Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 253 of 316
Found at i:83581434 original size:27 final size:27
Alignment explanation
Indices: 83581373--83581425 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
83581363 TCATACTTCT
83581373 CATAGGGGCATATCAGTCAATTTATCA
1 CATAGGGGCATATCAGTCAATTTATCA
*
83581400 CATAGGGGCATAAT-AGTCATTTTATC
1 CATAGGGGCAT-ATCAGTCAATTTATC
83581426 GGTTAGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (27 bp):
CATAGGGGCATATCAGTCAATTTATCA
Found at i:83582898 original size:14 final size:14
Alignment explanation
Indices: 83582879--83582905 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83582869 TATTAAGGCA
83582879 ATAATTAAGAACAC
1 ATAATTAAGAACAC
83582893 ATAATTAAGAACA
1 ATAATTAAGAACA
83582906 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:83585665 original size:46 final size:46
Alignment explanation
Indices: 83585598--83585725 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
83585588 TGTAACCCGC
* *
83585598 CCATAAGTGAACTCAGACTCAACTCAAC-ACG-CTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGA-GTCTC-GGCATTCGCAT
* *
83585644 CCATAAGTGAACTTGGACTCAACTCAACGAGTTTCGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTCTCGGCATTCGCAT
*
83585690 CCATAACTGAACTCGGACTCAACTCAACGAGT-TCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTCTCGG
83585726 ATGCCAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
45 4 0.05
46 67 0.91
47 3 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCTCGGCATTCGCAT
Found at i:83590926 original size:92 final size:92
Alignment explanation
Indices: 83590769--83590937 Score: 261
Period size: 92 Copynumber: 1.8 Consensus size: 92
83590759 CCCATAAGTG
* *
83590769 AACTCGGACTCAACTCAACGATCGGGCGTTCGCATCCATGAAGTGAACTCGGACTCAACTCAACG
1 AACTCGGACTCAACTCAACGATCGGACATTCGCATCCATGAAGTGAACTCGGACTCAACTCAACG
83590834 AGCTCAGATGCCTAGTTACATCTCTCA
66 AGCTCAGATGCCTAGTTACATCTCTCA
*
83590861 AACTCGGACTCAACTCAACGAGTTC-GACATTTGCATCCAT-AAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGA--TCGGACATTCGCATCCATGAAGTGAACTCGGACTCAACTCAA
* *
83590924 CGAGTTCGGATGCC
64 CGAGCTCAGATGCC
83590938 CAAATATCCT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 56 0.80
93 12 0.17
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGATCGGACATTCGCATCCATGAAGTGAACTCGGACTCAACTCAACG
AGCTCAGATGCCTAGTTACATCTCTCA
Found at i:83590931 original size:45 final size:46
Alignment explanation
Indices: 83590760--83590930 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 46
83590750 TGTAACCCGC
* * * *
83590760 CCATAAGTGAACTCGGACTCAACTCAACGA--TCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
* * *
83590804 CCATGAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCAGA---C-ATTTGCAT
*
83590855 CTC-TCA---AACTCGGACTCAACTCAACGAGTTC-GACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
83590897 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
83590931 GGATGCCCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 1 0.01
44 4 0.04
45 51 0.49
46 2 0.02
47 27 0.26
50 2 0.02
51 6 0.06
52 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:83606872 original size:41 final size:40
Alignment explanation
Indices: 83606814--83606954 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 40
83606804 GAGCTTGGTC
* *
83606814 TCGAAGGGCTTTTGAGCCAGTG-CTAATAACTGAACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGTC-AA-AACCGAACTTAGTT
*
83606855 TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGGACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGAACTTAGTT
* * * * * * * *
83606895 CCGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTC
1 TCGAAGGGCTTTAGAGCCAGTG-TCAAAACCGAACTTAGTT
83606936 TCGAAGGGCTCTT-GAGCCA
1 TCGAAGGGCT-TTAGAGCCA
83606955 ATGCTAAGAA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
40 31 0.37
41 49 0.59
42 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGAACTTAGTT
Found at i:83606902 original size:40 final size:41
Alignment explanation
Indices: 83606815--83606916 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 41
83606805 AGCTTGGTCT
* * *
83606815 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTT
1 CGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTTC
*
83606856 CGAAGGGCTTTAGAGCCAGTG-TCAA-AACCGGACTTAGTTC
1 CGAAGGGCTTTAGAGCCAGTGCT-AATAACCGAACTTAGTTC
* *
83606896 CGAAGGGCCTTCGAGCCAGTG
1 CGAAGGGCTTTAGAGCCAGTG
83606917 ATCTAATCCG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
40 32 0.59
41 22 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
CGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTTC
Found at i:83609146 original size:18 final size:18
Alignment explanation
Indices: 83609120--83609163 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
83609110 CAGTCTTGAT
*
83609120 GATGAATCCGACTTTTAA
1 GATGGATCCGACTTTTAA
*
83609138 GATGGATCCGGCTTTTAA
1 GATGGATCCGACTTTTAA
83609156 GATGGATC
1 GATGGATC
83609164 AGTTGGCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (18 bp):
GATGGATCCGACTTTTAA
Found at i:83610061 original size:438 final size:437
Alignment explanation
Indices: 83609229--83610080 Score: 1149
Period size: 438 Copynumber: 1.9 Consensus size: 437
83609219 TCTTCAAGGG
* * * * *
83609229 TGTATTTATAGGCTTTGGAATGCCTATGAACCCTCAAAAGTGGCCTTTTTCGAATTGGACTTAAC
1 TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
* * * ** * *
83609294 TTAGGCTCGGCAGGGACACGCCCGTGTGCGATTACTTTAGGCTGTGTTCGAGCCGTTAGAATGGC
66 TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCCGTTAGAATGGC
* * * ** * *
83609359 ACGGGCGTGTGCTATACCCGTGTGAGTCATGCTTCGATTCTGCCGGATTGACACGGCCGTGTGGT
131 ACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTGGT
*
83609424 CTGCCTGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
196 CTGCCCGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
* * * *
83609489 CCCATTTTTCGTTTCTTTCGCTCTCCTATACTCTCCTAAGTATAAAACATGAAATTAAAGCATTA
261 CCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGCATTA
* * *
83609554 GGAGCACCGAATTCACCAATTCTAATAGAAAATCATCCATAAAATGCGTTAAACATAGGGTAAAA
326 GGAGCACCGAATTCACCAAATCTAAGAGAAAATCATCCATAAAATGCGCTAAACATAGGGTAAAA
83609619 ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
391 ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
* * *
83609666 TGTATTTATAGGCTTTAGAATGCTTAAGAACCCTCAAAATTGGCCTTTTCCGAATTAGACTCAAT
1 TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
* *
83609731 TTGGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCTTGTTA-AATAG
66 TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGC-CGTTAGAAT-G
* * * * *
83609795 GCACGAGTGTGTGGTCCACCTGTGTGAGTCGTGCTTCAATTCTGCCAAATTGACACAGCCATGTG
129 GCACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTG
* * * *
83609860 GTTTGCCCGTGTGAGGAGGTCTAGG-TCGTGTTGATTTCGTA-TGTTGGCCCATTTTCTCTGTTT
194 GTCTGCCCGTGTGAGGAAGTCTAGGCT-GTGTTAAGTTCGTACT-TTGGCCCATTTTCTCTGTTT
* * * *
83609923 TTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTCACCTAAGTATAAAATATGAAATTAAGGC
257 TTGGCCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGC
** * * *
83609988 ATTAGGAGCATTGAATTCACCAAATGTAAG-GAAAAATCATCCATAAAATGTGCTAAGCAT-GGG
322 ATTAGGAGCACCGAATTCACCAAATCTAAGAG-AAAATCATCCATAAAATGCGCTAAACATAGGG
83610051 -AGAGAAATATGTATAAATTACGGTTTATCA
386 TA-A-AAATATGTATAAATTACGGTTTATCA
83610081 GTTTTCTTAC
Statistics
Matches: 358, Mismatches: 50, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
436 1 0.00
437 112 0.31
438 245 0.68
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (437 bp):
TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCCGTTAGAATGGC
ACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTGGT
CTGCCCGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
CCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGCATTA
GGAGCACCGAATTCACCAAATCTAAGAGAAAATCATCCATAAAATGCGCTAAACATAGGGTAAAA
ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
Found at i:83614415 original size:144 final size:144
Alignment explanation
Indices: 83614152--83614519 Score: 495
Period size: 144 Copynumber: 2.5 Consensus size: 144
83614142 AATGATGATA
* * ** * *
83614152 CCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATGTCTCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATA-ATAAG-GCCGATGCTATGTCCCAAACAT
* * * * *
83614217 GGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCG
64 GGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCG
*
83614282 CATATTGAGGCCGATG
129 CATATTGAGACCGATG
* **
83614298 TCATGTCCCAGACATGGTCTTACACTAGCTCACATTTTAAGGCCGATG-TCATGTCCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCT-ATGTCCCAAACATG
83614362 GTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGC
65 GTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGC
83614427 ATATTGAGACCGATG
130 ATATTGAGACCGATG
* * * * ** * *
83614442 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCTATGTCCCAAACATGG
83614507 TCTTACACTGGCT
66 TCTTACACTGGCT
83614520 TGCATGTTGA
Statistics
Matches: 194, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 158 0.81
145 3 0.02
146 32 0.16
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCTATGTCCCAAACATGG
TCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGCA
TATTGAGACCGATG
Found at i:83614517 original size:96 final size:96
Alignment explanation
Indices: 83614152--83614568 Score: 406
Period size: 96 Copynumber: 4.3 Consensus size: 96
83614142 AATGATGATA
** * * ** *
83614152 CCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATG-TCTCAGACA
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-CAATGCCGATGCTATGTTC-CAAACA
* * ** *** *
83614216 TGGTCTTACACTGACACATATAACAATGCCGATG
63 TGGTCTTACACTGGCTCGCATATTGAGGCCGATG
* * * *** * * *
83614250 CCATGTTCCAAACATGGTCTTACATTGGCTCGCATATTGAGGCCGATG-TCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCT-ATGTTCCAAACATG
* * * *
83614314 GTCTTACACTAGCTCACATTTTAAGGCCGATG
65 GTCTTACACTGGCTCGCATATTGAGGCCGATG
* * *
83614346 TCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
*
83614411 TCTTACACTGGCTCGCATATTGAGACCGATG
66 TCTTACACTGGCTCGCATATTGAGGCCGATG
* * * * *
83614442 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
