Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 136 of 333
Found at i:44365076 original size:23 final size:23
Alignment explanation
Indices: 44365048--44365093 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
44365038 GACTTGGTCC
44365048 AGGTTGAGGTAATCCAAAACTAT
1 AGGTTGAGGTAATCCAAAACTAT
*
44365071 AGGTTGAGGTAATCCAAGACTAT
1 AGGTTGAGGTAATCCAAAACTAT
44365094 CTTTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (23 bp):
AGGTTGAGGTAATCCAAAACTAT
Found at i:44365643 original size:14 final size:15
Alignment explanation
Indices: 44365610--44365642 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
44365600 TTTTTCAAAG
44365610 AAAAGTGGTAGTTTA
1 AAAAGTGGTAGTTTA
44365625 AAAAGTGGTAGTTTA
1 AAAAGTGGTAGTTTA
44365640 AAA
1 AAA
44365643 GACGTATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (15 bp):
AAAAGTGGTAGTTTA
Found at i:44376753 original size:16 final size:16
Alignment explanation
Indices: 44376732--44376799 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
44376722 TTTGGTTCGC
44376732 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
44376748 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
44376764 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
*
44376780 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
44376796 TGTA
1 TGTA
44376800 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44377068 original size:17 final size:17
Alignment explanation
Indices: 44377048--44377167 Score: 58
Period size: 17 Copynumber: 7.2 Consensus size: 17
44377038 ATTTTTTTGT
44377048 AATATATAATTTGA-TAA
1 AATATATAATTT-ATTAA
44377065 AATATATGAATTTATTAA
1 AATATAT-AATTTATTAA
*
44377083 AAT-TATAATATA-TAA
1 AATATATAATTTATTAA
* * *
44377098 TATTATAAAATATAATTTAA
1 -AATATATAAT-TTA-TTAA
*
44377118 AATA-ATTA-TTATT--
1 AATATATAATTTATTAA
**
44377131 AA-ATATAATTTAACAAA
1 AATATATAATTT-ATTAA
*
44377148 AATATATAATTTAATAA
1 AATATATAATTTATTAA
44377165 AAT
1 AAT
44377168 TCTTAGTATT
Statistics
Matches: 76, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
12 1 0.01
13 5 0.07
14 2 0.03
15 6 0.08
16 9 0.12
17 24 0.32
18 23 0.30
19 3 0.04
20 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATATAATTTATTAA
Found at i:44377095 original size:24 final size:22
Alignment explanation
Indices: 44377065--44377113 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
44377055 AATTTGATAA
44377065 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
44377089 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
44377111 AAT
1 AAT
44377114 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:44377104 original size:15 final size:15
Alignment explanation
Indices: 44377084--44377139 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
44377074 ATTTATTAAA
*
44377084 ATTATAATATATAAT
1 ATTATAAAATATAAT
44377099 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
44377112 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
44377125 ATTATTAAATATAAT
1 ATTATAAAATATAAT
44377140 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:44377134 original size:26 final size:25
Alignment explanation
Indices: 44377094--44377156 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
44377084 ATTATAATAT
44377094 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
44377119 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
44377146 AAAATA-TATAA
1 ATAATATTATAA
44377157 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:44381807 original size:49 final size:49
Alignment explanation
Indices: 44381747--44382011 Score: 456
Period size: 47 Copynumber: 5.6 Consensus size: 49
44381737 GATAATTGTG
*
44381747 ATGTG-AA-TGTATATATATGTGATAAGACCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44381794 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44381843 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44381892 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44381939 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44381986 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
44382012 TCCCGAAGGG
Statistics
Matches: 212, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
47 108 0.51
48 3 0.01
49 101 0.48
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44382186 original size:37 final size:37
Alignment explanation
Indices: 44382130--44382208 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44382120 CCGAGCTCTA
* * *
44382130 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44382167 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44382204 AAGAC
1 AAGAC
44382209 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44384068 original size:103 final size:104
Alignment explanation
Indices: 44383877--44384082 Score: 342
Period size: 103 Copynumber: 2.0 Consensus size: 104
44383867 TTCTCACCTG
* * * *
44383877 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGACGGGTTTTTTTTTTTTTAGTAAAGAGGCTT
1 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGG-TGTTTATTTTTAAGTAAAGAGGCTT
*
44383942 TCAAAATTTTGTATTGAATTCTCATTATTAGGAAAAATCT
65 TCAAAATTTTGTATTGAAATCTCATTATTAGGAAAAATCT
*
44383982 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGG-GTTTATTTTTAAGTAAGGAGGCTTT
1 CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGTGTTTATTTTTAAGTAAAGAGGCTTT
44384046 CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAAT
66 CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAAT
44384083 TTTGGAATTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 57 0.60
105 38 0.40
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (104 bp):
CAAATTAAAAATGGAAAAATAAAGGATTTCATGGAAGGGTGTTTATTTTTAAGTAAAGAGGCTTT
CAAAATTTTGTATTGAAATCTCATTATTAGGAAAAATCT
Found at i:44387128 original size:29 final size:30
Alignment explanation
Indices: 44387071--44387134 Score: 112
Period size: 29 Copynumber: 2.1 Consensus size: 30
44387061 TGTATTGGGT
44387071 CTAATTAAACGTGTTTTTTTGAAATTTTAAC
1 CTAATTAAACGTG-TTTTTTGAAATTTTAAC
44387102 CTAATTAAACGTG-TTTTTGAAATTTTAAC
1 CTAATTAAACGTGTTTTTTGAAATTTTAAC
44387131 CTAA
1 CTAA
44387135 CACGTTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 20 0.61
31 13 0.39
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (30 bp):
CTAATTAAACGTGTTTTTTGAAATTTTAAC
Found at i:44393133 original size:10 final size:9
Alignment explanation
Indices: 44393109--44393134 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44393099 TTCAAGAATC
44393109 TCAAAAACA
1 TCAAAAACA
44393118 TCAAAAACA
1 TCAAAAACA
44393127 TCAAAAAC
1 TCAAAAAC
44393135 CAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:44394220 original size:26 final size:26
Alignment explanation
Indices: 44394190--44394270 Score: 144
Period size: 26 Copynumber: 3.1 Consensus size: 26
44394180 AATTTAGTCC
44394190 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
* *
44394216 CTATTATTCAATATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
44394242 CTATTACTCAAAATTTATAATTTGTT
1 CTATTACTCAAAATTTATAATTTGTT
44394268 CTA
1 CTA
44394271 CAATTTAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (26 bp):
CTATTACTCAAAATTTATAATTTGTT
Found at i:44394529 original size:14 final size:14
Alignment explanation
Indices: 44394504--44394542 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
44394494 GTTGAACCTT
44394504 CTTTTC-TTCTTTC
1 CTTTTCTTTCTTTC
*
44394517 TTTTTCTTTCTTTC
1 CTTTTCTTTCTTTC
44394531 CTTTTCTTTCTT
1 CTTTTCTTTCTT
44394543 AGTTTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTCTTTCTTTC
Found at i:44399097 original size:18 final size:18
Alignment explanation
Indices: 44399071--44399165 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
44399061 AATTGATCGG
* *
44399071 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
44399089 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
44399107 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
* *
44399124 GTTATTTAGTAACAGTC-A
1 -TTATTCAGTAACAATCAA
* *
44399142 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
44399161 TTATT
1 TTATT
44399166 TTATACCTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
17 17 0.28
18 30 0.49
19 14 0.23
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:44399398 original size:45 final size:45
Alignment explanation
Indices: 44399339--44399487 Score: 237
Period size: 45 Copynumber: 3.3 Consensus size: 45
44399329 AACAGTAACA
* *
44399339 GTAACAGT-ATAGTAACAATATCCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
44399383 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
44399428 GTAATAGTAACAGTAACAATATTCGACACACAAAGTGCAGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
44399473 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
44399488 GCGGTAACAG
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 7 0.07
45 89 0.93
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:44401041 original size:5 final size:5
Alignment explanation
Indices: 44401033--44401082 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
44401023 TTTAGTTTAT
44401033 ATATA ATATA ATATA ATATA ATATA ATA-A ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44401082 A
1 A
44401083 AACATAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 40 0.91
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:44401064 original size:24 final size:25
Alignment explanation
Indices: 44401038--44401125 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 25
44401028 TTTATATATA
44401038 ATATAATATAATATAATATAATAA-
1 ATATAATATAATATAATATAATAAC
44401062 ATATAATATAATATAATATAA-AAC
1 ATATAATATAATATAATATAATAAC
** * *
44401086 ATA-AAGTATCTTTATTATATAATAAT
1 ATATAA-TAT-AATATAATATAATAAC
44401112 ATAATAATATAATA
1 AT-ATAATATAATA
44401126 ATATACTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.08
24 27 0.52
25 9 0.17
26 6 0.12
27 4 0.08
28 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (25 bp):
ATATAATATAATATAATATAATAAC
Found at i:44401115 original size:8 final size:8
Alignment explanation
Indices: 44401102--44401130 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44401092 TATCTTTATT
44401102 ATATAATA
1 ATATAATA
44401110 ATATAATA
1 ATATAATA
44401118 ATATAATA
1 ATATAATA
44401126 ATATA
1 ATATA
44401131 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:44401128 original size:19 final size:19
Alignment explanation
Indices: 44401040--44401128 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 19
44401030 TATATATAAT
44401040 ATAATATAAT-ATAATATA
1 ATAATATAATAATAATATA
44401058 ATAAATATAAT-ATAATATA
1 AT-AATATAATAATAATATA
*
44401077 AT-ATA-AA-ACATAAAGTATC
1 ATAATATAATA-AT-AA-TATA
* *
44401096 TTTAT-TATATAATAATATA
1 ATAATATA-ATAATAATATA
44401115 ATAATATAATAATA
1 ATAATATAATAATA
