Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 65 of 250
Found at i:19937347 original size:43 final size:44
Alignment explanation
Indices: 19937310--19937409 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 44
19937300 AAAAGTCATG
*
19937310 ACTTTTAGCGGCGCATTTTTAGCAAACGCCGCT-AAAAGGCAGC
1 ACTTTTAGCGGCGCATTTTTAGCAAACGCCGCTAAAAAGCCAGC
*
19937353 ACTTTTAGCGGCACATTTTTAGCAAACGCCGCTAAAAAGCCAGC
1 ACTTTTAGCGGCGCATTTTTAGCAAACGCCGCTAAAAAGCCAGC
19937397 ACTTTTAGCGGCG
1 ACTTTTAGCGGCG
19937410 TTCTTTTCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 32 0.60
44 21 0.40
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
ACTTTTAGCGGCGCATTTTTAGCAAACGCCGCTAAAAAGCCAGC
Found at i:19937542 original size:3 final size:3
Alignment explanation
Indices: 19937534--19937596 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
19937524 TGTAGTGTAT
* *
19937534 TTA TTA TTA CTA TTTA TTA TTAA TTA TT- TCTA TTAA TTA CTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TT-A TTA TTA T-TA TT-A TTA TTA TTA TTA
19937582 TTA TT- TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TT
19937597 TATATATGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 5 0.10
3 36 0.72
4 9 0.18
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19937549 original size:13 final size:13
Alignment explanation
Indices: 19937531--19937596 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 13
19937521 TCTTGTAGTG
19937531 TATTTATTATTAC
1 TATTTATTATTAC
*
19937544 TATTTATTATTAAT
1 TATTTATTATT-AC
19937558 TATTTCTATTAATTAC
1 TA-TT-TATT-ATTAC
*
19937574 TA-TTATTATTAT
1 TATTTATTATTAC
*
19937586 TTTTTATTATT
1 TATTTATTATT
19937597 TATATATGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 5 0.11
13 23 0.52
14 4 0.09
15 2 0.05
16 7 0.16
17 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTATTATTAC
Found at i:19937552 original size:10 final size:10
Alignment explanation
Indices: 19937537--19937599 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
19937527 AGTGTATTTA
19937537 TTATTACTAT
1 TTATTACTAT
* *
19937547 TTATTATTAA
1 TTATTACTAT
*
19937557 TTATTTCTAT
1 TTATTACTAT
*
19937567 TAATTACTA-
1 TTATTACTAT
*
19937576 TTATTATTAT
1 TTATTACTAT
* *
19937586 TTTTTATTAT
1 TTATTACTAT
19937596 TTAT
1 TTAT
19937600 ATATGGTTAG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 7 0.17
10 34 0.83
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATTACTAT
Found at i:19937932 original size:126 final size:126
Alignment explanation
Indices: 19937696--19937937 Score: 403
Period size: 126 Copynumber: 1.9 Consensus size: 126
19937686 CATTGATCTT
* * *
19937696 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTTGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
19937761 ACGTACTGGGTTTTGCTTTCTTTGTTTGTCTTGAATACTCAAATATCCTCTTACCAGTTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATACTCAAATATCCTCTTACCAGTTTA
*
19937822 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGGATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* * * *
19937887 ATGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCT
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATACTCAAATATCCTCT
19937938 CAAGGCTAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 107 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATACTCAAATATCCTCTTACCAGTTTA
Found at i:19941203 original size:22 final size:23
Alignment explanation
Indices: 19941175--19941217 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
19941165 ACACAATTTT
19941175 TTTTATAATATA-AGTTTTTAGA
1 TTTTATAATATATAGTTTTTAGA
*
19941197 TTTTATAATATATATTTTTTA
1 TTTTATAATATATAGTTTTTA
19941218 CTATATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTATAATATATAGTTTTTAGA
Found at i:19944734 original size:40 final size:40
Alignment explanation
Indices: 19944697--19944881 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19944687 GCTACTCGTT
*
19944697 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19944737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19944777 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
19944816 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19944857 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19944882 CATCATTCGG
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19944841 original size:79 final size:80
Alignment explanation
Indices: 19944699--19944879 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
19944689 TACTCGTTCA
* **
19944699 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
19944764 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
19944779 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACCAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
19944841 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
19944858 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
19944880 GACATCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 26 0.30
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:19952705 original size:62 final size:61
Alignment explanation
Indices: 19952634--19952857 Score: 218
Period size: 62 Copynumber: 3.6 Consensus size: 61
19952624 GCCTGGGAAC
* * * *
19952634 GAACCACACGGCAAGGGACACGTGCATGTGCCCAGACCGTGTAACTCTCTGTTTTTACTTAA
1 GAACCACACGGCAAGGGACACGTGC-TGTGCCCAGGCCGTGTAACTCACTATTTGTACTTAA
* * * *
19952696 GAACCACACGTCTAGGGACACAGGTG-TGTGCCTAGGCTGTGTAACTCACTATTTGTACTTAA
1 GAACCACACGGCAAGGGACAC--GTGCTGTGCCCAGGCCGTGTAACTCACTATTTGTACTTAA
* * * * *
19952758 GAACCACACGGCCAGGGACACGGGCGTGTGCCCAGGCCGTGTCACTTACTATTTGTGCTTGAA
1 GAACCACACGGCAAGGGACACGTGC-TGTGCCCAGGCCGTGTAACTCACTATTTGTACTT-AA
* * * *
19952821 -AACCACACGACCAAGGTACATGGGCATGTGCCCAGGC
1 GAACCACACG-GCAAGGGACACGTGC-TGTGCCCAGGC
19952858 TGTATGGAAG
Statistics
Matches: 135, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
60 2 0.01
62 106 0.79
63 24 0.18
64 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (61 bp):
GAACCACACGGCAAGGGACACGTGCTGTGCCCAGGCCGTGTAACTCACTATTTGTACTTAA
Found at i:19954609 original size:36 final size:36
Alignment explanation
Indices: 19954566--19954637 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19954556 GATAACAAAG
19954566 AAAGTTGAAACAAATGGTATGTTCTGAGATATTAAC
1 AAAGTTGAAACAAATGGTATGTTCTGAGATATTAAC
19954602 AAAGTTGAAACAAATGGTATGTTCTGAGATATTAAC
1 AAAGTTGAAACAAATGGTATGTTCTGAGATATTAAC
19954638 TTGAGGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (36 bp):
AAAGTTGAAACAAATGGTATGTTCTGAGATATTAAC
Found at i:19959041 original size:41 final size:40
Alignment explanation
Indices: 19958996--19959149 Score: 159
Period size: 41 Copynumber: 3.8 Consensus size: 40
19958986 TCTTAGCACC
*
19958996 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-AACTACT
1 GGCTCAAAAGCCCTTCGAAACCAAGCTCGG-TTATAAC-ACT
* * * *
19959037 GGCTCGAAGGCCCTTCGAAACTAAG-TCCGGTTATGACACT
1 GGCTCAAAAGCCCTTCGAAACCAAGCT-CGGTTATAACACT
* * *
19959077 GGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACT
1 GGCTC--AAAAGCCCTTCGAAACCAAGCTCGGTTA-TAACACT
*
19959120 GGCTCAAAAGCCCTTCGAGACCAAGCTCGG
1 GGCTCAAAAGCCCTTCGAAACCAAGCTCGG
19959150 ATTTAGACCC
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
40 12 0.13
41 48 0.51
42 24 0.25
43 11 0.12
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (40 bp):
GGCTCAAAAGCCCTTCGAAACCAAGCTCGGTTATAACACT
Found at i:19966093 original size:46 final size:46
Alignment explanation
Indices: 19966043--19966218 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19966033 TGGTTGAGCA
19966043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19966089 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19966134 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19966182 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19966219 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19966199 original size:93 final size:93
Alignment explanation
Indices: 19966040--19966211 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19966030 GGATGGTTGA
* *
19966040 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19966105 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19966133 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19966198 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
19966212 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20086513 original size:39 final size:40
Alignment explanation
Indices: 20086345--20086568 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
20086335 GCTCCTCGTT
* *
20086345 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
20086385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20086425 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC-CA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