* *
83614507 TCTTACACTGGCTTGCATGTTGAGGCCGATG
66 TCTTACACTGGCTCGCATATTGAGGCCGATG
* * *
83614538 CCACGCCCCATACATGGTCTTACACTGGCTC
1 CCATGTCCCAAACATGGTCTTACACTGGCTC
83614569 TTATATCTCC
Statistics
Matches: 264, Mismatches: 52, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
95 1 0.00
96 232 0.88
97 1 0.00
98 30 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
TCTTACACTGGCTCGCATATTGAGGCCGATG
Found at i:83614535 original size:144 final size:144
Alignment explanation
Indices: 83614152--83614568 Score: 453
Period size: 144 Copynumber: 2.9 Consensus size: 144
83614142 AATGATGATA
* * * * * *
83614152 CCATGTCCCGGACATGGTCTTACACTAGCTCTCAT-ACATCGGTGCCGATG-CTATGTCTCAGAC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACA--AG-ACCGATGTC-ATGTCCCAAAC
* * * * *
83614215 ATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCT
62 ATGGTCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT
*
83614280 CGCATATTGAGGCCGATG
127 CGCATATTGAGACCGATG
* *** *
83614298 TCATGTCCCAGACATGGTCTTACACTAGCTCACATTTTAAGGCCGATGTCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTCATGTCCCAAACATGG
* *
83614363 TCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGCA
66 TCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCA
83614428 TATTGAGACCGATG
131 TATTGAGACCGATG
* * * * * *
83614442 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATG-CTATGTTCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTC-ATGTCCCAAACATG
** **** * ** *
83614506 GTCTTACACTGGCTTGCATGTTGAGGCCGATGCCACGCCCCATACATGGTCTTACACTGGCTC
65 GTCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
83614569 TTATATCTCC
Statistics
Matches: 231, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
143 1 0.00
144 195 0.84
145 2 0.01
146 32 0.14
147 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTCATGTCCCAAACATGG
TCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCA
TATTGAGACCGATG
Found at i:83614538 original size:48 final size:48
Alignment explanation
Indices: 83614163--83614568 Score: 348
Period size: 48 Copynumber: 8.4 Consensus size: 48
83614153 CATGTCCCGG
* * * ** * *
83614163 ACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATG-TCTCAG
1 ACATGGTCTTACACTGGCTCACATA-TTAAG-GCCGATGCCATGTTC-CAA
* * * ** *
83614213 ACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * * * *
83614261 ACATGGTCTTACATTGGCTCGCATATTGAGGCCGATGTCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * *
83614309 ACATGGTCTTACACTAGCTCACATTTTAAGGCCGATGTCATGTCCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
** * *
83614357 ACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * *
83614405 ACATGGTCTTACACTGGCTCGCATATTGAGACCGATGCCATG-TCCTAG
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCC-AA
* ** ** * *
83614453 ACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
** * * * ** *
83614501 ACATGGTCTTACACTGGCTTGCATGTTGAGGCCGATGCCACGCCCCAT
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
83614549 ACATGGTCTTACACTGGCTC
1 ACATGGTCTTACACTGGCTC
83614569 TTATATCTCC
Statistics
Matches: 283, Mismatches: 70, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
47 3 0.01
48 254 0.90
49 6 0.02
50 20 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
Found at i:83616985 original size:21 final size:21
Alignment explanation
Indices: 83616950--83616998 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
83616940 TGTTTTCATT
**
83616950 AAAAACCCTTCTTAA-AATAAA
1 AAAAACCCTAATTAACAA-AAA
*
83616971 AGAAACCCTAATTAACAAAAA
1 AAAAACCCTAATTAACAAAAA
83616992 AAAAACC
1 AAAAACC
83616999 TTTCAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAACCCTAATTAACAAAAA
Found at i:83618057 original size:28 final size:28
Alignment explanation
Indices: 83618019--83618103 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
83618009 TACCAGTATG
*
83618019 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* * *
83618047 TGTCCCATTAAGCCTAAATCACATTTATA
1 TGGCCCATTAAGCC-CAATCACATTCATA
* * *
83618076 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
83618104 ATCATGCTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:83624506 original size:47 final size:45
Alignment explanation
Indices: 83624438--83624566 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 45
83624428 TACATCTTGA
* *
83624438 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCGCTCGTTTCAA-T
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGCGCTC--AT-AAGT
*
83624485 -GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGT
1 GGCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCGCTCATAA-GT
**
83624532 GGCTGATGCATGTCCCAAACATGTCTTACACTAGC
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGC
83624567 TCACACAAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.03
46 20 0.28
47 29 0.40
48 21 0.29
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GGCCAATGCATGTCCCAAACATGTCTTACACTAGCGCTCATAAGT
Found at i:83624568 original size:46 final size:46
Alignment explanation
Indices: 83624391--83624568 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
83624381 ACACATTTCA
* * * * **
83624391 TGGCCGATGTATGTCCTAGACATGTCTTACACTGGCT-TACATCTTG
1 TGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CATAATG
* * *
83624437 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCGCTCGTTTCAA--
1 TGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC--AT-AATG
*
83624484 T-GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATG
1 TGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATAATG
*
83624531 TGGCTGATGCATGTCCCAAACATGTCTTACACTAGCTC
1 TGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTC
83624569 ACACAAGTGA
Statistics
Matches: 108, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
45 2 0.02
46 54 0.50
47 30 0.28
48 22 0.20
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
TGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATG
Found at i:83631251 original size:46 final size:45
Alignment explanation
Indices: 83631156--83631376 Score: 196
Period size: 46 Copynumber: 4.8 Consensus size: 45
83631146 AAGGTAAGGT
** *
83631156 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-AGAT-TTTATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCATCTTGA-G
* *
83631202 GCCGATGCATGTCCCAGACATGTCTCACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTTGAG
* * * * ** *
83631248 GCCGATGCATGTCCCAAACATGTCTTACATTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTCATCTTGAG
* ** *
83631294 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCATCTTGAG
83631342 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
83631377 CACACAAATG
Statistics
Matches: 144, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 66 0.46
47 31 0.22
48 22 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTTGAG
Found at i:83631349 original size:94 final size:92
Alignment explanation
Indices: 83631202--83631375 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
83631192 AGATTTTATG
* * **
83631202 GCCGATGCATGTCCCAGACATGTCTCACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAAAC
1 GCCGATGCATGTCCCAAACATGTCTCACACTAGCTTACATAATGAGGCCGATGCATGTCCCAAAC
*
83631267 ATGTCTTACATTAGCACTCGTCTCAAT
66 ATGTCTTACACTAGCACTCGTCTCAAT
* *
83631294 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATAATGTGGCCGATGCATGTCCCA
1 GCCGATG-CATGTCCCAAACAT-GTCTCACACTAGCT-TACATAATGAGGCCGATGCATGTCCCA
*
83631358 GACATGTCTTACACTAGC
63 AACATGTCTTACACTAGC
83631376 TCACACAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 50 0.70
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTCACACTAGCTTACATAATGAGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:83643052 original size:27 final size:24
Alignment explanation
Indices: 83643022--83643070 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
83643012 CGAGGTAAGT
83643022 TTGTATGTCAAATAAGCTTTAATATAA
1 TTGTAT-TCAAAT--GCTTTAATATAA
*
83643049 TTGTATTTAAATGCTTTAATAT
1 TTGTATTCAAATGCTTTAATAT
83643071 TGTATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (24 bp):
TTGTATTCAAATGCTTTAATATAA
Found at i:83648383 original size:47 final size:45
Alignment explanation
Indices: 83648222--83648491 Score: 222
Period size: 47 Copynumber: 5.8 Consensus size: 45
83648212 GAATGAATTT
* * * *
83648222 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC-TAT-CGAG-G
* * ** **
83648272 CTGATGCATGTCCCAGACATGTCTTACACTAGCACAAT-TCTTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCTATCGAGG
*
83648316 CCGATGCGTGTCCCAGACATGTCTTACACTGGCTATCTCTATCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCTATCGAGG
* *
83648363 CCGATGCATGTCCCAGACATGTCTTACTCTTGCACTCATAAT--ATGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTC-T-ATCGA-GG
* * * * * * *
83648409 CTGACGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTC-TATCGAGG
83648455 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
83648492 ACAAATCACC
Statistics
Matches: 179, Mismatches: 31, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
44 31 0.17
45 7 0.04
46 45 0.25
47 52 0.29
48 25 0.14
49 14 0.08
50 5 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCTATCGAGG
Found at i:83648428 original size:93 final size:90
Alignment explanation
Indices: 83648229--83648492 Score: 271
Period size: 93 Copynumber: 2.8 Consensus size: 90
83648219 TTTCCGATGC
* * *
83648229 CATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCG-TGCTGATGCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TC-TCTAT-CGATGCCGATGCATGTCCCAGACATG
** *
83648293 TCTTACACTAGCACAATTCTTGGCCGATG
62 TCTTACACTAGCACAATAATTGGCCGACG
* *
83648322 CGTGTCCCAGACATGTCTTACACTGGCTATCTCTATCGAGGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCT-TCTCTATCGATGCCGATGCATGTCCCAGACATGTCT
* * * *
83648387 TACTCTTGCACTCATAATATGGCTGACG
65 TACACTAGCAC-AATAAT-TGGCCGACG
* * * *
83648415 CATGTCCCAGACATGTCTTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTGGCTTCTC-TATCGATGCCGATG-CATGTCCCAGACAT-GT
*
83648479 CTTACACTGGCACA
63 CTTACACTAGCACA
83648493 CAAATCACCC
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
90 2 0.01
91 40 0.28
92 29 0.20
93 59 0.41
94 13 0.09