44401129 TACTAAACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
16 2 0.04
17 5 0.09
18 4 0.07
19 34 0.61
20 7 0.12
21 3 0.05
22 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAATATAATAATAATATA
Found at i:44405169 original size:50 final size:51
Alignment explanation
Indices: 44405100--44405229 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
44405090 ATAGGGTACG
* **
44405100 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCTGGTACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
* * * * *
44405150 CGTAGTAGCTTGTACTTAGTACTACACATGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGTACTTAGTACTACACATGCGACCT-AAACCATCTGAAACA
*
44405202 CATAGTAGCCTGTACATAGTACTACACA
1 CATAGTAGCCTGTACTTAGTACTACACA
44405230 AGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGTACTTAGTACTACACATGCGACCTAAACCATCTGAAACA
Found at i:44414191 original size:54 final size:55
Alignment explanation
Indices: 44414119--44414225 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
44414109 TTCGTTAAAG
*
44414119 ATTTATAATATTTTAATGAA-TTTCATGAAAATTGCCATAAACATGTTAAAAAAA
1 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAAAA
*
44414173 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTGAAAA
1 ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAA
44414226 TTTTGATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 20 0.40
55 30 0.60
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (55 bp):
ATTTATAATATTTTAATGAATTTTCATGAAAATCGCCATAAACATGTTAAAAAAA
Found at i:44434472 original size:21 final size:21
Alignment explanation
Indices: 44434446--44434492 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
44434436 AATAAACGAT
44434446 GTTGGAAAGCTTTTAGGTATA
1 GTTGGAAAGCTTTTAGGTATA
44434467 GTTGGAAAGCTTTTAGGTATA
1 GTTGGAAAGCTTTTAGGTATA
44434488 GTTGG
1 GTTGG
44434493 CATGCCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.38
Consensus pattern (21 bp):
GTTGGAAAGCTTTTAGGTATA
Found at i:44440918 original size:171 final size:170
Alignment explanation
Indices: 44440609--44440929 Score: 396
Period size: 171 Copynumber: 1.9 Consensus size: 170
44440599 AACAATTCAT
*
44440609 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTGCATCCTTATTGTGCCATCAT
1 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTTATTGTGCCATCAT
* * * *
44440674 CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGTCTAAAGTCCTAAGAGACTTA
66 CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGTCCAAAATCCCAAGAGACTCA
44440739 TCATATCAAATGATGCACAAAAGATCAAGTCTTAGATGCAA
131 TCATATC-AATGATGCACAAAAGATCAAGTCTTAGATGCAA
** * * * * *
44440780 AAACAAATTAGCGATGCATTAATTTGATCATATTA-TAGAAATTTATAT-TTTAGTTGTGCTATC
1 AAACAAATTAGAAATGCATTAACTTGATCAAATTACTA-AAATTTACATCCTTA-TTGTGCCATC
* * * ** * *
44440843 ATCAAATCAACTTGACGATGAATATCAATCAATTAATAAACAACTG-CCAAAATCCCCAAGAGGC
64 ATCAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGTCCAAAAT-CCCAAGAGAC
* *
44440907 TCATTATATCAATGATGTACAAA
128 TCATCATATCAATGATGCACAAA
44440930 GGTAAAATCT
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
170 22 0.17
171 104 0.83
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.28
Consensus pattern (170 bp):
AAACAAATTAGAAATGCATTAACTTGATCAAATTACTAAAATTTACATCCTTATTGTGCCATCAT
CAAATCAACTTGACGATAAACACCAATCAACCAATAAACAACCGTCCAAAATCCCAAGAGACTCA
TCATATCAATGATGCACAAAAGATCAAGTCTTAGATGCAA
Found at i:44442087 original size:19 final size:20
Alignment explanation
Indices: 44442059--44442097 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
44442049 TCTTATTTTT
*
44442059 TATTTGTTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
44442078 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
44442098 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:44442104 original size:19 final size:19
Alignment explanation
Indices: 44442065--44442105 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44442055 TTTTTATTTG
*
44442065 TTTTTTGTTTTAATATTTA
1 TTTTTTGTTTTAATATGTA
44442084 TTTTTATGTTTTAA-ATGTA
1 TTTTT-TGTTTTAATATGTA
44442103 TTT
1 TTT
44442106 GATTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTGTTTTAATATGTA
Found at i:44442115 original size:25 final size:23
Alignment explanation
Indices: 44442078--44442123 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
44442068 TTTGTTTTAA
*
44442078 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
44442101 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
44442124 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:44442666 original size:15 final size:15
Alignment explanation
Indices: 44442648--44442677 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44442638 AAATTTTAAT
44442648 TTTTTATAATTTATA
1 TTTTTATAATTTATA
44442663 TTTTTATAATTTATA
1 TTTTTATAATTTATA
44442678 GAGAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:44443163 original size:23 final size:22
Alignment explanation
Indices: 44443137--44443180 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
44443127 TAAAAAATAT
* *
44443137 AAAAAAATTAATTTAATATTTTA
1 AAAAAAATAAAATT-ATATTTTA
*
44443160 AAAATAATAAAATTATATTTT
1 AAAAAAATAAAATTATATTTT
44443181 TATATCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAAAATAAAATTATATTTTA
Found at i:44447447 original size:13 final size:13
Alignment explanation
Indices: 44447429--44447454 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44447419 AAACAGGATA
44447429 GGGAAGCAATAAC
1 GGGAAGCAATAAC
44447442 GGGAAGCAATAAC
1 GGGAAGCAATAAC
44447455 AATTGTAGTA
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:0.46, C:0.15, G:0.31, T:0.08
Consensus pattern (13 bp):
GGGAAGCAATAAC
Found at i:44451187 original size:16 final size:16
Alignment explanation
Indices: 44451166--44451200 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44451156 GGAGCAATCA
44451166 CGAGAATTGGAGAAAG
1 CGAGAATTGGAGAAAG
44451182 CGAGAATTGGAGAAAG
1 CGAGAATTGGAGAAAG
44451198 CGA
1 CGA
44451201 CCACGATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.37, T:0.11
Consensus pattern (16 bp):
CGAGAATTGGAGAAAG
Found at i:44453061 original size:16 final size:15
Alignment explanation
Indices: 44453037--44453066 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44453027 AACTGTTTTA
44453037 TTACAAATTTCACTC
1 TTACAAATTTCACTC
44453052 TTACATAATTTCACT
1 TTACA-AATTTCACT
44453067 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:44453401 original size:50 final size:50
Alignment explanation
Indices: 44453266--44453555 Score: 269
Period size: 50 Copynumber: 5.8 Consensus size: 50
44453256 AACTGAAGCT
* * **** *
44453266 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
44453315 ATC-CAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
** * * * **
44453365 ATCTGATACATGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * * * *
44453416 GTCAGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
*
44453466 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
* * * *
44453518 ATCTTAAACACATAGTAGCCTGCACATAGTGCTACACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
44453556 TGTGTTCTCA
Statistics
Matches: 194, Mismatches: 41, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
49 36 0.19
50 85 0.44
51 37 0.19
52 36 0.19
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:44453461 original size:101 final size:101
Alignment explanation
Indices: 44453327--44453508 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
44453317 CCAGTACACG
* ** *
44453327 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
44453392 AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
* * * *
44453428 TAGTAGCCTGCACTTAGTATTACACATGCGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
44453493 AGTACTACACACGTGA
66 AGTACTACACACGTGA
44453509 CCTAAAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTGTCAGGTACGCA
Found at i:44453510 original size:151 final size:151
Alignment explanation
Indices: 44453270--44453555 Score: 421
Period size: 151 Copynumber: 1.9 Consensus size: 151
44453260 GAAGCTATCT
*
44453270 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCAGTACACATAGTAGCC
* ** * *
44453335 TGCACTTAGTACTACACACGTGACCT-AACCATCTGATACATGTAGTAGCCTGTACTTAGTACTA
66 TGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
44453399 CACACGTGATCGAAGTTGTCA
131 CACACGTGATCGAAGTTGTCA
* * * * **
44453420 GGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAACTATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACC-AACAATCCAGTACACATAGTAGC
* *
44453485 CTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTGC
65 CTGCACTTAGTACTACACACGTGACCT-AAACCATCTGAAACACATAGTAGCCTGCACATAGTAC
44453550 TACACA
129 TACACA
44453556 TGTGTTCTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
150 38 0.32
151 46 0.39
153 35 0.29
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCAACAATCCAGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGACCTAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTA
CACACGTGATCGAAGTTGTCA
Found at i:44457033 original size:45 final size:45
Alignment explanation
Indices: 44456983--44457070 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
44456973 CCAAAACATG
*
44456983 TGCCACATACATCATGAACTCAGACCATAACTCAATAAGTTCAAA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAAA
* *
44457028 TGCCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCA
44457071 GATCACATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (45 bp):
TGCCACATACATCATGAACTCAGACCACAACTCAATAAGTTCAAA
Found at i:44458642 original size:3 final size:3
Alignment explanation
Indices: 44458627--44458678 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
44458617 GCTTCCTTTT
*
44458627 TTA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44458674 TTA TT
1 TTA TT
44458679 TTAGTTGGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44459275 original size:25 final size:25
Alignment explanation
Indices: 44459228--44459276 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44459218 TACTTAAACC
*
44459228 TTTTAGATATAATAGTATGTATATT
1 TTTTAGATATAATAGTATATATATT
*
44459253 TTTTAGATTTATATA-TATATATAT
1 TTTTAGATATA-ATAGTATATATAT
44459277 GGTCATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (25 bp):
TTTTAGATATAATAGTATATATATT
Found at i:44463246 original size:19 final size:20
Alignment explanation
Indices: 44463203--44463256 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
44463193 ATATGTCAAG
44463203 ATGCACTTTGTGTGCCAAAT
1 ATGCACTTTGTGTGCCAAAT
*
44463223 ATGCACTTTGTGTGCC-AGT
1 ATGCACTTTGTGTGCCAAAT
*
44463242 ATGCACTTTATGTGC
1 ATGCACTTTGTGTGC
44463257 TAGTTTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
ATGCACTTTGTGTGCCAAAT
Found at i:44474119 original size:28 final size:28
Alignment explanation