20086464 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
20086503 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20086544 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20086569 CATCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 21 0.13
39 26 0.16
40 101 0.63
41 13 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20089445 original size:30 final size:30
Alignment explanation
Indices: 20089408--20089496 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
20089398 GATTAAATTA
* *
20089408 CTCACACAAGCTGACATTATATTAGGGTTG
1 CTCACACAAGCTGACATTATATCAAGGTTG
* * *
20089438 CTTACACAAGCTGACATTAAAACAAGGTTG
1 CTCACACAAGCTGACATTATATCAAGGTTG
* *
20089468 CTCACACAAGCTAACATAATATCAAGGTT
1 CTCACACAAGCTGACATTATATCAAGGTT
20089497 ACTTGTGTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATCAAGGTTG
Found at i:20096768 original size:18 final size:18
Alignment explanation
Indices: 20096703--20096894 Score: 89
Period size: 18 Copynumber: 10.1 Consensus size: 18
20096693 AGCAATTAAT
*
20096703 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
20096723 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
20096740 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* **
20096758 CAGTCAGTTATTTGGTAA
1 CAATCAGTTATTCAGTAA
* *
20096776 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* *
20096794 TAATCAGTTAGTCAGTATCAA
1 CAATCAGTTATTCAG--T-AA
*
20096815 TCAATTGATCAGTTATCCAGTAA
1 -C-A---ATCAGTTATTCAGTAA
* * *
20096838 AAATCAATTGTTCAGTAA
1 CAATCAGTTATTCAGTAA
* * *
20096856 AAATCAGATATACAGTAA
1 CAATCAGTTATTCAGTAA
* *
20096874 CAATTAAATTATTCAGTAA
1 CAA-TCAGTTATTCAGTAA
20096893 CA
1 CA
20096895 GTCGATCTTT
Statistics
Matches: 125, Mismatches: 37, Indels: 21
0.68 0.20 0.11
Matches are distributed among these distances:
17 13 0.10
18 72 0.58
19 13 0.10
20 9 0.07
21 3 0.02
23 3 0.02
24 1 0.01
26 11 0.09
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:20096826 original size:26 final size:26
Alignment explanation
Indices: 20096796--20096853 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
20096786 TTCAATAATA
**
20096796 ATCAGTTAGT-CAGTATCAATCAATTG
1 ATCAGTTA-TCCAGTAAAAATCAATTG
20096822 ATCAGTTATCCAGTAAAAATCAATTG
1 ATCAGTTATCCAGTAAAAATCAATTG
*
20096848 TTCAGT
1 ATCAGT
20096854 AAAAATCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (26 bp):
ATCAGTTATCCAGTAAAAATCAATTG
Found at i:20096872 original size:36 final size:37
Alignment explanation
Indices: 20096822--20096892 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
20096812 CAATCAATTG
* * * *
20096822 ATCAGTTATCCAGTAA-AAATCAATTGTTCAGTAAAA
1 ATCAGATATACAGTAACAAATAAATTATTCAGTAAAA
*
20096858 ATCAGATATACAGTAACAATTAAATTATTCAGTAA
1 ATCAGATATACAGTAACAAATAAATTATTCAGTAA
20096893 CAGTCGATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 14 0.48
37 15 0.52
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (37 bp):
ATCAGATATACAGTAACAAATAAATTATTCAGTAAAA
Found at i:20097131 original size:53 final size:53
Alignment explanation
Indices: 20097031--20097131 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
20097021 TAACAATAGC
* * * **
20097031 AGTACGGTACACAGAGTACCTCATTAGAACAAGTCTGGAACGGTAACAGTAAG
1 AGTACGGTACACAGAGTACCTCATGAGAACAAATCTGAAACAATAACAGTAAG
*
20097084 AGTACGGTACACAGAGTACCTCATCGA-AAGAAATCTGAAACAATAACA
1 AGTACGGTACACAGAGTACCTCAT-GAGAACAAATCTGAAACAATAACA
20097132 ATAACGGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.98
54 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.18
Consensus pattern (53 bp):
AGTACGGTACACAGAGTACCTCATGAGAACAAATCTGAAACAATAACAGTAAG
Found at i:20097192 original size:6 final size:6
Alignment explanation
Indices: 20097177--20097209 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
20097167 TGTTAAACCG
*
20097177 GTAACA GTAACG GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
20097210 GTCCTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:20101778 original size:126 final size:126
Alignment explanation
Indices: 20101553--20101806 Score: 472
Period size: 126 Copynumber: 2.0 Consensus size: 126
20101543 GTAGCTTATC
* *
20101553 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAATTAAGTTAATTACTAGCTAATTCGTTA
1 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAACTAAGTTAATTACTAGCTAATTCATTA
*
20101618 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTTTGTTTACTTCAT
66 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTCTGTTTACTTCAT
*
20101679 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAACTAAGTTAATTACTAGCTAATTTATTA
1 TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAACTAAGTTAATTACTAGCTAATTCATTA
20101744 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTCTGTTTACTTCAT
66 AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTCTGTTTACTTCAT
20101805 TT
1 TT
20101807 AAGCGAAATT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (126 bp):
TTGACTAGTTAGTTTAGTTAGAACTCGAAAGGTAATAACTAAGTTAATTACTAGCTAATTCATTA
AAACCCTAAGTCTGAAGTTAATTATGAACACTGAAGTGAGTTGATCTTCTGTTTACTTCAT
Found at i:20104649 original size:6 final size:6
Alignment explanation
Indices: 20104638--20104830 Score: 148
Period size: 6 Copynumber: 31.8 Consensus size: 6
20104628 AACCAAAATG
*
20104638 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
20104686 AGTAA-C AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
20104735 AAAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * * *
20104783 AGAATT AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
20104831 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.07
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:20104653 original size:30 final size:29
Alignment explanation
Indices: 20104617--20104830 Score: 214
Period size: 30 Copynumber: 7.1 Consensus size: 29
20104607 AAGAAACATT
* * *
20104617 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
20104647 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
20104677 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* * *
20104707 ATTAGAATTAGGTGACAGAATCAGAATCAAA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
* *
20104738 ATCAGAATCAGTAACAGAATCAGAATCAAA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
* * *
20104768 ATCAGTATTAGTAACAGAATTAGAATTAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
20104798 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
20104829 AT
1 AT
20104831 GTGAATGCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
29 1 0.01
30 105 0.68
31 48 0.31
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:20104735 original size:91 final size:91
Alignment explanation
Indices: 20104638--20104830 Score: 332
Period size: 91 Copynumber: 2.1 Consensus size: 91
20104628 AACCAAAATG
*
20104638 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
*
20104703 CAGAATTAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
* * *
20104729 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATTAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
*
20104794 TAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
20104820 AGAATCAGAAT
1 AGAATCAGAAT
20104831 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGACAGAATC
Found at i:20104985 original size:27 final size:26
Alignment explanation
Indices: 20104948--20105029 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
20104938 AACATGGCTG
*
20104948 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
20104974 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
20105001 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
20105028 CC
1 CC
20105030 TAACAGAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 44 0.88
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:20105234 original size:22 final size:22
Alignment explanation
Indices: 20105186--20105244 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20105176 GTAAATACGT
*
20105186 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20105208 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20105230 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20105245 TAATGACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20105396 original size:26 final size:26
Alignment explanation
Indices: 20105332--20105440 Score: 173
Period size: 27 Copynumber: 4.1 Consensus size: 26
20105322 TCGATCGGTC
* *
20105332 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
20105358 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
20105385 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
20105411 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20105438 AAC
1 AAC
20105441 GCTTCCTCCG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
26 34 0.44