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCTCTATCGATGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCACAATAATTGGCCGACG
Found at i:83656703 original size:12 final size:12
Alignment explanation
Indices: 83656686--83656711 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83656676 CTAAAGATGT
83656686 GAAAATCATCAA
1 GAAAATCATCAA
83656698 GAAAATCATCAA
1 GAAAATCATCAA
83656710 GA
1 GA
83656712 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:83661696 original size:22 final size:23
Alignment explanation
Indices: 83661671--83661714 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
83661661 TGTTTACTCA
83661671 TAATATAATT-TATTTA-ATTTAC
1 TAAT-TAATTCTATTTACATTTAC
83661693 TAATTAATTCTATTTACATTTA
1 TAATTAATTCTATTTACATTTA
83661715 GGTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTAATTCTATTTACATTTAC
Found at i:83664629 original size:49 final size:47
Alignment explanation
Indices: 83664457--83664629 Score: 159
Period size: 49 Copynumber: 3.6 Consensus size: 47
83664447 AGATGCCGAC
* *
83664457 GCCATGTCCCAAACATGGTCTTACACTGGCTAGCAC-ATCAAAGTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGGCTATCACTATC-GAGTCGAT
* * ** * * *
83664505 GCCATGTCCTAGACAGGTCTTACACTAACTTTCAAATATCGAGGCTGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTATC-ACTATCGAGTC-GAT
* * * *
83664554 GCCGTGTCCCAAACAAGTCTTACACTGGCTCTCATCTATCTGTGTCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTATCA-CTATC-GAGTCGAT
*
83664603 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAAACAGGTCTTACACTG
83664630 ACACGCAACA
Statistics
Matches: 98, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
47 14 0.14
48 18 0.18
49 63 0.64
50 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAAACAGGTCTTACACTGGCTATCACTATCGAGTCGAT
Found at i:83664777 original size:46 final size:46
Alignment explanation
Indices: 83664690--83664777 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
83664680 ATATCTCGAG
* * *
83664690 GCCAATGCATCTCCTAGACATGTCTTACACTAGCTCTCATATTAAT
1 GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATATTAAT
* *
83664736 GCCAATGCATGTCCCAGGCATGTCTTACACTAGCACACATAT
1 GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATAT
83664778 CACCCAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (46 bp):
GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATATTAAT
Found at i:83668925 original size:13 final size:13
Alignment explanation
Indices: 83668909--83668941 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
83668899 TTTAATTAAA
*
83668909 TTAGTTAATTAGT
1 TTAGATAATTAGT
83668922 TTAGATAATTAGT
1 TTAGATAATTAGT
83668935 TTA-ATAA
1 TTAGATAA
83668942 ACAAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:83670500 original size:18 final size:18
Alignment explanation
Indices: 83670477--83670512 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
83670467 TTCTTGGGTG
83670477 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
83670495 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
83670513 CAACCATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:83678779 original size:49 final size:49
Alignment explanation
Indices: 83678700--83678837 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 49
83678690 CGGCTAGCAC
* * *
83678700 ATCAAAGTCGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATAT
1 ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
* * * *
83678749 ATCAACG-CTGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCT
1 ATCAACGTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
*** *
83678798 ATCGGTGTCGATGCCATGTTCCAGACAGGTCTTACACTGA
1 ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGA
83678838 GACACAACAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 71 0.97
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
Found at i:83678979 original size:48 final size:48
Alignment explanation
Indices: 83678856--83678979 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
83678846 AAGCTGACGC
* * *
83678856 CATGTCCTAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
* *
83678904 CATGTCCTAGACATGTCTTACATTGGCTTGTATATCTTGAGGCTAATG
1 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
* *
83678952 CATGTCCCAAACATGTCTTACACTGGCT
1 CATGTCCTAGACATGTCTTACACTGGCT
83678980 ACCAACATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
Found at i:83684456 original size:47 final size:47
Alignment explanation
Indices: 83684393--83684975 Score: 841
Period size: 47 Copynumber: 12.3 Consensus size: 47
83684383 CCCTTCGGGA
* * * *
83684393 CTTATCACATTTATACACTTCCACATCCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
83684440 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
83684487 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83684534 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
83684581 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
83684628 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
83684675 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
83684722 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
83684771 CTTATCACATGTATACACTTTCACATTTATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83684818 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83684865 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
83684914 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83684963 TTTATCTCATATA
1 CTTATCACATATA
83684976 CTATCATGTA
Statistics
Matches: 505, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 371 0.73
49 132 0.26
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:83684496 original size:22 final size:22
Alignment explanation
Indices: 83684468--83684589 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
83684458 TTTCACATTC
83684468 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
83684490 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
83684514 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
83684537 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
83684561 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83684584 ATCACA
1 ATCACA
83684590 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83687777 original size:40 final size:40
Alignment explanation
Indices: 83687732--83688048 Score: 393
Period size: 40 Copynumber: 7.9 Consensus size: 40
83687722 CGAATACACG
* * * * *
83687732 TCACCAGCATGATTGCTCTTCGAGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** ** *
83687772 ACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
83687812 TCACTAGCACGAATGCTCTTTGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
83687852 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
83687892 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
83687932 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
83687972 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** *
83688012 GTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
83688049 TTAGTAACTC
Statistics
Matches: 243, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 231 0.95
41 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:83687950 original size:120 final size:120
Alignment explanation
Indices: 83687732--83688048 Score: 438
Period size: 120 Copynumber: 2.6 Consensus size: 120
83687722 CGAATACACG
* * * * * * * *
83687732 TCACCAGCATGATTGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
* ** * *
83687797 TTTAGCATGGATATATCACTAGCACGAATGCTCTTTGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
83687852 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
*
83687917 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
83687972 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA-TCACTAGCACGAATGCTCTTCGGG
*
83688036 ACTTAACCCGGAT
65 ACTTAGCCCGGAT
83688049 TTAGTAACTC
Statistics
Matches: 174, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
120 162 0.93
121 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGGA
CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:83688054 original size:40 final size:41
Alignment explanation
Indices: 83687863--83688086 Score: 187
Period size: 40 Copynumber: 5.6 Consensus size: 41
83687853 CACTAGCATG
* * * **
83687863 AATGCTCTTCGGGACTTAGCCCGG-TTACA-TCACTAGCATG
1 AATGC-CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
* * * **
83687903 AATGCTCTTCGGGACTTAGCCCGGA-TACA-TCACTAGCATG
1 AATGC-CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
* * * * **
83687943 AATGCTCTTCGGAACTTAGCCCGGA-TACA-TCACTAGCATG
1 AATGC-CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
83687983 AATGCTCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACA
1 AATGC-CTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
* *
83688024 AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
83688064 AATGCCTTCGGG-CTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
83688087 CATCATTCGA
Statistics
Matches: 170, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 10 0.06
40 146 0.86
41 14 0.08
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
Found at i:83688073 original size:80 final size:80
Alignment explanation
Indices: 83687745--83688086 Score: 278
Period size: 80 Copynumber: 4.3 Consensus size: 80
83687735 CCAGCATGAT
* * * * * *** * **
83687745 TGCTCTTCGAGACCTAGCCCGGATATA-ACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACATA-ACTAGCACAAATGCTCTTCGGAACTTAACCCGGAT
* * *
83687809 ATATCACTAGCACGAA
65 ACATAACTAGCACCAA
* * * ** * * *
83687825 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGGAACTTAACCCGGATA
* **
83687890 CATCACTAGCATGAA
66 CATAACTAGCACCAA
* ** *
83687905 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGGAACTTAACCCGGATA
* **
83687970 CATCACTAGCATGAA
66 CATAACTAGCACCAA
* * * *
83687985 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACA-TAACTAGCACAAATGCTCTTCGGAACTTAACCCGGAT
** *
83688049 TTAGTAACTCGCACCAA
65 ACA-TAACTAGCACCAA
83688066 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
83688087 CATCATTCGA
Statistics
Matches: 225, Mismatches: 34, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
79 10 0.04
80 191 0.85