Indices: 44474088--44474169 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
44474078 TCCCGTTCAA
*
44474088 TTTCAACATAATAAGTGCAGACACTTAT
1 TTTCAACATAATAAATGCAGACACTTAT
*
44474116 TTTCAACATAATAAATGCGGACACTTAT
1 TTTCAACATAATAAATGCAGACACTTAT
*
44474144 TTCCAACATAATAAATGCAGACACTT
1 TTTCAACATAATAAATGCAGACACTT
44474170 TATCAATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TTTCAACATAATAAATGCAGACACTTAT
Found at i:44477338 original size:55 final size:54
Alignment explanation
Indices: 44477249--44477451 Score: 166
Period size: 55 Copynumber: 3.8 Consensus size: 54
44477239 CTAAAGTGTC
* * * * *
44477249 ATATGTTAAA-TGTGGCTTTGTGGAGGTTCA-GGTGGACTGTACGGAGATTCTTAT
1 ATATGTTAAATTATGTCTTTGTAGAGGCT-AGGGTGGGCTGTACGGAGATT-TTAT
* * *
44477303 ATATGTTAAATTATTTCTTTGTAGAGGCTAGGGTGGGTTGTACTGAGATTTCTAT
1 ATATGTTAAATTATGTCTTTGTAGAGGCTAGGGTGGGCTGTACGGAGATTT-TAT
* * ** *
44477358 ATATGTT-AATTATGGT-TTTATATAGGCTTA-GGTGGGCTGTTTGGAGA-TTTCT
1 ATATGTTAAATTAT-GTCTTTGTAGAGGC-TAGGGTGGGCTGTACGGAGATTTTAT
* * * *
44477410 ATATGTTAAATTATGACTTTGTGGAGGCTTGGGTGGGTTGTA
1 ATATGTTAAATTATGTCTTTGTAGAGGCTAGGGTGGGCTGTA
44477452 TGAAGGTTTC
Statistics
Matches: 118, Mismatches: 23, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
52 11 0.09
53 25 0.21
54 40 0.34
55 42 0.36
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (54 bp):
ATATGTTAAATTATGTCTTTGTAGAGGCTAGGGTGGGCTGTACGGAGATTTTAT
Found at i:44477393 original size:54 final size:55
Alignment explanation
Indices: 44477279--44477484 Score: 158
Period size: 55 Copynumber: 3.8 Consensus size: 55
44477269 TGGAGGTTCA
* * * *
44477279 GGTGGACTGTACGGAGA-TTCTTATATATGTTAAATTATTTCTTTGTAGAGGCTAG
1 GGTGGGCTGTACTGAGATTTC-TATATATGTTAAATTATGTCTTTATAGAGGCTAG
* *
44477334 GGTGGGTTGTACTGAGATTTCTATATATGTT-AATTATGGT-TTTATATAGGCTTA-
1 GGTGGGCTGTACTGAGATTTCTATATATGTTAAATTAT-GTCTTTATAGAGGC-TAG
* * * * *
44477388 GGTGGGCTGT-TTGGAGATTTC--TATATGTTAAATTATGACTTTGTGGAGGCTTG
1 GGTGGGCTGTACT-GAGATTTCTATATATGTTAAATTATGTCTTTATAGAGGCTAG
* * * * * *
44477441 GGTGGGTTGTA-TGAAGGTTTCTCTATGTATTAAACTATGTCTTT
1 GGTGGGCTGTACTG-AGATTTCTATATATGTTAAATTATGTCTTT
44477485 GCGGAGGTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 22
0.75 0.12 0.14
Matches are distributed among these distances:
52 11 0.09
53 31 0.26
54 32 0.26
55 44 0.36
56 3 0.02
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (55 bp):
GGTGGGCTGTACTGAGATTTCTATATATGTTAAATTATGTCTTTATAGAGGCTAG
Found at i:44477491 original size:55 final size:53
Alignment explanation
Indices: 44477381--44477491 Score: 123
Period size: 53 Copynumber: 2.1 Consensus size: 53
44477371 GGTTTTATAT
* * * *
44477381 AGGCTTAGGTGGGCTGTTTGGAGATTTCTATATGTTAAATTATGACTTTGTGG
1 AGGCTTAGGTGGGCTGTATGAAGATTTCTATATGTTAAACTATGACTTTGCGG
* * * * *
44477434 AGGCTTGGGTGGGTTGTATGAAGGTTTCTCTATGTATTAAACTATGTCTTTGCGG
1 AGGCTTAGGTGGGCTGTATGAAGATTTCTATATG--TTAAACTATGACTTTGCGG
44477489 AGG
1 AGG
44477492 TTTGAATGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 28 0.60
55 19 0.40
ACGTcount: A:0.20, C:0.09, G:0.32, T:0.40
Consensus pattern (53 bp):
AGGCTTAGGTGGGCTGTATGAAGATTTCTATATGTTAAACTATGACTTTGCGG
Found at i:44479703 original size:32 final size:30
Alignment explanation
Indices: 44479667--44479747 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 30
44479657 TATATGATTC
*
44479667 TGCGACCTGTATCTATGAGAACTGTACAATTT
1 TGCGAACTGTATCTATGAG--CTGTACAATTT
* * *
44479699 TGCGAACTATATCTGTATGAGTTGTACGATTT
1 TGCGAACTGTATC--TATGAGCTGTACAATTT
*
44479731 TGTGAACTGTATCTATG
1 TGCGAACTGTATCTATG
44479748 CTAGTTGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
30 4 0.10
32 31 0.76
34 6 0.15
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (30 bp):
TGCGAACTGTATCTATGAGCTGTACAATTT
Found at i:44485744 original size:34 final size:34
Alignment explanation
Indices: 44485678--44485744 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
44485668 CCGGAAAATA
* *
44485678 TTAAGTTCTATTTGAATGATGAATTTTAATGGAG
1 TTAAGTTCCATTTGAATGATGAATTTCAATGGAG
* *
44485712 TTAAGTTCCGTTTGAATGATGAATTTCGATGGA
1 TTAAGTTCCATTTGAATGATGAATTTCAATGGA
44485745 TATATGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (34 bp):
TTAAGTTCCATTTGAATGATGAATTTCAATGGAG
Found at i:44486938 original size:23 final size:20
Alignment explanation
Indices: 44486912--44486969 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
44486902 TTAGATGTCA
44486912 GAATTGACTTGGTTATAATGTTT
1 GAATTG-CTTGG-TAT-ATGTTT
*
44486935 GAATTGGTTGGTATATGTTT
1 GAATTGCTTGGTATATGTTT
*
44486955 GCAATT-ATTGGTATA
1 G-AATTGCTTGGTATA
44486970 GATTGTTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 15 0.47
21 7 0.22
22 4 0.12
23 6 0.19
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (20 bp):
GAATTGCTTGGTATATGTTT
Found at i:44486954 original size:20 final size:20
Alignment explanation
Indices: 44486929--44486969 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44486919 CTTGGTTATA
*
44486929 ATGTTTG-AATTGGTTGGTAT
1 ATGTTTGCAATT-ATTGGTAT
44486949 ATGTTTGCAATTATTGGTAT
1 ATGTTTGCAATTATTGGTAT
44486969 A
1 A
44486970 GATTGTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (20 bp):
ATGTTTGCAATTATTGGTAT
Found at i:44514227 original size:30 final size:30
Alignment explanation
Indices: 44514192--44514249 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
44514182 TAGGCACTTC
* *
44514192 CACACAGGT-GATCCACATGCCCGTGTGTGA
1 CACACAAGTAGAT-CACACGCCCGTGTGTGA
44514222 CACACAAGTAGATCACACGCCCGTGTGT
1 CACACAAGTAGATCACACGCCCGTGTGT
44514250 CATGGCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (30 bp):
CACACAAGTAGATCACACGCCCGTGTGTGA
Found at i:44518788 original size:102 final size:102
Alignment explanation
Indices: 44518607--44518810 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
44518597 TTTAACAGTG
*
44518607 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAGATTGGTTGTATGTATG
1 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
44518672 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
66 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
44518709 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
1 TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
*
44518774 GCATGATTTGCTGAAATCTGAGTTTATGCATGATATA
66 GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
44518811 ATTGCCTGGA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (102 bp):
TGATTATGTGATTGATATTATGATGCATGACTGTATTATTTGGTATGAAATTGGTTGTATGTATG
GCATGATTTACTGAAATCTGAGTTTATGCATGATATA
Found at i:44519220 original size:27 final size:28
Alignment explanation
Indices: 44519181--44519238 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
44519171 GATTATATCG
*
44519181 CATTATTTGTTATTCGGCAGTTTTACTA
1 CATTATTTGTTATTCGGCAGTTTTACCA
**
44519209 CATTA-TTGTTATTCGGTGGTTTTACCA
1 CATTATTTGTTATTCGGCAGTTTTACCA
44519236 CAT
1 CAT
44519239 CAAGCTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (28 bp):
CATTATTTGTTATTCGGCAGTTTTACCA
Found at i:44528580 original size:11 final size:11
Alignment explanation
Indices: 44528564--44528593 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44528554 ATTTACCAAG
44528564 CCATTTGCACC
1 CCATTTGCACC
44528575 CCATTTGCACC
1 CCATTTGCACC
*
44528586 TCATTTGC
1 CCATTTGC
44528594 TCACTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.40, G:0.10, T:0.33
Consensus pattern (11 bp):
CCATTTGCACC
Found at i:44530693 original size:42 final size:42
Alignment explanation
Indices: 44530647--44530731 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
44530637 ACGATGTCTT
* *
44530647 ATATCGATGCCATGTCCCAGACATGGTCTTACACAAAATCAC
1 ATATCGATGCCATATACCAGACATGGTCTTACACAAAATCAC
* * *
44530689 ATATCGATGCCATATACCTGATATGGTCTTACACGAAATCAC
1 ATATCGATGCCATATACCAGACATGGTCTTACACAAAATCAC
44530731 A
1 A
44530732 CATAACCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
ATATCGATGCCATATACCAGACATGGTCTTACACAAAATCAC
Found at i:44534751 original size:144 final size:144
Alignment explanation
Indices: 44534382--44534984 Score: 620
Period size: 144 Copynumber: 4.2 Consensus size: 144
44534372 TATGTGTGCC
* * *
44534382 AGTGTAAGACCATGTCTGGGACATGGCATCGATCACAT-TAT--AAGAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGAACATAGCATCGAGCA-ATGT-TGCAAGAGCCAGTGTAAGACCATG
* * ** * *
44534444 TTTGGAACATGGCATCGGCGA-TGTTGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-T
64 TTTGGGACATGGCATCGGC-ATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATT
** * *
44534507 -CGGTATTGATATGTGCCT
128 GCCATATT-ATAAGAG-CT
* * * * *
44534525 AGTGTAAGACCATGTCTGGGACA-GGCAT-TAGCGATGTTGCGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGAACATAGCATCGAGCAATGTTGCAAGAGCCAGTGTAAGACCATGTT
* *
44534588 TGGGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGC
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATT-GC
*
44534653 CACATTATAAGAGCT
130 CATATTATAAGAGCT
* *
44534668 AGTGTAAGACCATGTTTGGAACATAGCATCGA-CAATGTTGCAAGAGCCAGTGTAAGACCATATT
1 AGTGTAAGACCATGTCTGGAACATAGCATCGAGCAATGTTGCAAGAGCCAGTGTAAGACCATGTT
* * *
44534732 TGGGACATGGCATCAGCATTGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGC-TTCGA
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATT-G-
*
44534796 CCATATTATAAGAGCC
129 CCATATTATAAGAGCT
* * * * * * *
44534812 AGTGTAAGACCATATTTGGAATATAGCATC-AACGATGTTGTAAGAGCCAGAGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGAACATAGCATCGAGCAATGTTGCAAGAGCCAGTGTAAGACCATGTT
* * * * *
44534876 TGAGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATTGCA-T-CG
66 TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATTGCC
* * *
44534939 GTATTGAGACGAGAGTT
131 ATATT-ATA--AGAGCT
* *
44534956 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGAACATAGCAT
44534985 TGGCAATTCA
Statistics
Matches: 397, Mismatches: 48, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
140 3 0.01
141 9 0.02
142 80 0.20
143 51 0.13
144 249 0.63
145 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGAACATAGCATCGAGCAATGTTGCAAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCATTGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATTGCC
ATATTATAAGAGCT
Found at i:44534939 original size:48 final size:48
Alignment explanation
Indices: 44534382--44534989 Score: 454
Period size: 48 Copynumber: 12.7 Consensus size: 48
44534372 TATGTGTGCC
* * *
44534382 AGTGTAAGACCATGTCTGGGACATGGCATCGATCACATT-ATA--AGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCG---GCATTGATATGAGAGCT
* * ** *
44534430 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGA-TGTTGCGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGATATGAGAGCT
* * * *
44534478 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTG-CCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
* ** * ** *