27 44 0.56
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20105424 original size:53 final size:53
Alignment explanation
Indices: 20105332--20105440 Score: 175
Period size: 53 Copynumber: 2.1 Consensus size: 53
20105322 TCGATCGGTC
*
20105332 AACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAG
* *
20105385 AACAGATATTGTGGCAGAGCCACCAGA-ACAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGCCACCAG
20105438 AAC
1 AAC
20105441 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 7 0.13
53 45 0.87
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (53 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAG
Found at i:20105669 original size:27 final size:27
Alignment explanation
Indices: 20105639--20105834 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
20105629 GGGGCAAAAT
* * * *
20105639 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20105666 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20105693 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20105720 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20105747 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20105774 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20105801 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20105828 AGTAATT
1 GGTAATT
20105835 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20105869 original size:27 final size:27
Alignment explanation
Indices: 20105839--20106356 Score: 636
Period size: 27 Copynumber: 19.2 Consensus size: 27
20105829 GTAATTTCAC
* *
20105839 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20105866 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20105893 AA-CTGAGGGT-AAACTAGTAATTTTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
20105920 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20105947 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
20105974 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20106001 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20106028 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20106055 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20106082 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20106109 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20106136 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20106163 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
20106190 AATTGAGGGTAAAACAGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20106217 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20106244 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20106271 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20106298 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20106325 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20106352 AATCG
1 AATCG
20106357 GGAGTACTTT
Statistics
Matches: 432, Mismatches: 45, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.02
27 413 0.96
28 10 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20105913 original size:54 final size:54
Alignment explanation
Indices: 20105844--20106356 Score: 705
Period size: 54 Copynumber: 9.5 Consensus size: 54
20105834 TTCACAATCA
*
20105844 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * * **
20105898 AGGGT-AAACTAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
20105952 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * * *
20106006 AGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
*
20106060 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* **
20106114 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
20106168 AGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTT-TAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATT-TTGTAAACTG
* * **
20106222 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* * *
20106276 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
20106330 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
20106357 GGAGTACTTT
Statistics
Matches: 411, Mismatches: 37, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
53 9 0.02
54 392 0.95
55 10 0.02
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:20106356 original size:108 final size:108
Alignment explanation
Indices: 20105829--20106387 Score: 797
Period size: 108 Copynumber: 5.2 Consensus size: 108
20105819 GGGTATTTCA
* * * * *
20105829 GTAATTTCAC-AATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC-GATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGT
* * * *
20105892 AAACTGAGGGT-AAACTAGTAATTTTGTAAATCAAGGGTAAAACA
65 AAACTGAGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACG
* *
20105936 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
* * * *
20106001 AACTGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACA
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
20106044 GTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTG
1 GTAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
20106107 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
64 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
20106152 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTTTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
20106217 AACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
20106260 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
****
20106325 AACTGAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACG
*
20106368 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
20106388 CATTTCAGTA
Statistics
Matches: 413, Mismatches: 31, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
106 2 0.00
107 15 0.04
108 385 0.93
109 9 0.02
110 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:20108379 original size:6 final size:6
Alignment explanation
Indices: 20108368--20108552 Score: 145
Period size: 6 Copynumber: 30.8 Consensus size: 6
20108358 AACCAAAATG
*
20108368 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
20108416 AGTAA-C AGAATC AGAATC AGAAT- AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
20108464 A-AATC AGAATAAC AGAATC AGAATC A-AATC AGTATT AGTAA-C AGAATT
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
20108512 AGAATT AGAATC AGAATT AGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAAT
20108553 GTGAATGCAA
Statistics
Matches: 146, Mismatches: 15, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
5 24 0.16
6 107 0.73
7 7 0.05
8 8 0.05
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:20108383 original size:30 final size:29
Alignment explanation
Indices: 20108347--20108552 Score: 210
Period size: 30 Copynumber: 7.1 Consensus size: 29
20108337 AAGAAACATT
* * *
20108347 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
20108377 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
20108407 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
20108437 AT-AGAATTAGGTGACAGAATCAGAATCA-A
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
20108466 ATCAGAA---TAACAGAATCAGAATCA-A
1 ATCAGAATTGTAACAGAATCAGAATCAGA
* * *
20108491 ATCAGTATTAGTAACAGAATTAGAATTAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
20108521 ATCAGAATTAGTGACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
20108551 AT
1 AT
20108553 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
25 23 0.15
29 23 0.15
30 101 0.67
31 3 0.02
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:20108470 original size:11 final size:11
Alignment explanation
Indices: 20108454--20108495 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
20108444 TAGGTGACAG
20108454 AATCAGAATCA
1 AATCAGAATCA
20108465 AATCAGAATAACA
1 AATCAGAAT--CA
20108478 GAATCAGAATCA
1 -AATCAGAATCA
20108490 AATCAG
1 AATCAG
20108496 TATTAGTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 15 0.54
12 2 0.07
13 2 0.07
14 9 0.32
ACGTcount: A:0.55, C:0.17, G:0.12, T:0.17
Consensus pattern (11 bp):
AATCAGAATCA
Found at i:20108705 original size:27 final size:26
Alignment explanation
Indices: 20108668--20108733 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
20108658 CACATGGCTG
*
20108668 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
20108694 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
20108721 CCAGAATCAGATA
1 CCAGAA-CAGATA
20108734 GTGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:20108738 original size:27 final size:26
Alignment explanation
Indices: 20108668--20108741 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
20108658 CACATGGCTG
* *
20108668 CCAGAA-CAGATATCGTGACAGAGTCA
1 CCAGAATCAGATAT-GTGGCAGAGCCA
20108694 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATA-TGTGGCAGAGCCA
20108721 CCAGAATCAGATAGTGTGGCA