81 24 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGGAACTTAACCCGGATA
CATAACTAGCACCAA
Found at i:83688073 original size:120 final size:120
Alignment explanation
Indices: 83687732--83688086 Score: 394
Period size: 120 Copynumber: 3.0 Consensus size: 120
83687722 CGAATACACG
* * * * * * * *
83687732 TCACCAGCATGATTGCTCTTCGAGACCTAGCCCGGATATA-ACACCAGCACGAATGCTCTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATA-ACTAGCACAAATGCTCTTCGGG
** * ** * * *
83687796 GTTTAGCATGGATATATCACTAGCACGAATGCTCTTTGGAACTTAGCCCGGATACA
65 ACTTAACCCGGATACATAACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* **
83687852 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATAACTAGCACAAATGCTCTTCGGGA
* * *
83687917 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
66 CTTAACCCGGATACATAACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* *
83687972 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACA-TAACTAGCACAAATGCTCTTCGGG
** * * *
83688036 ACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGG-GCTTAGCCCGGA
65 ACTTAACCCGGATACA-TAACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
83688087 CATCATTCGA
Statistics
Matches: 203, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
119 11 0.05
120 168 0.83
121 24 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTACATAACTAGCACAAATGCTCTTCGGGA
CTTAACCCGGATACATAACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:83690404 original size:22 final size:22
Alignment explanation
Indices: 83690376--83690451 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
83690366 TTCCACATCC
83690376 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
83690398 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
83690422 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83690445 ATCACAT
1 ATCACAT
83690452 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83690411 original size:47 final size:47
Alignment explanation
Indices: 83690348--83690880 Score: 770
Period size: 47 Copynumber: 11.3 Consensus size: 47
83690338 CCCTTCGGGA
* * *
83690348 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
83690395 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
83690442 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83690489 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
83690536 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
83690583 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
83690630 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
83690679 CTTATCACA-AGTATACACTTTCACATTCATCACATCGACCATTGGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTCGGC
*
83690726 CTTATCACATATATACACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
83690772 CTTATCCATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
83690820 CTTATCAATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATC-ACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
83690868 CTTATCTCATATA
1 CTTATCACATATA
83690881 CTATCATGTA
Statistics
Matches: 444, Mismatches: 33, Indels: 18
0.90 0.07 0.04
Matches are distributed among these distances:
46 16 0.04
47 323 0.73
48 64 0.14
49 40 0.09
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:83692375 original size:56 final size:56
Alignment explanation
Indices: 83692308--83692427 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
83692298 TATTAGTTTA
83692308 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
83692364 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
83692420 TTGCCCAT
1 TTGCCCAT
83692428 CATCCCTTGC
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:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:83693357 original size:14 final size:14
Alignment explanation
Indices: 83693338--83693373 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
83693328 AAATGAATGA
83693338 TTGAATTGTTGAAT
1 TTGAATTGTTGAAT
83693352 TTGAATTGTTGAAT
1 TTGAATTGTTGAAT
83693366 TT-AATTGT
1 TTGAATTGT
83693374 ACTAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (14 bp):
TTGAATTGTTGAAT
Found at i:83705143 original size:24 final size:24
Alignment explanation
Indices: 83705093--83705146 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
83705083 AATCGAATTT
*
83705093 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
83705117 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
83705141 GCACAC
1 GCACAC
83705147 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:83709956 original size:11 final size:11
Alignment explanation
Indices: 83709940--83709964 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83709930 TATATCTATA
83709940 TTGTAGAATTT
1 TTGTAGAATTT
83709951 TTGTAGAATTT
1 TTGTAGAATTT
83709962 TTG
1 TTG
83709965 GTCCGGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (11 bp):
TTGTAGAATTT
Found at i:83711392 original size:28 final size:28
Alignment explanation
Indices: 83711360--83711485 Score: 162
Period size: 29 Copynumber: 4.4 Consensus size: 28
83711350 AGTAAGTCCA
*
83711360 CACACTTAGTGTTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* *
83711388 CACACTTAGTTCTTACATAATCAAACTCG
1 CACACTTAGTGC-TATATAATCAAACTCG
*
83711417 CACACTTAGTGCTATATAATCAAACTTG
1 CACACTTAGTGCTATATAATCAAACTCG
** * *
83711445 CACACTTAGTGCTATGCAATTTAAACCCG
1 CACACTTAGTGCTATATAA-TCAAACTCG
83711474 CACACTTAGTGC
1 CACACTTAGTGC
83711486 CAATCTCATG
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 41 0.48
29 44 0.52
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:83711413 original size:29 final size:29
Alignment explanation
Indices: 83711360--83711454 Score: 140
Period size: 28 Copynumber: 3.3 Consensus size: 29
83711350 AGTAAGTCCA
*
83711360 CACACTTAG-TGTTATATAATCAAACTCG
1 CACACTTAGTTCTTATATAATCAAACTCG
*
83711388 CACACTTAGTTCTTACATAATCAAACTCG
1 CACACTTAGTTCTTATATAATCAAACTCG
* *
83711417 CACACTTAGTGC-TATATAATCAAACTTG
1 CACACTTAGTTCTTATATAATCAAACTCG
83711445 CACACTTAGT
1 CACACTTAGT
83711455 GCTATGCAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 33 0.54
29 28 0.46
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (29 bp):
CACACTTAGTTCTTATATAATCAAACTCG
Found at i:83711433 original size:57 final size:57
Alignment explanation
Indices: 83711360--83711485 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 57
83711350 AGTAAGTCCA
* * *
83711360 CACACTTAGTGTTATATAATCAAACTCGCACACTTAGTTCT-TACATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAACCCG
* * * *
83711417 CACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAACCCG
1 CACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAACCCG
83711474 CACACTTAGTGC
1 CACACTTAGTGC
83711486 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 58 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (57 bp):
CACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAACCCG
Found at i:83724712 original size:37 final size:37
Alignment explanation
Indices: 83724654--83724724 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
83724644 TAGCTTGAAT
*
83724654 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
83724691 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGA
83724725 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:83724921 original size:46 final size:46
Alignment explanation
Indices: 83724868--83725004 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
83724858 TATATATACA
* * * * *
83724868 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
83724914 CATCTCATACACGTTTTGCATTAGCCACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
**
83724960 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
83725005 ATACACTTCC
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:83725049 original size:47 final size:46
Alignment explanation
Indices: 83725011--83725376 Score: 381
Period size: 47 Copynumber: 7.4 Consensus size: 46
83725001 ATATATACAC
* ** *
83725011 TTCCACGTTCATCACATTGGCCATTCTACCTTATCACATATATGCA
1 TTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
83725057 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 T-TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
83725104 TGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 TTC-CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
83725151 TGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 TTC-CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
*
83725198 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATTCGGCCTTA
1 T-TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATA-T--G-C--A
*
83725251 TTACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 TTCCACAT-T-CA---TCACA---------TTGGCCATTCGGCCTTATCACACATATGCA
* *
83725311 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
1 T-TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
* *
83725358 TGCTCACATTCGTCACATT
1 TTC-CACATTCATCACATT
83725377 AAAATCCTAA
Statistics
Matches: 280, Mismatches: 15, Indels: 49
0.81 0.04 0.14
Matches are distributed among these distances:
46 1 0.00
47 215 0.77
48 1 0.00
50 1 0.00
51 1 0.00
52 6 0.02
53 3 0.01
54 2 0.01
56 5 0.02
57 5 0.02
59 2 0.01
60 3 0.01
61 6 0.02
62 1 0.00
63 1 0.00
65 1 0.00
66 26 0.09
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (46 bp):
TTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
Found at i:83725119 original size:25 final size:25
Alignment explanation
Indices: 83725090--83725167 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
83725080 ATTCGGCCTT
83725090 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
83725115 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
83725137 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
83725162 ATCACA
1 ATCACA
83725168 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:83725189 original size:22 final size:22
Alignment explanation
Indices: 83725162--83725236 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
83725152 GCTCACATTC
83725162 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
83725184 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
83725208 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83725231 ATCACA
1 ATCACA