44534525 AGTGTAAGACCATGTCTGGGACA-GGCATTAGCGA-TGTTGCGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGATATGAGAGCT
* * *
44534572 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
* * **
44534620 AGTGTAAGACCATGTCTAGGACATGGCATTAGCCACATT-ATA--AGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCA-T--CGGCATTGATATGAGAGCT
* * * * *
44534668 AGTGTAAGACCATGTTTGGAACATAGCATCGACAATG-T-TGCAAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATG--AGAGCT
* * * *
44534716 AGTGTAAGACCATATTTGGGACATGGCATCAGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
* * * *
44534764 AGTGTAAGACCATGTTTGGGACATGGCTTCGACCA-T-ATTATAAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCG-GCATTGA-TATGAGAGCT
* * * * ** * * * *
44534812 AGTGTAAGACCATATTTGGAATATAGCATCAACGA-TGTTGTAAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGATATGAGAGCT
* * * *
44534860 AGAGTAAGACCATGTTTGAGACATGGCATCGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
* * * * *
44534908 AGTGTAAGACCATGTTTGGGACATTGCATCGGTATTGAGACGAGAGTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
* *
44534956 AGTGTAAGACCATGTTTGGAACATGGCATTGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
44534990 ATTCACCCTC
Statistics
Matches: 438, Mismatches: 98, Indels: 48
0.75 0.17 0.08
Matches are distributed among these distances:
45 8 0.02
46 13 0.03
47 54 0.12
48 349 0.80
49 4 0.01
50 5 0.01
51 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCT
Found at i:44536248 original size:21 final size:21
Alignment explanation
Indices: 44536202--44536251 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
44536192 GACGACACAT
*
44536202 GGGCATGTCACTTTTCGACAC
1 GGGCGTGTCACTTTTCGACAC
44536223 GGGCGTGTCACTTTTCGACAC
1 GGGCGTGTCACTTTTCGACAC
44536244 GGGCGTGT
1 GGGCGTGT
44536252 GCCCTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (21 bp):
GGGCGTGTCACTTTTCGACAC
Found at i:44539343 original size:48 final size:48
Alignment explanation
Indices: 44539270--44539437 Score: 187
Period size: 48 Copynumber: 3.5 Consensus size: 48
44539260 ATGAGATTCT
* * * * *
44539270 GTGTAAGACCATGTCTGGGAGATGGCATTGGGGATAATATGTATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
* * * *
44539318 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATGTATGTGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
* * *
44539366 GTGTAAGACCATGTTTAGGACATGGCATCGACGATGATATGTGGAT-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT--ATGTCA
*
44539415 -TGTAAGACCATGTCGGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
44539438 ACATTGGTAC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
48 96 0.97
49 2 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTATGTCA
Found at i:44542185 original size:21 final size:21
Alignment explanation
Indices: 44542161--44542211 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
44542151 ATAACTTGGC
*
44542161 CACACAACCATGTAACTCTGT
1 CACACAACCATGTAACTCAGT
** **
44542182 CACACAGGCATGTGTCTCAGT
1 CACACAACCATGTAACTCAGT
44542203 CACACAACC
1 CACACAACC
44542212 GTGTGTTTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (21 bp):
CACACAACCATGTAACTCAGT
Found at i:44545642 original size:53 final size:53
Alignment explanation
Indices: 44545561--44545662 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
44545551 TTTCTTTTTA
* * * * * *
44545561 AACTTACCGTTGCCTTGTCTTGACATGGTCTTACGTGGTATCTTTGCCTCATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGGAACTTTGCCTCATG
*
44545614 AACTCACCATTGCCATGCCTTGGCATGGTCTTACGTGGGAACTTTGCCT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGGAACTTTGCCT
44545663 TATAGTAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACGTGGGAACTTTGCCTCATG
Found at i:44559647 original size:25 final size:25
Alignment explanation
Indices: 44559618--44559675 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
44559608 TTAAATGCTT
44559618 TACTATTGCATGTATGGTAAATACA
1 TACTATTGCATGTATGGTAAATACA
44559643 TACTATTGCATGTATGGTAAATACA
1 TACTATTGCATGTATGGTAAATACA
44559668 TACATATT
1 TAC-TATT
44559676 TAATGTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (25 bp):
TACTATTGCATGTATGGTAAATACA
Found at i:44565209 original size:40 final size:40
Alignment explanation
Indices: 44565129--44565442 Score: 411
Period size: 40 Copynumber: 7.7 Consensus size: 40
44565119 CTTCCAAACC
* * *
44565129 CAAATACCTTCGGGATTTAG-CCGGATATAG-CAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCA
* *
44565168 CATATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
* *
44565208 CAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
* *
44565251 CAAATACCTTCGGGACTTTGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
44565291 CAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
*
44565334 CAAATGCCTTCGGGACTTTGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
44565374 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
44565414 CAAATGCCTTCGGGACGTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
44565443 CATCTGAATA
Statistics
Matches: 243, Mismatches: 20, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
39 18 0.07
40 152 0.63
41 1 0.00
43 70 0.29
44 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:44565274 original size:83 final size:82
Alignment explanation
Indices: 44565129--44565442 Score: 460
Period size: 83 Copynumber: 3.9 Consensus size: 82
44565119 CTTCCAAACC
* * * *
44565129 CAAATACCTTCGGGATTTAG-CCGGATATAGCA--ACTCGCACATATGCCTTCGGGTCTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCC
44565191 GGATATAGTCACTAGCA
66 GGATATAGTCACTAGCA
* * * *
44565208 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATACCTTCGGGACTTTGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGC-ACTACTCGCACAAATGCCTTCGGGACTTAGCC
44565273 CGGATATAGTCACTAGCA
65 CGGATATAGTCACTAGCA
* *
44565291 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTTGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGC-ACTACTCGCACAAATGCCTTCGGGACTTAGCC
44565356 CGGATATAGTCACTAGCA
65 CGGATATAGTCACTAGCA
*
44565374 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA---GCACAAATGCCTTCGGGACGTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-CACTACTCGCACAAATGCCTTCGGGACTTAGCC
44565436 CGGATAT
65 CGGATAT
44565443 CATCTGAATA
Statistics
Matches: 217, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
79 18 0.08
80 40 0.18
81 1 0.00
83 157 0.72
84 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCC
GGATATAGTCACTAGCA
Found at i:44565377 original size:123 final size:121
Alignment explanation
Indices: 44565129--44565442 Score: 415
Period size: 123 Copynumber: 2.6 Consensus size: 121
44565119 CTTCCAAACC
* * *
44565129 CAAATACCTTCGGGA-TTTAG-CCGGATATAG-CAACTCGCACATATGCCTTCGGGTCTTAGCCC
1 CAAATACCTTCGGGACTTT-GCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCC
* *
44565191 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGTA
64 GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTA--CGCA
44565251 CAAATACCTTCGGGACTTTGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATACCTTCGGGACTTTGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
44565316 GTATAG-CAACTACTCGCACAAATGCCTTCGGGACTTTGCCCGGATATAGTC-ACTA-GCA
66 ATATAGTC-ACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTACGCA
* * *
44565374 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACGTAGCCCGG
1 CAAATACCTTCGGGACTTTGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
44565439 ATAT
66 ATAT
44565443 CATCTGAATA
Statistics
Matches: 173, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
122 17 0.10
123 118 0.68
124 1 0.01
126 36 0.21
127 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
CAAATACCTTCGGGACTTTGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTACGCA
Found at i:44573708 original size:40 final size:40
Alignment explanation
Indices: 44573628--44573941 Score: 386
Period size: 40 Copynumber: 7.7 Consensus size: 40
44573618 ACTCCAAACC
* * * *
44573628 CAAATACCTTCGGGATTTAG-CCAGATATAG-CAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCA
* *
44573667 CACATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
* *
44573707 CAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
*
44573750 CAAATGCCTTCGGGACTTCA-CCCGAATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATATAGTCACTAGCA
*
44573790 CAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
*
44573833 CAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
44573873 CAAATGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
44573913 CAAATGCCTTCAGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
44573942 CATCCGAATA
Statistics
Matches: 240, Mismatches: 21, Indels: 27
0.83 0.07 0.09
Matches are distributed among these distances:
39 19 0.08
40 148 0.62
41 1 0.00
43 69 0.29
44 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:44573783 original size:83 final size:83
Alignment explanation
Indices: 44573628--44573941 Score: 414
Period size: 83 Copynumber: 3.9 Consensus size: 83
44573618 ACTCCAAACC
* * * * * *
44573628 CAAATACCTTCGGGATTTAG-CCAGATATAGCAACT-CGCACAC--ATGCCTTCGGGTCTT-AGC
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCA-C
44573688 CCGGATATAGTCACTAGCA
65 CCGGATATAGTCACTAGCA
44573707 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCACC
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCACC
*
44573772 CGAATATAGTCACTAGCA
66 CGGATATAGTCACTAGCA
* *
44573790 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCACC
44573855 CGGATATAGTCACTAGCA
66 CGGATATAGTCACTAGCA
* * * *
44573873 CAAATGCCTTCGGGACTTAGCCCAGATATAGTC-ACTA---GCACAAATGCCTTCAGGACTT-AG
1 CAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCACACAAATGCCTTCGGGACTTCA-
44573933 CCCGGATAT
64 CCCGGATAT
44573942 CATCCGAATA
Statistics
Matches: 214, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
79 18 0.08
80 42 0.20
81 6 0.03
83 146 0.68
84 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (83 bp):
CAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACACAAATGCCTTCGGGACTTCACC
CGGATATAGTCACTAGCA
Found at i:44573875 original size:123 final size:121
Alignment explanation
Indices: 44573628--44573941 Score: 399
Period size: 123 Copynumber: 2.6 Consensus size: 121
44573618 ACTCCAAACC
* * * * *
44573628 CAAATACCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACACATGCCTTCGGGTCTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCG
*
44573691 GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCACA
65 GATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTA--CACA
44573750 CAAATGCCTTCGGGACTTCA-CCC-GAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTT-AGCCCAG-ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
* * *
44573813 GGGTATAG-CAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTC-ACTA-GCA