1 CCAGAATCAGATA-TGTGGCA
20108742 AACCCACCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 33 0.80
28 3 0.07
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (26 bp):
CCAGAATCAGATATGTGGCAGAGCCA
Found at i:20108748 original size:27 final size:27
Alignment explanation
Indices: 20108692--20108749 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
20108682 GTGACAGAGT
* * *
20108692 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAGTGTGGCAAACC
20108719 CACCAGA-ATCAGATAGTGTGGCAAACC
1 CACCAGATA-CAGATAGTGTGGCAAACC
20108746 CACC
1 CACC
20108750 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAGTGTGGCAAACC
Found at i:20108952 original size:22 final size:22
Alignment explanation
Indices: 20108904--20108962 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20108894 GTAAATACGT
*
20108904 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20108926 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20108948 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20108963 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20109114 original size:26 final size:26
Alignment explanation
Indices: 20109050--20109158 Score: 173
Period size: 27 Copynumber: 4.1 Consensus size: 26
20109040 TCGATCGGTC
* *
20109050 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
20109076 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
20109103 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
20109129 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20109156 AAC
1 AAC
20109159 GCTTCCTCCG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
26 34 0.44
27 44 0.56
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20109142 original size:53 final size:53
Alignment explanation
Indices: 20109050--20109158 Score: 175
Period size: 53 Copynumber: 2.1 Consensus size: 53
20109040 TCGATCGGTC
*
20109050 AACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAG
* *
20109103 AACAGATATTGTGGCAGAGCCACCAGA-ACAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGCCACCAG
20109156 AAC
1 AAC
20109159 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 7 0.13
53 45 0.87
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (53 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAG
Found at i:20109387 original size:27 final size:27
Alignment explanation
Indices: 20109357--20109549 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
20109347 GGGGCAAAAT
* * * *
20109357 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20109384 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20109411 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20109438 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20109464 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20109491 AGTAATTCTACCCTA-TAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20109517 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20109543 AGTAATT
1 GGTAATT
20109550 TCACAATCAA
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.09
26 41 0.29
27 88 0.62
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20109484 original size:53 final size:53
Alignment explanation
Indices: 20109356--20109542 Score: 225
Period size: 53 Copynumber: 3.5 Consensus size: 53
20109346 AGGGGCAAAA
* * * * *
20109356 TGGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTT
* *
20109410 CGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTT
* * *
20109463 TGGTAATTCTATCCTATAAGGGTATTTC-AGTAATTCTACCCTATAGGGTA-TT
1 TGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGTATTT
* * *
20109515 TCGAAATTCTACCCTACAGGGGTATTTC
1 TGGTAATTCTACCCTACAAGGGTATTTC
20109543 AGTAATTTCA
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
52 26 0.23
53 51 0.44
54 38 0.33
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (53 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTT
Found at i:20109584 original size:27 final size:27
Alignment explanation
Indices: 20109554--20110052 Score: 580
Period size: 27 Copynumber: 19.2 Consensus size: 27
20109544 GTAATTTCAC
* *
20109554 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20109581 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20109608 AA-CTGAGGGT-AAACTAGTAATT-TGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
20109634 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109661 AATCGAGGGTAAAAC-GTAATTC--TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109685 AAT-GAGGGTAAAA---T-A----GTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20109703 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20109730 AATC-AGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109756 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20109783 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109810 AAT-GAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
20109836 AATCGAGGGTAAAAC-GTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20109862 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109889 AATCGAGGGTAAAA---TAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20109913 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20109940 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20109967 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20109994 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20110021 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20110048 AATCG
1 AATCG
20110053 GGAGTACTTT
Statistics
Matches: 411, Mismatches: 32, Indels: 58
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.01
19 10 0.02
20 1 0.00
21 1 0.00
22 1 0.00
23 12 0.03
24 25 0.06
25 1 0.00
26 99 0.24
27 253 0.62
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20109602 original size:53 final size:53
Alignment explanation
Indices: 20109559--20110052 Score: 515
Period size: 53 Copynumber: 9.5 Consensus size: 53
20109549 TTCACAATCA
*
20109559 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAA-TTT-TAAATCTG
* * *
20109613 AGGGT-AAACTAGTAATT-TGTAAATCAAGGGTAAAACGGTAATTTTACAAATC-G
1 AGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACGATAATTTT--AAATCTG
*
20109666 AGGGTAAAAC-GTAATTC--TAAAT-GAGGGT-AAA--AT-A--GTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTAAATCTG
*
20109708 AGGGTAAAACGGTAATTCTATAAATC-AGGGTAAAAC-AGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATT-T-TAAATCTG
20109761 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAA--TG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATT-T-TAAATCTG
20109814 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-TAATTTTACAAATC-G
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTT--AAATCTG
*
20109867 AGGGTAAAACGGTAATTCTATAAATCGAGGGT-AAA--ATAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATT-T-TAAATCTG
* *
20109918 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATC-G
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTT--AAATCTG
* *
20109972 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATT-T-TAAATCTG
20110026 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
20110053 GGAGTACTTT
Statistics
Matches: 386, Mismatches: 16, Indels: 76
0.81 0.03 0.16
Matches are distributed among these distances:
41 1 0.00
42 14 0.04
43 7 0.02
44 1 0.00
45 10 0.03
46 4 0.01
47 2 0.01
48 1 0.00
49 4 0.01
50 7 0.02
51 46 0.12
52 25 0.06
53 140 0.36
54 121 0.31
55 2 0.01
56 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (53 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTAAATCTG
Found at i:20109722 original size:19 final size:18
Alignment explanation
Indices: 20109683--20109722 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
20109673 AACGTAATTC
*
20109683 TAAATGAGGGTAAAATAG
1 TAAATGAGGGTAAAACAG
*
20109701 TAAACTGAGGGTAAAACGG
1 TAAA-TGAGGGTAAAACAG
20109720 TAA
1 TAA
20109723 TTCTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.20
Consensus pattern (18 bp):
TAAATGAGGGTAAAACAG
Found at i:20110069 original size:54 final size:54
Alignment explanation
Indices: 20109700--20110052 Score: 528
Period size: 53 Copynumber: 6.6 Consensus size: 54
20109690 GGGTAAAATA
*
20109700 GTAAACTGAGGGTAAAACGGTAATTCTATAAATC-AGGGTAAAACAGTAATTCT
1 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
20109753 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
1 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
20109807 GTAAA-TGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GTAATT-T
1 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
* *
20109858 -TACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT-AAA-A-TAATTCT
1 GTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
* *
20109910 GTAAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATT-T
