:81 final size:81
Alignment explanation
Indices: 31127301--31127494 Score: 309
Period size: 81 Copynumber: 2.4 Consensus size: 81
31127291 TACTGAAATG
* *
31127301 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
*
31127366 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* *
31127382 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
31127447 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
31127463 CCCTC-AGTTTACAAAATTACCATTTTACCCTC
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTC
31127495 AATTGTGAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 104 0.99
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:31127660 original size:27 final size:27
Alignment explanation
Indices: 31127497--31127669 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
31127487 TTACCCTCAA
* *
31127497 TTGTGAAATTACTAAAATACCCCTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
31127523 ATGATAGAATTACCAAAATACCCCTAAT
1 TTG-TAAAATTACCAAAATACCCCTGAT
31127551 TTGTAAAATTACCAAAATACCCCT-AGT
1 TTGTAAAATTACCAAAATACCCCTGA-T
* * *
31127578 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
31127605 TTGTGAAATTACCAAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTGAT
*
31127632 TTGTAAAATTACAAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
**
31127659 TTACAAAATTA
1 TTGTAAAATTA
31127670 TAGAAATACC
Statistics
Matches: 121, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
26 3 0.02
27 115 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:31127667 original size:81 final size:81
Alignment explanation
Indices: 31127530--31127679 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
31127520 TGTATGATAG
* ** *
31127530 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACAAAAATACCCCTAGTTTACAAAATTACAGAAA
31127595 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
31127611 AATTACCAAAATACCCTTAATTTGTAAAATTACAAAAATACCCCT-GATTTACAAAATTATAGAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACAAAAATACCCCTAG-TTTACAAAATTACAGAA
31127675 ATACC
65 ATACC
31127680 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACAAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:31127668 original size:54 final size:54
Alignment explanation
Indices: 31127530--31127735 Score: 171
Period size: 54 Copynumber: 3.8 Consensus size: 54
31127520 TGTATGATAG
* * * ** * *
31127530 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCACTGATTTACAAAATTACCAAAATACCCTTAATTTGTAA
** * ***
31127584 AATTACCGAAATACCACTGGTTTGTGAAATTACCAAAATACCCTTAATTTGTAA
1 AATTACAAAAATACCACTGATTTACAAAATTACCAAAATACCCTTAATTTGTAA
* * * *
31127638 AATTACAAAAATACCCCTGATTTACAAAATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACAAAAATACCACTGATTTACAAAATTACCA-AAATACCCTT-AATTTGT-AA
* * * * **
31127694 AATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 AATTACAAAAATACCACTGATTTACAAAATTACCAAAATACC
31127736 TTTGGTTTGT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 82 0.66
55 5 0.04
56 36 0.29
57 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACAAAAATACCACTGATTTACAAAATTACCAAAATACCCTTAATTTGTAA
Found at i:31127676 original size:27 final size:27
Alignment explanation
Indices: 31127619--31127735 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
31127609 GAAATTACCA
* ** * *
31127619 AAATACCCTTAATTTGTAAAATTACAA
1 AAATACCCTTGATTTACAAAATTATAG
*
31127646 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
31127673 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
31127702 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
31127729 AAATACC
1 AAATACC
31127736 TTTGGTTTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
27 48 0.63
28 7 0.09
29 21 0.28
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:31127837 original size:27 final size:27
Alignment explanation
Indices: 31127783--31127860 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
31127773 AAATGACTAA
* * *
31127783 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
31127810 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
31127837 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
31127861 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Done.