64 GGATATAGTC-ACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTACACA
*
44573873 CAAATGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
44573938 ATAT
66 ATAT
44573942 CATCCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 21
0.84 0.05 0.10
Matches are distributed among these distances:
122 19 0.11
123 112 0.66
124 2 0.01
126 36 0.21
127 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTACACA
Found at i:44576418 original size:17 final size:17
Alignment explanation
Indices: 44576396--44576432 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
44576386 TGAAAAGGAG
44576396 AACAAATGAATCTTAAA
1 AACAAATGAATCTTAAA
44576413 AACAAATGAATCTTAAA
1 AACAAATGAATCTTAAA
44576430 AAC
1 AAC
44576433 TTAATAAAAG
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:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (17 bp):
AACAAATGAATCTTAAA
Found at i:44580651 original size:6 final size:6
Alignment explanation
Indices: 44580633--44580726 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
44580623 AAGAAACATT
* *
44580633 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
44580682 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
44580727 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.07
6 56 0.80
7 6 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:44580683 original size:37 final size:37
Alignment explanation
Indices: 44580642--44580726 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
44580632 TATCAGAACT
* * *
44580642 AGAATCAGAATTAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
44580679 AGAATTAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
44580716 AAAATCAGAAT
1 AGAATCAGAAT
44580727 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:44581296 original size:27 final size:27
Alignment explanation
Indices: 44581248--44581494 Score: 266
Period size: 27 Copynumber: 9.3 Consensus size: 27
44581238 GGGGTAAAAT
* * * *
44581248 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44581275 GATAATTCTACTCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
44581301 AGTAATTCTA-TTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44581327 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44581354 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
**
44581381 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44581408 GGTATTTC-ACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
44581434 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44581461 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
44581488 GGTAATT
1 GGTAATT
44581495 TTGTAAATCA
Statistics
Matches: 187, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 14 0.07
26 42 0.22
27 131 0.70
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:44581306 original size:53 final size:54
Alignment explanation
Indices: 44581249--44581486 Score: 241
Period size: 53 Copynumber: 4.5 Consensus size: 54
44581239 GGGTAAAATG
* * * * *
44581249 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACTCTACAGGGGTATTT-A
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* ** * * *
44581302 GTAATTCTA-TTTACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* ** * *
44581355 GTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * * *
44581409 GT-ATTTCACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
*
44581462 GT-ATTTCTACCCTACAAGGGTATTT
1 GTAATTT-TACCCTACAGGGGTATTT
44581487 TGGTAATTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
52 32 0.21
53 67 0.44
54 53 0.35
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:44581433 original size:80 final size:81
Alignment explanation
Indices: 44581252--44581491 Score: 274
Period size: 80 Copynumber: 3.0 Consensus size: 81
44581242 TAAAATGGTA
* * * * **
44581252 ATTT-TACCCCACAAGGGTATCTC-GATAATTCTACTCTACAGGGGTA-TTTAGTAATTCTA-TT
1 ATTTCTACCCTACAAGAGTATTTCAG-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCC
44581313 TACAGGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
*
44581330 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCT
1 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
44581395 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * ** ** *
44581411 ATTTC-ACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
* *
44581475 ACAAGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
44581491 A
1 A
44581492 ATTTTGTAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
78 4 0.03
79 36 0.26
80 77 0.55
81 22 0.16
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:44581494 original size:107 final size:106
Alignment explanation
Indices: 44581252--44581494 Score: 321
Period size: 107 Copynumber: 2.3 Consensus size: 106
44581242 TAAAATGGTA
* * * * **
44581252 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACTCTACAGGGGTATTTAGTAATTCTATTTAC
1 ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCTAC
44581316 AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
66 AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
* * * * *
44581357 AATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTATTTC-ACCCT
1 ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTT-AGTAATTCTA-CCT
*
44581421 ACAGGGGTATTTCGGTATTTCTACCCTACAA-AGGTATTTCGGT
64 ACAGGGGTATTTCGGTATTTCTACCCTACAAGA-GTATTTCAGT
*
44581464 ATTTCTACCCTACAAGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTTGATAATT
44581495 TTGTAAATCA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
105 3 0.03
106 41 0.35
107 74 0.63
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (106 bp):
ATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCTAC
AGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGT
Found at i:44581506 original size:27 final size:27
Alignment explanation
Indices: 44581476--44582305 Score: 872
Period size: 27 Copynumber: 30.7 Consensus size: 27
44581466 TTCTACCCTA
** *
44581476 CAAGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
**** * *
44581503 CAAGGGTAAAACGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
44581530 C-AGAGGTACTTTGGTAATTTTACAAGT
1 CAAG-GGTATTTTGGTAATTTTACAAAC
** *** ***
44581557 TGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
44581584 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44581611 CAGGGGTATATTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44581638 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44581665 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44581692 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44581719 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
44581746 C-AGGGTTATTTTGGTAATTTTGTAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
*
44581773 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44581800 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44581827 CAAGGGTATTCTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44581854 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
44581881 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44581908 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44581935 CAAGGGTATTCTAGTAATTTTACCAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
44581962 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
44581989 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
44582016 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
44582043 CAAGGGTATTCTACTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
44582070 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
44582097 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
44582124 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
44582151 CAATGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
44582178 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
44582205 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
44582232 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
44582259 CAAGGGTATTTTATTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
44582286 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
44582306 GGTAAACTAA
Statistics
Matches: 670, Mismatches: 129, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
26 6 0.01
27 658 0.98
28 6 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:44581518 original size:107 final size:107
Alignment explanation
Indices: 44581313--44581518 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 107
44581303 TAATTCTATT
*
44581313 TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTAT
1 TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAAGGGTAT
** * ***
44581378 TTTAATAATTCTACCCTACAGGGGTATTTCGGTATTTCACCC
66 TTTAATAATTCTACAATACAAGGGTAAAACGGTATTTCACCC
* *
44581420 TACAGGGGTATTTCGGTATTTCTACCCTACAA-AGGTATTTCGGTATTTCTACCCTACAAGGGTA
1 TACAGGGGTATTTCGGTATTTCTACCCTACAAGA-GTATTTCAGTAATTCTACCCTACAAGGGTA
** *
44581484 TTTTGGTAATTTTGTA-AAT-CAAGGGTAAAACGGTA
65 TTTTAATAA--TTCTACAATACAAGGGTAAAACGGTA
44581519 ATTTTATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 1 0.01
107 78 0.93
108 1 0.01
109 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (107 bp):
TACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAAGGGTAT
TTTAATAATTCTACAATACAAGGGTAAAACGGTATTTCACCC
Found at i:44582312 original size:54 final size:54
Alignment explanation
Indices: 44581479--44582305 Score: 1035
Period size: 54 Copynumber: 15.3 Consensus size: 54
44581469 TACCCTACAA
* * ***** * *
44581479 GGGTATTTTGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * **** * * ***
44581533 AGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAATAATTTTACAGGTC-G
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * * * * *
44581586 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATATTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * * *
44581641 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
44581695 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
44581749 GGTTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
44581803 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
44581857 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
44581911 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACCAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * **
44581965 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
44582019 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTACTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
44582073 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
44582127 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
44582181 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