1 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
* * *
20109963 -TACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCT
1 GTA-AACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
20110018 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
20110053 GGAGTACTTT
Statistics
Matches: 275, Mismatches: 11, Indels: 27
0.88 0.04 0.09
Matches are distributed among these distances:
50 2 0.01
51 39 0.14
52 19 0.07
53 110 0.40
54 99 0.36
55 4 0.01
56 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (54 bp):
GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
Found at i:20112069 original size:6 final size:6
Alignment explanation
Indices: 20112058--20112247 Score: 155
Period size: 6 Copynumber: 31.8 Consensus size: 6
20112048 GGAACCAAAG
*
20112058 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
20112106 ATAA-C AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
20112154 A-AATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * *
20112201 AG-ATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
20112248 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 17, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
4 1 0.01
5 18 0.12
6 119 0.79
7 10 0.07
8 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:20112161 original size:89 final size:90
Alignment explanation
Indices: 20112058--20112247 Score: 330
Period size: 89 Copynumber: 2.1 Consensus size: 90
20112048 GGAACCAAAG
20112058 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTA-TAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAG-ATCAGAAT
*
20112122 CAGAATTAGAATTAGGTGACAGAATC
65 CAGAATCAGAATTAGGTGACAGAATC
* *
20112148 AGAATCA-AATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGATCAGAATT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGATCAGAATC
20112212 AGAATCAGAATTAGGTGACAGAATC
66 AGAATCAGAATTAGGTGACAGAATC
20112237 AGAATCAGAAT
1 AGAATCAGAAT
20112248 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
89 79 0.83
90 16 0.17
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (90 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGATCAGAATC
AGAATCAGAATTAGGTGACAGAATC
Found at i:20112402 original size:27 final size:26
Alignment explanation
Indices: 20112365--20112446 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
20112355 AACATGGCTG
*
20112365 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
20112391 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
20112418 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
20112445 CC
1 CC
20112447 TAACAGAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 44 0.88
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:20112650 original size:22 final size:22
Alignment explanation
Indices: 20112602--20112660 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20112592 GTAAATACGT
*
20112602 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20112624 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20112646 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20112661 TAATGACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20112844 original size:27 final size:26
Alignment explanation
Indices: 20112768--20112844 Score: 122
Period size: 25 Copynumber: 3.0 Consensus size: 26
20112758 CGTCAACAAT
20112768 AGATATTGTGGCAGAG-CACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
20112793 AGATATTGT-GCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
20112818 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
20112845 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
24 6 0.12
25 23 0.48
26 4 0.08
27 15 0.31
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:20113072 original size:26 final size:27
Alignment explanation
Indices: 20113043--20113235 Score: 160
Period size: 26 Copynumber: 7.3 Consensus size: 27
20113033 GGGGCAAAAT
* *
20113043 GGTAATTTTACCC-ACAAAGGTATCTC
1 GGTAATTCTACCCTACAAAGGTATTTC
**
20113069 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTC
* *
20113096 GGTATTTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTC
* * *
20113122 GATAATTCTACCCTACAGAGGTATTTT
1 GGTAATTCTACCCTACAAAGGTATTTC
* * *
20113149 GGTATATTCTATCCTATAAGGGTATTT-
1 GGTA-ATTCTACCCTACAAAGGTATTTC
* * **
20113176 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTC
* * **
20113203 -GAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTC
*
20113229 AGTAATT
1 GGTAATT
20113236 TCACAATCAA
Statistics
Matches: 141, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
26 80 0.57
27 43 0.30
28 18 0.13
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAAGGTATTTC
Found at i:20113108 original size:53 final size:52
Alignment explanation
Indices: 20113047--20113203 Score: 174
Period size: 53 Copynumber: 3.0 Consensus size: 52
20113037 CAAAATGGTA
*
20113047 ATTT-TACCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCACAAGGGTAT-TCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
20113099 ATTTCTACCCTAC-AGGGTATTTCGATAATTCTACCCTACAGAGGTATTTTGGT
1 ATTTCTACCC-ACAAGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * ** *
20113152 ATATTCTATCCTATAAGGGTATTTAGTAATTCTACCCTATAGGGGTATTTCG
1 AT-TTCTA-CCCACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTTCG
20113204 AAATTCTACC
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
52 4 0.05
53 41 0.47
54 34 0.39
55 8 0.09
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (52 bp):
ATTTCTACCCACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:20113188 original size:80 final size:81
Alignment explanation
Indices: 20113045--20113235 Score: 228
Period size: 80 Copynumber: 2.4 Consensus size: 81
20113035 GGCAAAATGG
* * * * * *
20113045 TAATTTTACCC-ACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
20113109 TACA-GGGTATTTCGA
66 TACAGGGGTATTTCGA
* * *
20113124 TAATTCTACCCTACAGAGGTATTTTGGTATATTCTATCCTATAAGGGTATTT-AGTAATTCTACC
1 TAATTCTACCCTACAGAGGTATTTCGGTA-ATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
20113188 CTATAGGGGTATTTCGA
65 CTACAGGGGTATTTCGA
* * *
20113205 -AATTCTACCCTATAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGAGGTATTTCGGTAATT
20113236 TCACAATCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 13 0.14
80 52 0.55
81 30 0.32
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTCGA
Found at i:20113270 original size:27 final size:27
Alignment explanation
Indices: 20113240--20113745 Score: 591
Period size: 27 Copynumber: 19.2 Consensus size: 27
20113230 GTAATTTCAC
* ** *
20113240 AATCAAGGGTAAAACTATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20113267 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20113294 AA-CTGAGGGT-AAACTAGTAATTTTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
20113321 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20113348 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20113375 AATCGAGGGT-AAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20113401 AA-CTGAGGGTAAAACGGTAATTCT-TA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20113427 AATC-AGGGTAAAA-AGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20113452 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20113479 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20113506 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20113533 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20113560 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20113587 AATCGAGGGTAAAAC-GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20113613 AA-CTGAGGGT-AAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20113639 AATCGA-GGTAAAACGGTAA-T-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20113662 AATCGAGGGTAAAACGGTAA-T-TATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20113687 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20113714 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20113741 AATCG
1 AATCG
20113746 GGAGTACTTT
Statistics
Matches: 423, Mismatches: 32, Indels: 48
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.02
24 25 0.06
25 45 0.11
26 84 0.20
27 253 0.60
28 8 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20113615 original size:212 final size:209
Alignment explanation
Indices: 20113228--20113776 Score: 729
Period size: 212 Copynumber: 2.6 Consensus size: 209
20113218 AGGGGTATTT
* ** *
20113228 CAGTAATTTCACAATCAAGGGTAAAACTATAATTCTATAAATCGAGGGTAAAACGATAATTTTGT
1 CAGTAATTT-A-AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG-TAATTCTGT
* * * *
20113293 AAACTGAGGGT-AAACTAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTACAAATCGAGGG
63 AAACTGAGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGG
* * *
20113357 TAAAACGGTAATTCTGTAAATCGAGGGTAAACAGTAATTTTGTAAACTGAGGGTAAAACGGTAAT
127 TAAAACGGTAATTCTATAAATCGAGGGTAAACAGTAATTCTGTAAACTGAGGGT-AAACAGTAAT
20113422 TCT-TAAATC-AGGGTAAAA
191 TCTGTAAATCGA-GGTAAAA
* *
20113440 -AGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
1 CAGTAA-T-T-TAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GTAATTCT
20113503 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGG
61 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGG
20113568 GTAAAACGGTAATTCTATAAATCGAGGGTAAA-ACGTAATTCTGTAAACTGAGGGTAAACAGTAA
126 GTAAAACGGTAATTCTATAAATCGAGGGTAAACA-GTAATTCTGTAAACTGAGGGTAAACAGTAA
20113632 TTCTGTAAATCGAGGTAAAA
190 TTCTGTAAATCGAGGTAAAA
*
20113652 CGGTAATTTAAATCGAGGGTAAAACGGTAA-T-TATAAATCGAGGGTAAAACGGTAATTCTGTAA
1 CAGTAATTTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GTAATTCTGTAA
* **** *
20113715 ACTGAGGGTAAAACGATAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
65 ACTGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACGGTAATTTTACAAATCGAGGG
20113777 CATTTCAGTA
Statistics
Matches: 302, Mismatches: 23, Indels: 28
0.86 0.07 0.08
Matches are distributed among these distances:
207 2 0.01
208 83 0.27
209 1 0.00
210 19 0.06
211 21 0.07
212 163 0.54
213 12 0.04
214 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (209 bp):
CAGTAATTTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGTAATTCTGTAAA
CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAA
ACGGTAATTCTATAAATCGAGGGTAAACAGTAATTCTGTAAACTGAGGGTAAACAGTAATTCTGT
AAATCGAGGTAAAA
Found at i:20115084 original size:32 final size:32
Alignment explanation
Indices: 20115043--20115104 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
20115033 CATCTATTTT
20115043 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
20115075 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
20115105 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:20116729 original size:6 final size:6
Alignment explanation
Indices: 20116718--20116908 Score: 155
Period size: 6 Copynumber: 31.8 Consensus size: 6
20116708 AACCAAAATG
*
20116718 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
20116766 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
20116815 AAAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * * *
20116863 AGAATT AGAATT AGAATC A-AATT AGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAAT
20116909 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 20, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 15 0.10
6 123 0.83
7 9 0.06
8 2 0.01
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:20116733 original size:30 final size:29
Alignment explanation
Indices: 20116697--20116908 Score: 221
Period size: 30 Copynumber: 7.1 Consensus size: 29
20116687 AAGAAACATT
* * *
20116697 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
20116727 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
20116757 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
* *
20116787 ATCAGAATTAGGTGACAGAATCAGAATCAAA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
* *
20116818 ATCAGAATCAGTAACAGAATCAGAATCAAA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
* * *
20116848 ATCAGTATTAGTAACAGAATTAGAATTAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
*
20116878 ATCA-AATTAGTGACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
20116907 AT
1 AT
20116909 GTGAATGCAA
Statistics
Matches: 156, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
29 24 0.15
30 102 0.65
31 30 0.19
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:20117070 original size:27 final size:25
Alignment explanation
Indices: 20117023--20117120 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 25
20117013 AGCATGGCTG
* *
20117023 CCAGAACAGATATGTGACAGAGTCA
1 CCAGAACAGATATGTGGCAGAGCCA
20117048 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATA-TGTGGCAGAGCCA
*
20117075 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGAT-ATGTGGCAGAGCCA
* *
20117102 CC-TAACAGAATACGTGGCA
1 CCAGAACAG-ATATGTGGCA
20117121 CAAAGCTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
25 15 0.24
26 12 0.19
27 35 0.56
28 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATATGTGGCAGAGCCA
Found at i:20117308 original size:22 final size:22
Alignment explanation
Indices: 20117260--20117318 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20117250 GTAAATACGT
*
20117260 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20117282 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20117304 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20117319 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20117503 original size:27 final size:26
Alignment explanation
Indices: 20117405--20117511 Score: 155
Period size: 26 Copynumber: 4.1 Consensus size: 26
20117395 TCGATCGGTC
* *
20117405 AACAGATA-TGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
20117430 ATACAGATATTGT-GCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
20117456 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
20117482 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20117509 AAC
1 AAC
20117512 GCTTCCTCCG
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.16
26 40 0.53
27 23 0.31
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20117740 original size:27 final size:27
Alignment explanation
Indices: 20117710--20117906 Score: 126
Period size: 27 Copynumber: 7.3 Consensus size: 27
20117700 GGGGCAAAAT
* *
20117710 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
20117737 GGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* *
20117764 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATCTC
* * * * *
20117791 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
20117818 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * * * *
20117845 AGTAATTCTACTCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * * *
20117872 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
20117899 AGTAATTT
1 GGTAATTT
20117907 CACAATCAAG
Statistics
Matches: 139, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.01
27 134 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:20117776 original size:54 final size:54
Alignment explanation
Indices: 20117710--20117905 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
20117700 GGGGCAAAAT
* * * * *
20117710 GGTAATTTTACCCCACAAAGGTATCTCGGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
20117764 GGTATTTCTACCCTACAAGGGTATTTTGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
20117818 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACTCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
20117872 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
20117906 TCACAATCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:20117854 original size:81 final size:81
Alignment explanation
Indices: 20117737--20117897 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
20117727 AAGGTATCTC
* * * *
20117737 GGTAACTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT-TGATAATTCTA
1 GGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGA-AATTCTA
20117801 CCCTACAGGGGTATTTT
65 CCCTACAGGGGTATTTT
* * * * * *
20117818 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACTCTATAGGGGTATTTCGGAAATTCTAC
1 GGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGAAATTCTAC
20117883 CCTACAGGGGTATTT
66 CCTACAGGGGTATTT
20117898 CAGTAATTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
81 67 0.97
82 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTAACTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGAAATTCTAC
CCTACAGGGGTATTTT
Found at i:20117940 original size:27 final size:27
Alignment explanation
Indices: 20117910--20118400 Score: 618
Period size: 27 Copynumber: 18.2 Consensus size: 27
20117900 GTAATTTCAC
*
20117910 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
20117937 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20117964 AA-CTGAGGGT-AAACTAGTAATTTTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* ** * **
20117991 AATCAAGGGTAAAACAATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20118018 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
20118045 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20118072 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20118099 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20118126 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20118153 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20118180 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20118207 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20118234 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20118261 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20118288 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20118315 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20118342 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20118369 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20118396 AATCG