83725237 CATATTCGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83725245 original size:19 final size:19
Alignment explanation
Indices: 83725221--83725260 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
83725211 CACATTGGCC
83725221 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
*
83725240 ATTCGGCCTTATTACACAT
1 ATTCGGCCTTATCACACAT
83725259 AT
1 AT
83725261 GCATGTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:83725251 original size:66 final size:66
Alignment explanation
Indices: 83725174--83725307 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
83725164 CACATTGGCC
83725174 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
83725239 T
66 T
*
83725240 ATTCGGCCTTATTACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
83725305 T
66 T
83725306 AT
1 AT
83725308 GCATGTTCAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (66 bp):
ATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
T
Found at i:83725260 original size:160 final size:160
Alignment explanation
Indices: 83725080--83725376 Score: 540
Period size: 160 Copynumber: 1.9 Consensus size: 160
83725070 CACATTGGCC
83725080 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
*
83725145 TATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
66 TATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
83725210 TCACATTGGCCATTCGGCCTTATCACACAT
131 TCACATTGGCCATTCGGCCTTATCACACAT
* *
83725240 ATTCGGCCTTATTACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
* * *
83725305 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCG
66 TATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
83725370 TCACATT
131 TCACATT
83725377 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 131 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (160 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
TATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
TCACATTGGCCATTCGGCCTTATCACACAT
Found at i:83725261 original size:113 final size:113
Alignment explanation
Indices: 83725127--83725354 Score: 429
Period size: 113 Copynumber: 2.0 Consensus size: 113
83725117 CACATTGGCC
83725127 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
83725192 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
66 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
* *
83725240 ATTCGGCCTTATTACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
*
83725305 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
66 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
83725353 AT
1 AT
83725355 GCATGCTCAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (113 bp):
ATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
Found at i:83725301 original size:22 final size:22
Alignment explanation
Indices: 83725275--83725350 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
83725265 GTTCACATTC
83725275 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
83725297 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
83725321 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83725344 ATCACAT
1 ATCACAT
83725351 ATATGCATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83729741 original size:26 final size:26
Alignment explanation
Indices: 83729712--83729764 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
83729702 TCAAACATGC
*
83729712 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
83729738 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
83729764 A
1 A
83729765 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:83731286 original size:26 final size:26
Alignment explanation
Indices: 83731250--83731333 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
83731240 CATGAAATTC
83731250 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
83731276 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
83731302 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
83731328 TTATCA
1 TTATCA
83731334 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83733541 original size:26 final size:26
Alignment explanation
Indices: 83733512--83733613 Score: 98
Period size: 26 Copynumber: 3.9 Consensus size: 26
83733502 CCAACACACC
*
83733512 AATATCACAACAAAGTTGCCAGTAAT
1 AATATCACAACAAAGCTGCCAGTAAT
* *
83733538 AATATCACAGCAAAGCTACCAGT-AT
1 AATATCACAACAAAGCTGCCAGTAAT
* * * * *
83733563 CAATAACGCAGCAAAGCTGCCAATAAC
1 -AATATCACAACAAAGCTGCCAGTAAT
* *
83733590 AATATCGCAACAAAACTGCCAGTA
1 AATATCACAACAAAGCTGCCAGTA
83733614 TTAGTATATG
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
25 2 0.03
26 59 0.95
27 1 0.02
ACGTcount: A:0.45, C:0.25, G:0.13, T:0.18
Consensus pattern (26 bp):
AATATCACAACAAAGCTGCCAGTAAT
Found at i:83738657 original size:40 final size:40
Alignment explanation
Indices: 83738312--83738656 Score: 555
Period size: 40 Copynumber: 8.6 Consensus size: 40
83738302 AACACACTTA
* * * *
83738312 CCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
**
83738352 CCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
* * *
83738392 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
**
83738432 CCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
* * *
83738472 CCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
83738512 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
83738552 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
*
83738592 CCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
83738632 CCTTCGGGTCTTAGCCCGGATATAT
1 CCTTCGGGTCTTAGCCCGGATATAT
83738657 TCCAATGCTC
Statistics
Matches: 280, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 280 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
Found at i:83747247 original size:40 final size:40
Alignment explanation
Indices: 83746899--83747246 Score: 543
Period size: 40 Copynumber: 8.7 Consensus size: 40
83746889 GCAAACACAC
* * * *
83746899 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* **
83746939 TTGCCTTCGAGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
83746979 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
83747019 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
83747059 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
83747099 TTTCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
83747139 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
83747179 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
83747219 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
83747247 TCCAATGCTC
Statistics
Matches: 279, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 279 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:83758117 original size:28 final size:28
Alignment explanation
Indices: 83758084--83758138 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
83758074 TTCGAATGGT
83758084 TTGAATGTTGATGTATGTTGAGAATTTA
1 TTGAATGTTGATGTATGTTGAGAATTTA
83758112 TTGAATGTTGATGTATGTTGAGAATTT
1 TTGAATGTTGATGTATGTTGAGAATTT
83758139 GTGGTCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (28 bp):
TTGAATGTTGATGTATGTTGAGAATTTA
Found at i:83763281 original size:35 final size:33
Alignment explanation
Indices: 83763222--83763288 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 33
83763212 ATATATGTAC
*
83763222 AAATAATATATAATATGTACAAATAATTAATAAA
1 AAATAATAGATAATATGTACAAATAA-TAATAAA
83763256 AAATATATAGATAATAATGTA-AAATAATAATAA
1 AAATA-ATAGATAAT-ATGTACAAATAATAATAA
83763289 TTTCTGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.37
35 14 0.47
36 5 0.17
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (33 bp):
AAATAATAGATAATATGTACAAATAATAATAAA
Found at i:83766869 original size:26 final size:26
Alignment explanation
Indices: 83766840--83766947 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83766830 TGGTACAAAT
83766840 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
83766866 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
83766892 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
83766918 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
83766944 TGAT
1 TGAT
83766948 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:83768570 original size:27 final size:27
Alignment explanation
Indices: 83768530--83768695 Score: 190
Period size: 27 Copynumber: 6.1 Consensus size: 27
83768520 AGGAAGTGTC
*
83768530 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
83768557 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
83768584 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
83768611 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
83768638 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
83768666 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
83768692 CTGG
1 CTGG
83768696 CAGCCATGCT
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.04
27 98 0.83
28 15 0.13
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:83768612 original size:54 final size:54
Alignment explanation
Indices: 83768530--83768695 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
83768520 AGGAAGTGTC
* * *
83768530 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
83768584 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
83768638 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
83768692 CTGG
1 CTGG
83768696 CAGCCATGCT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 87 0.83
55 18 0.17
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:83768686 original size:81 final size:81
Alignment explanation
Indices: 83768530--83768695 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 81
83768520 AGGAAGTGTC
*
83768530 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
83768595 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * * *
83768611 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATTTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACT
* *
83768675 CTGTCAC-ATTATCTGTT
64 CTGCCACGATTATCTGAT
83768692 CTGG
1 CTGG
83768696 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 59 0.78
82 17 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:83783082 original size:16 final size:16
Alignment explanation