44582235 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTATTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
44582289 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
44582306 GGTAAACTAA
Statistics
Matches: 669, Mismatches: 102, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.00
54 667 1.00
55 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:44584309 original size:18 final size:18
Alignment explanation
Indices: 44584286--44584320 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44584276 GGGTAAATTG
44584286 CATAAATTTCATTTTCCA
1 CATAAATTTCATTTTCCA
44584304 CATAAATTTCATTTTCC
1 CATAAATTTCATTTTCC
44584321 GAGCCTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
CATAAATTTCATTTTCCA
Found at i:44584674 original size:7 final size:7
Alignment explanation
Indices: 44584662--44584688 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44584652 AATAATGCCC
44584662 GATAAAT
1 GATAAAT
44584669 GATAAAT
1 GATAAAT
44584676 GATAAAT
1 GATAAAT
44584683 GATAAA
1 GATAAA
44584689 AATGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:44589498 original size:15 final size:16
Alignment explanation
Indices: 44589478--44589512 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
44589468 TGAGAGATTT
44589478 ATGATATAA-TATTGC
1 ATGATATAATTATTGC
*
44589493 ATGATATAATTTTTGC
1 ATGATATAATTATTGC
44589509 ATGA
1 ATGA
44589513 CATATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (16 bp):
ATGATATAATTATTGC
Found at i:44600432 original size:39 final size:40
Alignment explanation
Indices: 44600285--44600546 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
44600275 TTGAATGCTG
* * * * * *
44600285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
44600325 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44600365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44600405 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
44600444 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44600484 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44600523 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44600547 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 74 0.37
40 117 0.59
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44600450 original size:79 final size:78
Alignment explanation
Indices: 44600285--44600546 Score: 328
Period size: 79 Copynumber: 3.3 Consensus size: 78
44600275 TTGAATGCTG
* * * * * * *
44600285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCGAAGG-CAT
*
44600349 TGTGCGAGATACTAAA
63 TGTGCGAGTTACTAAA
*
44600365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATT-G
*
44600430 TGCGAGTTATTAAA
65 TGCGAGTTACTAAA
* * *
44600444 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATTG
*
44600509 TGTGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
44600523 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44600547 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 105 0.65
80 48 0.30
81 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:44600566 original size:79 final size:80
Alignment explanation
Indices: 44600324--44600581 Score: 247
Period size: 79 Copynumber: 3.3 Consensus size: 80
44600314 AAGTGAATAT
* * * * * *
44600324 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
44600388 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
44600404 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
44600468 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
44600483 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
44600547 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
44600562 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
44600582 TACGTGATTT
Statistics
Matches: 155, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 15 0.10
79 118 0.76
80 22 0.14
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:44608275 original size:40 final size:40
Alignment explanation
Indices: 44608192--44608454 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
44608182 TTGAATGCTG
* * * * * *
44608192 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
44608232 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44608272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44608312 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
44608352 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44608392 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44608431 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44608455 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44608474 original size:79 final size:80
Alignment explanation
Indices: 44608231--44608489 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
44608221 AAGTGAATAT
* * * * * *
44608231 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
44608295 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
44608311 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
44608376 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
44608391 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
44608455 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
44608470 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
44608490 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:44611567 original size:13 final size:13
Alignment explanation
Indices: 44611545--44611577 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44611535 AAGGGTTTGT
44611545 TTAT-TAAACTAA
1 TTATCTAAACTAA
44611557 TTATCTAAACTAA
1 TTATCTAAACTAA
*
44611570 TTAACTAA
1 TTATCTAA
44611578 TTTAATTAAA
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:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:44612797 original size:56 final size:56
Alignment explanation
Indices: 44612711--44612830 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
44612701 ACAAGGGATG
44612711 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
44612767 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
44612823 ATGGGCAA
1 ATGGGCAA
44612831 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:44614199 original size:40 final size:40
Alignment explanation
Indices: 44613961--44614185 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
44613951 TCGAATGATG
* * * *
44613961 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44614001 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44614041 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44614080 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44614120 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44614161 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44614186 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44614207 original size:119 final size:119
Alignment explanation
Indices: 44613961--44614218 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
44613951 TCGAATGATG
* *
44613961 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
44614026 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
44614080 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
44614143 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
44614200 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44614219 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:44617645 original size:6 final size:5
Alignment explanation
Indices: 44617616--44617695 Score: 56
Period size: 6 Copynumber: 14.8 Consensus size: 5
44617606 TATGTCTTTC
* *
44617616 AAAAT AAAAT --AAT AAAATT GAAAT GAAAATT AAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAA-T AAAAT -AAAA-T AAAAT
44617664 CAAAAT AAAAT AAAAT AAAAAT AAGAAT AAAA
1 -AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAA
44617696 AAATAGGAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
3 3 0.05
5 23 0.38
6 34 0.56
7 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:44621480 original size:48 final size:48
Alignment explanation
Indices: 44621419--44621565 Score: 222
Period size: 48 Copynumber: 3.1 Consensus size: 48
44621409 CAAGATAAAT
* * *
44621419 ATATATATGTGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
44621467 ATATGTATATGTGGTAAAGACGAATGGCTAATATGAAATATGTTTGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44621515 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44621563 ATA
1 ATA
44621566 AAGCCGAATG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44621568 original size:35 final size:35
Alignment explanation
Indices: 44621517--44621600 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
44621507 TGTTTGAGAT
* * **
44621517 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATAAAGCCGAATGGCTAACATGAA
44621552 ATATATATGAGATAAAGCCGAATGGCTAACATGAA
1 ATATATATGAGATAAAGCCGAATGGCTAACATGAA
*
44621587 ATATGTATGAGATA
1 ATATATATGAGATA
44621601 TATATGTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (35 bp):
ATATATATGAGATAAAGCCGAATGGCTAACATGAA
Found at i:44621574 original size:83 final size:83
Alignment explanation
Indices: 44621472--44621648 Score: 264
Period size: 83 Copynumber: 2.1 Consensus size: 83
44621462 ATGAGATATG
* * * *
44621472 TATATGTGGTAAAGACGAATGGCTAATATGAAATATGTTTGAGATATATATATGTGGTAAAGCCG
1 TATATGAGATAAAGACGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAAAGCCG
44621537 AATGGCTAATGTGAAATA
66 AATGGCTAATGTGAAATA
* * *
44621555 TATATGAGATAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATGTGTGGTAAGGCCG
1 TATATGAGATAAAGACGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAAAGCCG
*
44621620 AATGGCTAGTGTGAAATA
66 AATGGCTAATGTGAAATA
* *
44621638 TGTATAAGATA
1 TATATGAGATA
44621649 TGTATATGTG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (83 bp):
TATATGAGATAAAGACGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAAAGCCG
AATGGCTAATGTGAAATA
Found at i:44621604 original size:48 final size:48
Alignment explanation
Indices: 44621555--44622511 Score: 1473
Period size: 48 Copynumber: 19.9 Consensus size: 48
44621545 ATGTGAAATA
* * ** *
44621555 TATATGAGATAAAGCCGAATGGCTAACATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * * *
44621603 TATGTGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATAAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44621651 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44621699 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTTTGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44621747 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
** * *
44621795 TATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGCGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44621843 TATGTGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44621891 TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44621939 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