1 AATCG
20118401 GGAGTACTTT
Statistics
Matches: 407, Mismatches: 43, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.02
27 388 0.95
28 10 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20120423 original size:6 final size:6
Alignment explanation
Indices: 20120412--20120566 Score: 151
Period size: 6 Copynumber: 25.8 Consensus size: 6
20120402 AACCAAAATG
* * *
20120412 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATT AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT--C
20120461 AGAATC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * *
20120509 AGTATT AGTAA-C AGAATC A-AATC AGAATC AGAATT AGTGA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
20120556 AGAATC AGAAT
1 AGAATC AGAAT
20120567 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
5 13 0.10
6 103 0.82
7 8 0.06
8 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:20120753 original size:27 final size:27
Alignment explanation
Indices: 20120683--20120764 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
20120673 AGCATGGCTG
* *
20120683 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
20120709 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
20120736 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
20120763 CC
1 CC
20120765 TAACAGAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:20121101 original size:26 final size:26
Alignment explanation
Indices: 20121064--20121125 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
20121054 ATCGATCGTC
20121064 AACAGATATTGTGACAGAG-TCACCA-
1 AACAGATATTGTGACAGAGCT-ACCAG
*
20121089 ATACAGATATTGTGGCAGAGCTACCAG
1 A-ACAGATATTGTGACAGAGCTACCAG
20121116 AACAGATATT
1 AACAGATATT
20121126 TTTGGCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 1 0.03
26 30 0.91
27 2 0.06
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCTACCAG
Found at i:20121403 original size:27 final size:27
Alignment explanation
Indices: 20121343--20121640 Score: 313
Period size: 27 Copynumber: 11.2 Consensus size: 27
20121333 GGGCAAAATG
* * * *
20121343 GTAATTTTACCCCACAA-GGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
20121369 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
20121396 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
20121422 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
20121450 GTAATTTTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
20121477 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
20121504 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
20121530 GATAATTCTACCCTAC-AGGGTATTT-G
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
20121556 GTAATTCTATCCTATAAGGGTATTT-A
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
20121582 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
20121609 GAAATTCTACCCTA-TAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
20121635 GTAATT
1 GTAATT
20121641 TCACAATCAA
Statistics
Matches: 228, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
25 12 0.05
26 71 0.31
27 144 0.63
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:20121429 original size:54 final size:54
Alignment explanation
Indices: 20121346--20121633 Score: 358
Period size: 54 Copynumber: 5.4 Consensus size: 54
20121336 CAAAATGGTA
* * * * *
20121346 ATTT-TACCCCACAA-GGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
*
20121398 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* *
20121452 AATTT-TATCCTATAAGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTTCGGT
1 -ATTTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCGGT
20121506 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTT-GGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* * * * * *
20121558 AATTCTATCCTATAAGGGTATTTAG-TAATTCTACCCTATAGGGGTATTTCGGA
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* *
20121611 AATTCTACCCTA-TAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
20121634 AGTAATTTCA
Statistics
Matches: 208, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
51 14 0.07
52 45 0.22
53 35 0.17
54 109 0.52
55 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:20121464 original size:81 final size:79
Alignment explanation
Indices: 20121343--20121640 Score: 375
Period size: 81 Copynumber: 3.7 Consensus size: 79
20121333 GGGCAAAATG
* * * * *
20121343 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATA-GGGTATTTCAGTAATTCTACC
20121407 CTACAAGGGTATTTC
65 CTACAAGGGTATTTC
* * *
20121422 GATAATTCTACCCTACAGGGGTATTTTGGTAATTTTATCCTATAAGGGTATTTCAGTAATTCTAC
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT-AGGGTATTTCAGTAATTCTAC
*
20121487 CCTACAGGGGTATTTC
64 CCTACAAGGGTATTTC
* * * * * *
20121503 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTT-GGTAATTCTATC
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTATTTCAGTAATTCTACC
* *
20121567 CTATAAGGGTATTTA
65 CTACAAGGGTATTTC
* *
20121582 GTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCCTATAGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTATTTCAGTAATT
20121641 TCACAATCAA
Statistics
Matches: 186, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
78 45 0.24
79 29 0.16
80 22 0.12
81 88 0.47
82 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (79 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTC
Found at i:20121681 original size:27 final size:27
Alignment explanation
Indices: 20121645--20122243 Score: 726
Period size: 27 Copynumber: 22.2 Consensus size: 27
20121635 GTAATTTCAC
* *
20121645 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20121672 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20121699 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
20121726 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20121753 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20121780 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20121807 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
20121834 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20121861 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
20121888 AATCGAGGGTAAAACGGTAGTTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20121915 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20121942 AATCGAGGGTAAAA-GAGTAATTCTATA
1 AATCGAGGGTAAAACG-GTAATTCTGTA
*
20121969 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
20121996 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20122023 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
20122050 AATCGAGGATAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
20122077 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
20122104 AATCGAGGGTAAAACGGAAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20122131 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
20122158 AATTGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20122185 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20122212 AATCGAGGATAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20122239 AATCG
1 AATCG
20122244 GGAGTACTTT
Statistics
Matches: 494, Mismatches: 64, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.01
27 484 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20126992 original size:17 final size:17
Alignment explanation
Indices: 20126970--20127010 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
20126960 CCATTAGGAG
20126970 TGGGCCATTGTATTGAT
1 TGGGCCATTGTATTGAT
20126987 TGGGCCATTGTATTGAT
1 TGGGCCATTGTATTGAT
20127004 TGGGCCA
1 TGGGCCA
20127011 CCTTGGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (17 bp):
TGGGCCATTGTATTGAT
Found at i:20129014 original size:49 final size:48
Alignment explanation
Indices: 20128947--20129191 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 48
20128937 TAGACAAGGC
* *
20128947 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCT-GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
20128996 TATCAAGTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATC-TGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
20129046 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTG-TACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* *
20129097 TATCGTGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATC-TGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