Indices: 83783058--83783101 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
83783048 GAATGCTCGT
83783058 GAAAAAAAA-AAGAAAA
1 GAAAAAAAATAA-AAAA
*
83783074 GAAATAAAATAAAAAA
1 GAAAAAAAATAAAAAA
83783090 GAAAAAGAAATA
1 GAAAAA-AAATA
83783102 GCATATGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (16 bp):
GAAAAAAAATAAAAAA
Found at i:83784813 original size:32 final size:34
Alignment explanation
Indices: 83784777--83784841 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
83784767 TAACAGTGGT
*
83784777 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
83784809 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
83784842 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:83786713 original size:26 final size:26
Alignment explanation
Indices: 83786682--83786789 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
83786672 TGAAATGCCC
83786682 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
83786708 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
83786734 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
83786760 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
83786786 ATCA
1 ATCA
83786790 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:83788897 original size:46 final size:46
Alignment explanation
Indices: 83788847--83789022 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
83788837 TGATTGAGCA
83788847 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
83788893 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
83788938 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
83788986 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83789023 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:83789003 original size:93 final size:93
Alignment explanation
Indices: 83788844--83789015 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
83788834 GGATGATTGA
*
83788844 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
83788909 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
83788937 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
83789001 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
83789016 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:83792261 original size:15 final size:15
Alignment explanation
Indices: 83792232--83792270 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
83792222 ACTTATTTTA
*
83792232 TTTAATTT-CATTAG
1 TTTAATTTAAATTAG
83792246 TTTAATTTAAATTAG
1 TTTAATTTAAATTAG
83792261 TTTAATTTAA
1 TTTAATTTAA
83792271 TTTCTACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (15 bp):
TTTAATTTAAATTAG
Found at i:83800725 original size:16 final size:16
Alignment explanation
Indices: 83800704--83800735 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83800694 CCTATTTTCA
83800704 AATTGAATTAATTAAC
1 AATTGAATTAATTAAC
*
83800720 AATTGAATTAGTTAAC
1 AATTGAATTAATTAAC
83800736 CACATGGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AATTGAATTAATTAAC
Found at i:83807252 original size:57 final size:57
Alignment explanation
Indices: 83807164--83807273 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
83807154 TGATATAATA
* *
83807164 CCTCTCGAGCATACATTGTAATTAGGGTTTAGCCTGGACTAGTAATCCTAGTTAAGCT
1 CCTCTCGAGCATACATTGTAATAAGGATTTAGCCTGGACTAGTAATCCT-GTTAAGCT
* * * *
83807222 CCTCT-GAGCATACGTTGT-ATAAAGGATTTAGCTTGGATTGGTAATCCTGTTA
1 CCTCTCGAGCATACATTGTAAT-AAGGATTTAGCCTGGACTAGTAATCCTGTTA
83807274 TACGATATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 6 0.13
57 34 0.76
58 5 0.11
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (57 bp):
CCTCTCGAGCATACATTGTAATAAGGATTTAGCCTGGACTAGTAATCCTGTTAAGCT
Found at i:83811172 original size:16 final size:16
Alignment explanation
Indices: 83811151--83811190 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
83811141 TTTGAACCTA
83811151 GTTTGATAATGACATG
1 GTTTGATAATGACATG
83811167 GTTTGATAATGACATG
1 GTTTGATAATGACATG
83811183 GTTTGATA
1 GTTTGATA
83811191 GAGAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (16 bp):
GTTTGATAATGACATG
Found at i:83817615 original size:31 final size:31
Alignment explanation
Indices: 83817580--83817643 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
83817570 ATATTCAAGA
83817580 ATCTATACTTACCAAAATACCATATGTACAT
1 ATCTATACTTACCAAAATACCATATGTACAT
83817611 ATCTATACTTACCAAAATACCATATGTACAT
1 ATCTATACTTACCAAAATACCATATGTACAT
83817642 AT
1 AT
83817644 AAGCATGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (31 bp):
ATCTATACTTACCAAAATACCATATGTACAT
Found at i:83818462 original size:25 final size:25
Alignment explanation
Indices: 83818379--83818462 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
83818369 GCACTCTCTC
* **
83818379 GAGCCATATAATGAGAAGCTCATGT
1 GAGCCATATAATGGGAAGCTCATAA
* * * * *
83818404 GAGTCATGTAACGGGAAGCTTATCCA
1 GAGCCATATAATGGGAAGCTCAT-AA
*
83818430 G-GCTATATAATGGGAAGCTCATAA
1 GAGCCATATAATGGGAAGCTCATAA
83818454 GAGCCATAT
1 GAGCCATAT
83818463 TCAGGAAGCT
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
24 2 0.05
25 40 0.93
26 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (25 bp):
GAGCCATATAATGGGAAGCTCATAA
Found at i:83818506 original size:24 final size:25
Alignment explanation
Indices: 83818479--83818637 Score: 85
Period size: 25 Copynumber: 6.4 Consensus size: 25
83818469 AGCTCGTGTA
* *
83818479 AGCCAATAA-CGGGTAGCTCCAAAG
1 AGCCAATAATCAGGAAGCTCCAAAG
** *
83818503 AGCCGTTAATCAGGAAGCTCCAAAT
1 AGCCAATAATCAGGAAGCTCCAAAG
* *
83818528 AGCCAA-ATATCAGGAAG-TTCAAGTG
1 AGCCAATA-ATCAGGAAGCTCCAA-AG
* * * *
83818553 AGCC-AT-ATCTGGAAGTTCTAGAG
1 AGCCAATAATCAGGAAGCTCCAAAG
* *
83818576 AGCCATTAATCAAGAAGCTCACAAAG
1 AGCCAATAATCAGGAAGCTC-CAAAG
** * *
83818602 AGCCTTTAATCGGGAAGCTCACGAAG
1 AGCCAATAATCAGGAAGCTC-CAAAG
83818628 AGCCATATAA
1 AGCCA-ATAA
83818638 CGAGATGCTC
Statistics
Matches: 99, Mismatches: 27, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
23 13 0.13
24 16 0.16
25 38 0.38
26 29 0.29
27 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
AGCCAATAATCAGGAAGCTCCAAAG
Found at i:83818566 original size:23 final size:23
Alignment explanation
Indices: 83818534--83818581 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
83818524 AAATAGCCAA
*
83818534 ATATCAGGAAGTTCAAGTGAGCC
1 ATATCAGGAAGTTCAAGAGAGCC
* *
83818557 ATATCTGGAAGTTCTAGAGAGCC
1 ATATCAGGAAGTTCAAGAGAGCC
83818580 AT
1 AT
83818582 TAATCAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (23 bp):
ATATCAGGAAGTTCAAGAGAGCC
Found at i:83818647 original size:26 final size:26
Alignment explanation
Indices: 83818574--83818648 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
83818564 GAAGTTCTAG
*
83818574 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCGAGAAGCTCACAA
* * *
83818600 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCGAGAAGCTCACAA
*
83818626 AGAGCCATATAA-CGAGATGCTCA
1 AGAGCCAT-TAATCGAGAAGCTCA
83818649 TAAGAGCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 38 0.93
27 3 0.07
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAGCTCACAA
Found at i:83821479 original size:19 final size:20
Alignment explanation
Indices: 83821455--83821504 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
83821445 CGTGTGACCC
83821455 TTTTTTTCAAAATTTTC-AA
1 TTTTTTTCAAAATTTTCTAA
* *
83821474 TTTTTTCCAAAATTTTCTGA
1 TTTTTTTCAAAATTTTCTAA
*
83821494 TTTGTTTCAAA
1 TTTTTTTCAAA
83821505 TTGATCCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTTTCAAAATTTTCTAA
Found at i:83823807 original size:13 final size:13
Alignment explanation
Indices: 83823789--83823820 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
83823779 TTGTTAACAT
83823789 TTTAAAATATTTA
1 TTTAAAATATTTA
83823802 TTTAAAATATTTA
1 TTTAAAATATTTA
83823815 TTTAAA
1 TTTAAA
83823821 CTTTTACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAAATATTTA
Found at i:83825509 original size:55 final size:52
Alignment explanation
Indices: 83825403--83825587 Score: 160
Period size: 55 Copynumber: 3.4 Consensus size: 52
83825393 TTACCATTGC
* * * *
83825403 CATGTCTTGACATGGTCTTACGTG-GTATCCTTGCCTTAT-GAACTCACCAATG
1 CATGCCTTG-CATGGTCTTACATGAGGA-CCTTGCCTTATAGAACTCATCAATG
* *
83825455 TCATGCCTTAGCATGGTCTTACATG-GGACCTTTGTCTTCTAGTAACTCATCAATG
1 -CATGCCTT-GCATGGTCTTACATGAGGACC-TTGCCTTATAG-AACTCATCAATG
* *** *
83825510 CGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 C-ATGCCTTG-CATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATG
83825564 CCATGCCTTGGCATGGTCTTACAT
1 -CATGCCTT-GCATGGTCTTACAT
83825588 CATATCCTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 29 0.27
54 34 0.31
55 42 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (52 bp):
CATGCCTTGCATGGTCTTACATGAGGACCTTGCCTTATAGAACTCATCAATG
Found at i:83825580 original size:54 final size:54
Alignment explanation
Indices: 83825389--83825596 Score: 206
Period size: 53 Copynumber: 3.9 Consensus size: 54
83825379 TTTCCTTTTT
* * * * *
83825389 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** * *
83825442 GAACTCACCAATGTCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGTCTTCTA
1 GAACTCACCAATGCCATGCCTTGA-CATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
83825496 GTAACTCATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
83825551 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATCATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
83825597 ATCTTACCAA
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 3 0.02
53 40 0.32
54 40 0.32
55 40 0.32
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:83825630 original size:47 final size:47
Alignment explanation
Indices: 83825575--83825696 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
83825565 CATGCCTTGG
** *
83825575 CATGGTCTTACATCATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
83825622 CATGGTCTTACATGGTATCCTTGTCTTACCAAGTGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
83825669 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
83825697 GTACCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:83827743 original size:54 final size:54
Alignment explanation
Indices: 83827661--83827769 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