** *
44621987 TATATGTGGTAAAGCCGAATGGCTAAAATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44622035 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
44622083 TATATGTGGTAAAGCCGAATGGCTAGTGAGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
44622131 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44622179 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * ** *
44622227 TTTATGTGGTAAATCCGAATGGCTAACATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
44622275 TTTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44622323 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
44622371 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
44622419 TATATGTGGTAAATCCGAATGGCTAATGTGAAATATGCATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44622467 TATATTTGGTAAAGCCGAATGACTAATGTGAAATATGTAGGAGAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
44622512 GTGTTTATAT
Statistics
Matches: 829, Mismatches: 80, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 829 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:44622702 original size:37 final size:38
Alignment explanation
Indices: 44622652--44622754 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 38
44622642 GGAAATATAT
44622652 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGA
44622689 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGA
* *
44622727 T-CGGGTAAGAACCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
44622755 GGACTATTCG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
37 62 0.98
38 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (38 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGA
Found at i:44624014 original size:40 final size:40
Alignment explanation
Indices: 44623959--44624324 Score: 525
Period size: 40 Copynumber: 9.2 Consensus size: 40
44623949 GAGAATTGAG
44623959 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
44623999 AGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
44624039 AGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCGCGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
44624079 AGAGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
44624119 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
44624159 AGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCACGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
44624199 AGAGTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
44624239 AGAGTTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
44624279 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
44624319 GGTGAT
1 AGTGAT
44624325 GTGTATTCGG
Statistics
Matches: 294, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:44624119 original size:23 final size:23
Alignment explanation
Indices: 44624093--44624159 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
44624083 TTATATCCGG
44624093 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * * *
44624116 GCT-AGT---G-ATA-TATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
44624133 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
44624156 GCTA
1 GCTA
44624160 GTGATATACC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 7 0.23
18 5 0.17
19 1 0.03
21 1 0.03
22 5 0.17
23 11 0.37
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:44624177 original size:120 final size:120
Alignment explanation
Indices: 44623964--44624310 Score: 586
Period size: 120 Copynumber: 2.9 Consensus size: 120
44623954 TTGAGAGTGA
*
44623964 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCAAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
*
44624029 CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCGCGCTAGAGT
66 CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCACGCTAGAGT
44624084 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
44624149 CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCACGCTAGAGT
66 CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCACGCTAGAGT
* * * * *
44624204 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATATCAGGGTTAAGTCCCGAAGAG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
* * * * *
44624269 CATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
66 CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCA
44624311 ATCATGCTGG
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 215 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAG
CATTCGTGCTAGTGATATACCCGGGCTAAGTCTCGAAGAGCATTCACGCTAGAGT
Found at i:44628050 original size:48 final size:48
Alignment explanation
Indices: 44627989--44628858 Score: 1308
Period size: 48 Copynumber: 18.0 Consensus size: 48
44627979 CAAGATAAAT
* * * *
44627989 ATATATATGTGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44628037 ATATGTGTATGTGGTAAAGCCGAATGGCTAATATGAAATATGTTTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628085 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * **
44628133 ATATGTAGATGTGGTAAAGCTGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
44628181 ATATATATGTGTTGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44628229 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44628277 ATATATATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
44628325 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628373 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44628421 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628469 ATATGTATATGTGGTCAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44628517 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * **
44628565 ATATGTATATGTGGTAAATCCGTATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628613 ATATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628663 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44628711 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44628759 ATATATATAAATGTGGTAAATCCGAATGGCTAATGTGAAATATGCATGAG
1 ATATGTAT--ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44628809 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44628857 AT
1 AT
44628859 GTGTGTATAT
Statistics
Matches: 742, Mismatches: 76, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
48 656 0.88
50 86 0.12
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44629054 original size:37 final size:37
Alignment explanation
Indices: 44628999--44629101 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
44628989 GGAAATATAT
44628999 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
44629036 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
44629073 TTCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
44629102 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44632723 original size:93 final size:93
Alignment explanation
Indices: 44632564--44632734 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44632554 GGATGGTTGA
* *
44632564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCATTGAGT
44632629 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
44632657 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCATTGAGT
*
44632722 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
44632735 ACTTATGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44632783 original size:46 final size:46
Alignment explanation
Indices: 44632568--44632785 Score: 237
Period size: 46 Copynumber: 4.7 Consensus size: 46
44632558 GGTTGAGCAT
* * *
44632568 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
44632614 CTGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
* * *
44632659 ATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
44632707 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44632753 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44632786 GGGGCAGGTT
Statistics
Matches: 144, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 2 0.01
46 99 0.69
47 27 0.19
48 4 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44658274 original size:39 final size:40
Alignment explanation
Indices: 44658231--44658398 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
44658221 CTCGTTCAAG
* * * *
44658231 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
44658270 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
44658310 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
44658350 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
44658390 TGCCTTCGG
1 TGCCTTCGG
44658399 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:44658382 original size:80 final size:80
Alignment explanation
Indices: 44658266--44658451 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
44658256 AGTAACTCAT
* * *
44658266 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
44658330 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
44658345 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
44658409 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
44658426 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
44658452 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:44658411 original size:40 final size:40
Alignment explanation
Indices: 44658268--44658451 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
44658258 TAACTCATAC
* *
44658268 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
44658308 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
44658348 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
44658388 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
44658429 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44658452 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:44666229 original size:39 final size:40
Alignment explanation
Indices: 44666186--44666353 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
44666176 CTCGTTCAAG
* * * *
44666186 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
44666225 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
44666265 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
44666305 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
44666345 TGCCTTCGG
1 TGCCTTCGG
44666354 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:44666337 original size:80 final size:80
Alignment explanation
Indices: 44666221--44666399 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 80
44666211 AGTAACTCAT
* * *
44666221 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
44666285 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
44666300 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
44666364 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
44666381 ACAAAGCCTTCGGGACTTA
1 ACAAAGCCTTCGGGACTTA
44666400 GCCCAGACAG
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 66 0.75