83827651 TCCTTAGTTC
83827661 TTTGACAATAACGAAAAGGGTTTTAGAAAGAAAGATGATGAAGATGATAATGCT
1 TTTGACAATAACGAAAAGGGTTTTAGAAAGAAAGATGATGAAGATGATAATGCT
83827715 TTTGACAATAACGAAAAGGGTTTTAGAAAGAAAGATGATGAAGATGATAATGCT
1 TTTGACAATAACGAAAAGGGTTTTAGAAAGAAAGATGATGAAGATGATAATGCT
83827769 T
1 T
83827770 CATTCTTTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.27
Consensus pattern (54 bp):
TTTGACAATAACGAAAAGGGTTTTAGAAAGAAAGATGATGAAGATGATAATGCT
Found at i:83831028 original size:25 final size:24
Alignment explanation
Indices: 83830968--83831028 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
83830958 ATAGCTCAAA
*
83830968 CGAGCAATCCTGTTATAAGCCCTCT
1 CGAGC-ATCCTGTTATAAGCCCTCG
*
83830993 CGAGCGTCCTGTTATATAGCTCCT-G
1 CGAGCATCCTGTTATA-AGC-CCTCG
*
83831018 GGAGCATCCTG
1 CGAGCATCCTG
83831029 ATCGGTAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 10 0.33
25 17 0.57
26 3 0.10
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.28
Consensus pattern (24 bp):
CGAGCATCCTGTTATAAGCCCTCG
Found at i:83833483 original size:19 final size:20
Alignment explanation
Indices: 83833451--83833496 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
83833441 CCAAAAATAA
83833451 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
83833471 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
83833490 TTTCTGG
1 TTTCTGG
83833497 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:83846587 original size:40 final size:40
Alignment explanation
Indices: 83846504--83846684 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
83846494 AATCAAGCAT
** * *
83846504 CTTCGGGGT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTC-GGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
83846542 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
83846582 CTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
83846622 CTTCGGATCTTAGTCCGGATGTAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
** *
83846663 CTTCGGGAGTTAGCTCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
83846685 CATTCGAGTA
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
37 4 0.04
38 7 0.06
39 15 0.13
40 61 0.54
41 27 0.24
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:83857323 original size:15 final size:15
Alignment explanation
Indices: 83857299--83857335 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
83857289 TTACTACATT
*
83857299 CCGAGCTCGTTTCGA
1 CCGAGTTCGTTTCGA
83857314 CCGAGTTCGTTTCGA
1 CCGAGTTCGTTTCGA
83857329 CCGAGTT
1 CCGAGTT
83857336 ACGACATCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.27, T:0.30
Consensus pattern (15 bp):
CCGAGTTCGTTTCGA
Found at i:83857465 original size:44 final size:44
Alignment explanation
Indices: 83857398--83857514 Score: 191
Period size: 44 Copynumber: 2.7 Consensus size: 44
83857388 CATGACATAG
*
83857398 GATTCCGATATACGTGTGAGAGTAAGACCATGGCATCGATATGT
1 GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
*
83857442 GATTCCGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
*
83857486 GATTCCAATATATGTGT-ATGAGTAAGACC
1 GATTCCGATATATGTGTGA-GAGTAAGACC
83857515 CTGTTGGGAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTCCGATATATGTGTGAGAGTAAGACCATGGCATCGATATGT
Found at i:83868113 original size:39 final size:39
Alignment explanation
Indices: 83868059--83868329 Score: 434
Period size: 39 Copynumber: 6.9 Consensus size: 39
83868049 TTATATTATT
* *
83868059 AGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
83868098 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
83868137 AGCACGAAGCCTGCGGGACTTTAGTCCGGATACACTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * *
83868176 AGCACGAAGCCTGCGGGACTTTGGCCTGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
83868215 AGCACGAAGCCTGCGGGACTTTAGCCCAGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
83868254 CGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
83868293 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
83868330 TCAGTGTCTT
Statistics
Matches: 216, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 216 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:83881741 original size:21 final size:20
Alignment explanation
Indices: 83881705--83881752 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
83881695 TTATGAATAC
*
83881705 ATCATGTGCCTATCATACAT
1 ATCATGTGCATATCATACAT
83881725 ATCATGTGGCATATCATACAT
1 ATCATGT-GCATATCATACAT
*
83881746 ACCATGT
1 ATCATGT
83881753 TTATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83896284 original size:42 final size:44
Alignment explanation
Indices: 83896216--83896341 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 44
83896206 TTTTCTCAAA
* * *
83896216 TCACCGGCATT-TCGCCTGTTCGGCTCG-AGG-CCGATATCAG-T-
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGATC
83896257 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAG-ATC
** * *
83896302 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
83896342 ATCAAGTCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 11 0.15
42 15 0.21
43 5 0.07
44 5 0.07
45 36 0.50
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGATC
Found at i:83898114 original size:79 final size:79
Alignment explanation
Indices: 83897980--83898226 Score: 252
Period size: 79 Copynumber: 3.1 Consensus size: 79
83897970 CCTTCAGAAT
* * * *
83897980 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 TTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCACA
83898043 CAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGAC
* *
83898059 TTAACCCGGATTTAGTAACTCGTACCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCAC
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCACAC
*
83898123 CAATGCCTTCGGG-C
65 AAATGCCTTCGGGAC
* * * ** * * * * *
83898137 TTAGCCCGGAATTAATAACTCACACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTCA-CA
83898202 CAAA-GCCTTCGGGAC
64 CAAATGCCTTCGGGAC
*
83898217 TTAGCCCGGA
1 TTAACCCGGA
83898227 CATCATTCGA
Statistics
Matches: 141, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
78 33 0.23
79 63 0.45
80 45 0.32
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCACACA
AATGCCTTCGGGAC
Found at i:83898117 original size:39 final size:40
Alignment explanation
Indices: 83898003--83898226 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
83897993 GCTACTCGTT
* * *
83898003 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
83898043 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
83898083 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
83898122 CCAATGCCTTCGGG-CTTAGCCCGGAATTAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
83898161 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
83898202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83898227 CATCATTCGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.45
40 74 0.47
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:83898186 original size:118 final size:120
Alignment explanation
Indices: 83898005--83898226 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 120
83897995 TACTCGTTCA
83898005 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
83898070 TTAGTAACTCGTA-C-CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACT--TAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* **
83898124 AATGCCTTCGGG-CTTAGCCCGGAATTA-A-TAACTCACACAAATGCCTTC-GGATCTTAGTCCG
1 AATGCCTTCGGGACATAGCCCGG--TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCG
* *
83898185 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
83898227 CATCATTCGA
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
116 2 0.02
117 4 0.04
118 57 0.63
119 24 0.27
120 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:83906267 original size:39 final size:40
Alignment explanation
Indices: 83906142--83906326 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
83906132 GCTACTCGTT
* * * *
83906142 CAAATTCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
83906182 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* * *
83906222 CCAATGCCTTCGGG-CTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * * *
83906261 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCA
*
83906302 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
83906327 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 75 0.60
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:83906310 original size:79 final size:80
Alignment explanation
Indices: 83906148--83906326 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
83906138 CGTTCAAATT
* * *
83906148 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* *
83906212 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAG
* ** *
83906228 CCTTCGGG-CTTAGCTCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATA
*
83906291 GTCACTTAGCA-CAAAG
65 GTAAC-TAGCACCAAAG
83906307 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
83906327 CATCATTCGA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.69
80 23 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAAAG
Found at i:83912668 original size:39 final size:39
Alignment explanation
Indices: 83912612--83912921 Score: 521
Period size: 39 Copynumber: 7.9 Consensus size: 39
83912602 TTATATTATT
* * *
83912612 AGCACAAAGCCTACGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
83912651 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
83912690 AGCACGAAGCCTGCGGGACTTTGGCCGGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
83912729 AGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
83912768 AGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
** *
83912807 AGCACGAAGCCTGCGGGACTTTAGCCCAAATATATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
83912846 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
83912885 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
83912922 TCAGTGTCTT
Statistics
Matches: 256, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 256 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:83914338 original size:29 final size:29
Alignment explanation
Indices: 83914296--83914354 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
83914286 GACGATATGT
83914296 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
83914325 ATGTTAATAAAAGGTTTTAATTTGGGCAA
1 ATGTTAATAAAAGGTTTTAATTTGGGCAA
83914354 A
1 A
83914355 ATCTTATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (29 bp):
ATGTTAATAAAAGGTTTTAATTTGGGCAA
Found at i:83919270 original size:2 final size:2
Alignment explanation
Indices: 83919265--83919289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83919255 CTTTTTTTTT
83919265 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
83919290 ATAAAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:83920398 original size:29 final size:30
Alignment explanation
Indices: 83920363--83920422 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
83920353 GCTGAATTTT
83920363 GATATAAATT-TTTTAAAAGAAAAGGAAAA
1 GATATAAATTGTTTTAAAAGAAAAGGAAAA
83920392 GATATAAATTGTTTTAAAAGAAAAGGAAAA
1 GATATAAATTGTTTTAAAAGAAAAGGAAAA
83920422 G
1 G
83920423 GACAGTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (30 bp):
GATATAAATTGTTTTAAAAGAAAAGGAAAA
Found at i:83927425 original size:29 final size:29
Alignment explanation
Indices: 83927362--83927429 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
83927352 TAATCAACCG
83927362 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
83927391 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
83927420 CGCACACTTA
1 CGCACACTTA
83927430 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:83927542 original size:174 final size:174
Alignment explanation
Indices: 83927251--83927578 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
83927241 AACTCAAGGT
* *
83927251 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
83927316 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
83927381 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
83927425 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
83927490 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
83927555 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
83927579 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:83927570 original size:29 final size:30
Alignment explanation
Indices: 83927531--83927609 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
83927521 CTTAATAATC
83927531 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
83927561 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
83927590 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
83927610 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:83929556 original size:27 final size:27
Alignment explanation
Indices: 83929526--83929666 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
83929516 ATGACGAAGT
83929526 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
83929553 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
83929580 CACCAGAT-CAGATAATTGTAGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
83929607 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
83929634 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
83929661 CGCCAG
1 CACCAG
83929667 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:83929667 original size:54 final size:54
Alignment explanation
Indices: 83929526--83929669 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
83929516 ATGACGAAGT
* *
83929526 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
83929580 CACCAGATCAGATAATTGTAGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
83929634 CACCAGATCAGATAATTGTGGCATAGCCGCCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
83929670 GCTTCCTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:83931320 original size:26 final size:26
Alignment explanation
Indices: 83931289--83931396 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
83931279 TGAAATGCCC
83931289 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
83931315 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
83931341 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
83931367 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
83931393 ATCA
1 ATCA
83931397 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:83936695 original size:27 final size:27
Alignment explanation
Indices: 83936647--83936805 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
83936637 GCGAGGCTGC
* * *
83936647 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
83936674 CAGATATTGTGGCAGAGCCACCGGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
83936700 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83936727 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
83936754 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83936781 CAGATAATTGTGGCATAGCCGCCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
83936806 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.09
27 98 0.88
28 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:83936740 original size:54 final size:54
Alignment explanation
Indices: 83936647--83936808 Score: 231
Period size: 54 Copynumber: 3.0 Consensus size: 54
83936637 GCGAGGCTGC
* * * *
83936647 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACC-GGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGG-A
*
83936700 CAGATATATGTGGCAGAGCCACCATATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
83936754 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCGCCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
83936808 C
1 C
83936809 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
53 12 0.12
54 85 0.86
55 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:83936766 original size:81 final size:80
Alignment explanation
Indices: 83936647--83936800 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 80
83936637 GCGAGGCTGC
* * *
83936647 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACCGGAACAGAT-ATATGT
1 CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAAT-TGT
83936711 GGCAGAGCCACCATAT
65 GGCAGAGCCACCATAT
* * *
83936727 CAGATAATTGTGGCATAGCCACCAG-GACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 CAGAT-ATTGTGACAAAGCCACCAGAGACAGATAT-TGTGGCAGAGCCACCAGAACAGATAATTG
*
83936791 TGGCATAGCC
64 TGGCAGAGCC
83936801 GCCAGGACGC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 13 0.20
81 49 0.77
82 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (80 bp):
CAGATATTGTGACAAAGCCACCAGAGACAGATATTGTGGCAGAGCCACCAGAACAGATAATTGTG
GCAGAGCCACCATAT
Found at i:83940377 original size:38 final size:38
Alignment explanation
Indices: 83940325--83940418 Score: 152
Period size: 38 Copynumber: 2.5 Consensus size: 38
83940315 TCAATATATG
** *
83940325 TAACCGTGACATATCCACTTAGCACCACGTTACATGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
*
83940363 TAACCGTGGTATATCCACTTAGCACTACGTTACATGCT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
83940401 TAACCGTGGTATATCCAC
1 TAACCGTGGTATATCCAC
83940419 AAATTCAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (38 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGCT
Found at i:83941790 original size:26 final size:25
Alignment explanation
Indices: 83941761--83941813 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
83941751 CTTATGAGTG
*
83941761 TCCTGA-TATATGGCTCTTCGTGAGCT
1 TCCTGATTA-ATGGCTCTCCG-GAGCT
83941787 TCCTGATTAATGGCTCTCCGGAGCT
1 TCCTGATTAATGGCTCTCCGGAGCT
83941812 TC
1 TC
83941814 TCGATATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 16 0.64
27 2 0.08
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (25 bp):
TCCTGATTAATGGCTCTCCGGAGCT
Found at i:83947500 original size:15 final size:16
Alignment explanation
Indices: 83947477--83947512 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
83947467 ATGTGAATAA
83947477 TATTATTAAAA-TTAT
1 TATTATTAAAATTTAT
*
83947492 TATTTTTAAAATTTAT
1 TATTATTAAAATTTAT
83947508 TATTA
1 TATTA
83947513 AAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTAAAATTTAT
Found at i:83947509 original size:16 final size:15
Alignment explanation
Indices: 83947477--83947516 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
83947467 ATGTGAATAA
83947477 TATTATTAAAATTAT
1 TATTATTAAAATTAT
*
83947492 TATTTTTAAAA-T-T
1 TATTATTAAAATTAT
83947505 TATTATTAAAAT
1 TATTATTAAAAT
83947517 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTAAAATTAT
Found at i:83947564 original size:22 final size:22
Alignment explanation
Indices: 83947524--83947579 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
83947514 AATAAAATTG
*
83947524 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
83947544 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
83947566 TATTAATAATTTAT
1 AAATAATAAATTAT
83947580 TATAAGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:83948966 original size:43 final size:43
Alignment explanation
Indices: 83948868--83948987 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
83948858 ATCAAGACGT
* ** * *
83948868 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAATCA
*
83948911 GATTACGAGTAAGACCATGTCTGGGACATTGGCAACGTTAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAACG-TAATCA
* * *
83948955 TG-TT-CGTGTAAGACCCTGTCTAGGACAGTGGCA
1 -GATTACGTGTAAGACCATGTCTGGGACATTGGCA
83948988 TCGATATGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 58 0.89
44 6 0.09
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCAACGTAATCA
Found at i:83955318 original size:42 final size:44
Alignment explanation
Indices: 83955212--83955370 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 44
83955202 TATGTGTTAT
* ** * * *
83955212 CGTGTAAGATCACATCTGGGAC-GTTGGCATTGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATATGATTTA
*
83955256 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTT-
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
* * * * *
83955298 CGTGTAAGACCCTGTTTGGGATAGTGGCATCGATATTTCA-TTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
** *
83955341 CACGTAAGACCAAGTCTGGGAC-GTTGGCAT
1 CGTGTAAGACCATGTCTGGGACAG-TGGCAT
83955371 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 30 0.33
43 37 0.40
44 25 0.27
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTTA
Done.