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:44666366 original size:40 final size:40
Alignment explanation
Indices: 44666223--44666353 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
44666213 TAACTCATAC
* *
44666223 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
44666263 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
44666303 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
44666343 AATGCCTTCGG
1 AATGCCTTCGG
44666354 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:44666400 original size:40 final size:40
Alignment explanation
Indices: 44666226--44666403 Score: 157
Period size: 40 Copynumber: 4.5 Consensus size: 40
44666216 CTCATACAAT
* * * * *
44666226 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTAGCACAAAG
* * * *
44666266 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
44666306 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
44666346 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAAC-TAGCACAAAG
44666386 GCCTTCGGGACTTAGCCC
1 GCCTTCGGGACTTAGCCC
44666404 AGACAGCATT
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.07
40 100 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
Found at i:44668572 original size:56 final size:56
Alignment explanation
Indices: 44668481--44668594 Score: 185
Period size: 56 Copynumber: 2.0 Consensus size: 56
44668471 AATTTTACAA
* *
44668481 TTGTTTTTATTGTGTTTTAAAGTTTAGATTGTAATTTTATTTTCTAGTTATTAATT
1 TTGTTTTTATTGTGGTTTAAAGTTTAGATTGTAATTTTATTTTATAGTTATTAATT
*
44668537 TTGTTTTTATTGTGGTTTAAAGTTTATAGTT-TAATTTTATTTTATAGTTATTAATT
1 TTGTTTTTATTGTGGTTTAAAGTTTAGA-TTGTAATTTTATTTTATAGTTATTAATT
44668593 TT
1 TT
44668595 TTATTTGATC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 52 0.96
57 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.12, T:0.63
Consensus pattern (56 bp):
TTGTTTTTATTGTGGTTTAAAGTTTAGATTGTAATTTTATTTTATAGTTATTAATT
Found at i:44674214 original size:22 final size:22
Alignment explanation
Indices: 44674148--44674341 Score: 127
Period size: 22 Copynumber: 9.0 Consensus size: 22
44674138 ACATTATACC
*
44674148 AGTAGGCACCGAAGTGC---TG
1 AGTAGGCACCGAAGTGCTAATT
* * *
44674167 AGCAGGCACCGTAA-TGCAAATC
1 AGTAGGCACCG-AAGTGCTAATT
*
44674189 AGTAGACACCGAAGTGCTAATT
1 AGTAGGCACCGAAGTGCTAATT
* *
44674211 AGTAGGCATC-ACAGTGCAAATCT
1 AGTAGGCACCGA-AGTGCTAAT-T
* *
44674234 -GTAGGCATCGAAGTGCTAATC
1 AGTAGGCACCGAAGTGCTAATT
** * *
44674255 AGTACACACCGTAGTGCAAATT
1 AGTAGGCACCGAAGTGCTAATT
**
44674277 AGTACACACC-ATAGTGCTAATT
1 AGTAGGCACCGA-AGTGCTAATT
*
44674299 AGTAGGCACC-ATAGTGCAAATT
1 AGTAGGCACCGA-AGTGCTAATT
44674321 AGTAGGCACCGTAA-TGCTAAT
1 AGTAGGCACCG-AAGTGCTAAT
44674342 CCTGTACAAG
Statistics
Matches: 140, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
19 13 0.09
20 2 0.01
21 3 0.02
22 118 0.84
23 3 0.02
24 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCTAATT
Found at i:44674246 original size:44 final size:44
Alignment explanation
Indices: 44674170--44674341 Score: 179
Period size: 44 Copynumber: 3.9 Consensus size: 44
44674160 AGTGCTGAGC
* * *
44674170 AGGCACCGTAATGCAAATCAGTAGACACCGAAGTGCTAATTAGT
1 AGGCACCATAGTGCAAATTAGTAGACACCGAAGTGCTAATTAGT
* * * * *
44674214 AGGCATCACAGTGCAAATCT-GTAGGCATCGAAGTGCTAATCAGT
1 AGGCACCATAGTGCAAAT-TAGTAGACACCGAAGTGCTAATTAGT
** * *
44674258 ACACACCGTAGTGCAAATTAGTACACACC-ATAGTGCTAATTAGT
1 AGGCACCATAGTGCAAATTAGTAGACACCGA-AGTGCTAATTAGT
*
44674302 AGGCACCATAGTGCAAATTAGTAGGCACCGTAA-TGCTAAT
1 AGGCACCATAGTGCAAATTAGTAGACACCG-AAGTGCTAAT
44674342 CCTGTACAAG
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
43 2 0.02
44 97 0.96
45 1 0.01
46 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (44 bp):
AGGCACCATAGTGCAAATTAGTAGACACCGAAGTGCTAATTAGT
Found at i:44674295 original size:88 final size:88
Alignment explanation
Indices: 44674173--44674342 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 88
44674163 GCTGAGCAGG
* *
44674173 CACCGTAATGCAAATCAGTAGACACCGAAGTGCTAATTAGTAGGCATCACAGTGCAAATCT-GTA
1 CACCGTAATGCAAATCAGTACACACCGAAGTGCTAATTAGTAGGCACCACAGTGCAAAT-TAGTA
*
44674237 GGCATCG-AAGTGCTAATCAGTACA
65 GGCACCGTAA-TGCTAATCAGTACA
* * *
44674261 CACCGTAGTGCAAATTAGTACACACC-ATAGTGCTAATTAGTAGGCACCATAGTGCAAATTAGTA
1 CACCGTAATGCAAATCAGTACACACCGA-AGTGCTAATTAGTAGGCACCACAGTGCAAATTAGTA
44674325 GGCACCGTAATGCTAATC
65 GGCACCGTAATGCTAATC
44674343 CTGTACAAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
87 2 0.03
88 69 0.95
89 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (88 bp):
CACCGTAATGCAAATCAGTACACACCGAAGTGCTAATTAGTAGGCACCACAGTGCAAATTAGTAG
GCACCGTAATGCTAATCAGTACA
Found at i:44674315 original size:66 final size:66
Alignment explanation
Indices: 44674170--44674333 Score: 170
Period size: 66 Copynumber: 2.5 Consensus size: 66
44674160 AGTGCTGAGC
* * * * ** *
44674170 AGGCACCGTAATGCAAATCAGTAGACACCGAAGTGCTAATTAGTAGGCATCACAGTGCAAATCTG
1 AGGCACCATAGTGCAAATCAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCTG
44674235 T
66 T
* * * * *
44674236 AGGCATCGA-AGTGCTAATCAGTACACACCGTAGTGCAAATTAGTACACACCATAGTGCTAAT-T
1 AGGCA-CCATAGTGCAAATCAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCT
44674299 AGT
65 -GT
* *
44674302 AGGCACCATAGTGCAAATTAGTAGGCACCGTA
1 AGGCACCATAGTGCAAATCAGTAGACACCGTA
44674334 ATGCTAATCC
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
65 3 0.04
66 74 0.95
67 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (66 bp):
AGGCACCATAGTGCAAATCAGTAGACACCGTAGTGCAAATTAGTACACACCACAGTGCAAATCTG
T
Found at i:44679158 original size:29 final size:29
Alignment explanation
Indices: 44679116--44679173 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44679106 TATTTCTCAA
44679116 CCAATTTGGCATCAACCTACACTCGACAT
1 CCAATTTGGCATCAACCTACACTCGACAT
*
44679145 CCAATTTGGCATCATCCTACACTCGACAT
1 CCAATTTGGCATCAACCTACACTCGACAT
44679174 TGTGCATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.26
Consensus pattern (29 bp):
CCAATTTGGCATCAACCTACACTCGACAT
Found at i:44680286 original size:25 final size:25
Alignment explanation
Indices: 44680199--44680280 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
44680189 ATACATGTAT
*
44680199 GCTCATACGAGCTGTAAATCGGTAA
1 GCTCATACGAGCTGAAAATCGGTAA
44680224 GCTCATACGAGCT-AAGAATCGGTAA
1 GCTCATACGAGCTGAA-AATCGGTAA
* *
44680249 GCT-TTCACGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTGAAAATCGGTAA
44680274 GCTCATA
1 GCTCATA
44680281 TAAGCTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAAAATCGGTAA
Found at i:44682679 original size:16 final size:16
Alignment explanation
Indices: 44682637--44682690 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
44682627 TGAATTACTG
44682637 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* * * * *
44682653 ACTATAGCTCTGTTCA
1 ATTACAACTCTATTCC
44682669 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
44682685 ATTACA
1 ATTACA
44682691 GTGAATCAAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:44686470 original size:208 final size:208
Alignment explanation
Indices: 44686112--44686528 Score: 807
Period size: 208 Copynumber: 2.0 Consensus size: 208
44686102 CTACACTCCA
*
44686112 AGTAGTATCGAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTGTT
1 AGTAGTATCGAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
44686177 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
66 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
44686242 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTGT
131 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTGT
44686307 TACTGCTACTAGT
196 TACTGCTACTAGT
*
44686320 AGTAGTATCGAATGCGGCACAAAATAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
1 AGTAGTATCGAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
44686385 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
66 TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
*
44686450 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGGTACTGCATAACTGT
131 TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTGT
44686515 TACTGCTACTAGT
196 TACTGCTACTAGT
44686528 A
1 A
44686529 CTGTGATGGG
Statistics
Matches: 206, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 206 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (208 bp):
AGTAGTATCGAATGCGGCACAAAAGAGTAGCGTAGGGGGTTGGGGCTGAGTTGCAAACTATTATT
TTGTGCCGCATTTGGTACTACTTGGAGCGTAGGGATGGGTGGGTTGATTATATCCCCACATGGAG
TGTAGGGTTGGACGGAGATAGTGTGTAGAGGATGGTTGGGTAGGATTTTGCTACTGCATAACTGT
TACTGCTACTAGT
Found at i:44694110 original size:15 final size:15
Alignment explanation
Indices: 44694080--44694108 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44694070 ACTATTAATA
44694080 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
44694095 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
44694109 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:44695410 original size:36 final size:37
Alignment explanation
Indices: 44695329--44695423 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
44695319 GCCTCAGATA
* *
44695329 TTACAATTATATGTTTATTTTTTATTAGTCCAAAAGG
1 TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
*
44695366 TTACAATTATGTGTTTATTTTTTATTACTCCTAAA-G
1 TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
* * *
44695402 TTATAATTATGCGTTAATTTTT
1 TTACAATTATGTGTTTATTTTT
44695424 ATTTAATGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 20 0.38
37 32 0.62
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.53
Consensus pattern (37 bp):
TTACAATTATGTGTTTATTTTTTATTACTCCAAAAGG
Found at i:44696178 original size:25 final size:25
Alignment explanation
Indices: 44696130--44696178 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44696120 CTACACTAAT
* *
44696130 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAAATGGGAAACGAAAAA
44696155 TAGAGTTTAAATGGGAGAA-GAAAA
1 TAGAGTTTAAATGGGA-AACGAAAA
44696179 GCCAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (25 bp):
TAGAGTTTAAATGGGAAACGAAAAA
Found at i:44698769 original size:49 final size:49
Alignment explanation
Indices: 44698716--44698941 Score: 258
Period size: 49 Copynumber: 4.6 Consensus size: 49
44698706 ATCTGGTATG
44698716 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
** ** * *
44698765 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACA
* * * * * **
44698815 CGTAATAGCCTG-ACTTAGTACTACACACGTG-ATCAAAGTTATCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACA
*
44698865 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
* *
44698914 CGTAGTAGCCTGCACTTAATACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
44698942 CGTGACCTCA
Statistics
Matches: 144, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
49 87 0.60
50 40 0.28
51 17 0.12
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
Done.