20129146 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAT-CTGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
20129192 CCACAATAGA
Statistics
Matches: 166, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
49 81 0.49
50 46 0.28
51 37 0.22
52 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TATCTGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:20129184 original size:100 final size:99
Alignment explanation
Indices: 20128960--20129191 Score: 322
Period size: 100 Copynumber: 2.3 Consensus size: 99
20128950 CTGGTACGCA
* * *
20128960 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAAGTACACATAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
* *
20129025 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* ** *
20129059 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGTGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAAGTACACATAGTAGCCTGCACT
* ** *
20129124 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
20129159 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
20129192 CCACAATAGA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 30 0.26
100 46 0.39
101 41 0.35
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:20129469 original size:27 final size:27
Alignment explanation
Indices: 20129439--20129492 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20129429 TCATACAACC
* *
20129439 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
20129466 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
20129493 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:20129824 original size:30 final size:30
Alignment explanation
Indices: 20129790--20129846 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
20129780 AAAATCATAT
20129790 TTTGTAAAAATTACAATTTTGCCCCTAAAC
1 TTTGTAAAAATTACAATTTTGCCCCTAAAC
* *
20129820 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGTAAAAATTACAATTTTGCCCCTA
20129847 GGCTCGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTGTAAAAATTACAATTTTGCCCCTAAAC
Found at i:20132571 original size:15 final size:15
Alignment explanation
Indices: 20132551--20132580 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20132541 ATACCTCTGA
20132551 CCCAAGCCCCATTAC
1 CCCAAGCCCCATTAC
*
20132566 CCCAAGTCCCATTAC
1 CCCAAGCCCCATTAC
20132581 AACCCTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.50, G:0.07, T:0.17
Consensus pattern (15 bp):
CCCAAGCCCCATTAC
Found at i:20133245 original size:30 final size:30
Alignment explanation
Indices: 20133211--20133286 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
20133201 CACAGGTAAT
*
20133211 CCACATGCCCGTGTGTGACACACGGGCAGG
1 CCACACGCCCGTGTGTGACACACGGGCAGG
*
20133241 CCACACGCCCGTCTGTGACACACGGGCAGG
1 CCACACGCCCGTGTGTGACACACGGGCAGG
*
20133271 CCATACGCCCGTGTGT
1 CCACACGCCCGTGTGT
20133287 AATGACCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (30 bp):
CCACACGCCCGTGTGTGACACACGGGCAGG
Found at i:20133729 original size:20 final size:21
Alignment explanation
Indices: 20133706--20133749 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
20133696 GAATTATATG
20133706 TTAAATACT-TGTTCTT-ATTC
1 TTAAATA-TGTGTTCTTAATTC
*
20133726 TTAATTATGTGTTCTTAATTC
1 TTAAATATGTGTTCTTAATTC
20133747 TTA
1 TTA
20133750 CTTATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.62
21 7 0.33
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (21 bp):
TTAAATATGTGTTCTTAATTC
Found at i:20133748 original size:21 final size:20
Alignment explanation
Indices: 20133715--20133754 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20133705 GTTAAATACT
20133715 TGTTCTTATTCTTAATTATG
1 TGTTCTTATTCTTAATTATG
*
20133735 TGTTCTTAATTCTTACTTAT
1 TGTTCTT-ATTCTTAATTAT
20133755 ATATTTCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (20 bp):
TGTTCTTATTCTTAATTATG
Found at i:20135315 original size:12 final size:12
Alignment explanation
Indices: 20135298--20135327 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20135288 TCGAACACGC
20135298 CCGTGTGCTAGA
1 CCGTGTGCTAGA
*
20135310 CCGTGTGCTAGG
1 CCGTGTGCTAGA
20135322 CCGTGT
1 CCGTGT
20135328 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGA
Found at i:20143550 original size:41 final size:41
Alignment explanation
Indices: 20143505--20143598 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
20143495 CATGGGTCTG
* *
20143505 CTCACACAAGCTGTCAGTTAGGATGTAGCTACATGGTGCTA
1 CTCACACAAGCTGTCAGTCAGGACGTAGCTACATGGTGCTA
*
20143546 CTCACACAAGCTGTCAGTCAGGACGTAGCTACATGGTGCTG
1 CTCACACAAGCTGTCAGTCAGGACGTAGCTACATGGTGCTA
*
20143587 TTCACACAAGCT
1 CTCACACAAGCT
20143599 ATCAAGTAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (41 bp):
CTCACACAAGCTGTCAGTCAGGACGTAGCTACATGGTGCTA
Found at i:20146897 original size:38 final size:38
Alignment explanation
Indices: 20146854--20146930 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
20146844 TTTCAAATTA
20146854 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
20146892 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
20146930 A
1 A
20146931 ATGAATCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:20147002 original size:48 final size:48
Alignment explanation
Indices: 20146899--20147032 Score: 166
Period size: 48 Copynumber: 2.8 Consensus size: 48
20146889 GTTACATGTT
*
20146899 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
20146946 TAACCGTGGCT-TAT-CACTTTAGCACCACATTACATGTATCAGTATGTG
1 TAACCGTGG-TATATCCAC-TTAGCACCACGTTACATGTATCAATATATG
* * *
20146994 TAATCGTGGTATATCCACTTAGCATCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
20147033 AATCGTGGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 3 0.04
47 26 0.35
48 42 0.57
49 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:20149778 original size:61 final size:61
Alignment explanation
Indices: 20149692--20149828 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
20149682 CTTTGTGGTG
* * *
20149692 AGTACTAAATGCAAAAGACAACCTTTATGGCAA-TACTTTAGACAAGAAAACCTTTTTAGTA
1 AGTACTAAATGTAAAAGACAACCTTTATGG-AATTACTTTAGACAAGAAAACCTTTGTAGCA
** * * * * *
20149753 AGTACTAAATGTAAGTGACAGCCTTTATGGAATTATTTTGGACAGGAAAACCTTTGTGGCA
1 AGTACTAAATGTAAAAGACAACCTTTATGGAATTACTTTAGACAAGAAAACCTTTGTAGCA
20149814 AGTACTAAATGTAAA
1 AGTACTAAATGTAAA
20149829 TGAAAACTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 2 0.03
61 62 0.97
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (61 bp):
AGTACTAAATGTAAAAGACAACCTTTATGGAATTACTTTAGACAAGAAAACCTTTGTAGCA
Found at i:20151530 original size:45 final size:45
Alignment explanation
Indices: 20151473--20151562 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
20151463 ATTATGTGAT
*
20151473 CTGAACTAATTGAGTTGTGGTCTGAGTTCATGATATATGTGACAC
1 CTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGACAC
* *
20151518 CTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTGACAC
1 CTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGACAC
20151563 ATGTTTTGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
CTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGACAC
Found at i:20154779 original size:39 final size:39
Alignment explanation
Indices: 20154734--20154814 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
20154724 ATGGATAAGG
* *
20154734 CTATGAGTAATGTCACTCTAATGGCTTTTTGATGGCTAT
1 CTATGAGTAATGTCACTCTAATGGCATTTCGATGGCTAT
20154773 CTATGAGTAATGTCACTCTAATGGCATTTCGATGGCTAT
1 CTATGAGTAATGTCACTCTAATGGCATTTCGATGGCTAT
20154812 CTA
1 CTA
20154815 GTTTCATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (39 bp):
CTATGAGTAATGTCACTCTAATGGCATTTCGATGGCTAT
Found at i:20156725 original size:40 final size:40
Alignment explanation
Indices: 20156680--20156803 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
20156670 GATTTGGATA
20156680 TATATATGGCACTTAGTGTTCGATTCGAGATAGCTTCAGC
1 TATATATGGCACTTAGTGTTCGATTCGAGATAGCTTCAGC
* * *
20156720 TATATATGGCACTTAATGTGCGATTCG-GAATAGCTTCGGC
1 TATATATGGCACTTAGTGTTCGATTCGAG-ATAGCTTCAGC
* * * *
20156760 TATATATGACACTTAGTGTTGGATACCGAGATAGCTTTAGC
1 TATATATGGCACTTAGTGTTCGAT-TCGAGATAGCTTCAGC
20156801 TAT
1 TAT
20156804 GCACTACAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 55 0.77
41 14 0.20
42 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTTCGATTCGAGATAGCTTCAGC
Found at i:20157429 original size:29 final size:29
Alignment explanation
Indices: 20157397--20157456 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
20157387 GAGTTACTAT
* *
20157397 TTTAAGGTTTATGGATTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGATTAAGGG
* * *
20157426 TTTAGGGATTATGGTTTATGGTTTAAGGG
1 TTTAAGGATTATGGATTATGGATTAAGGG
20157455 TT
1 TT
20157457 GGGGTGTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.47
Consensus pattern (29 bp):
TTTAAGGATTATGGATTATGGATTAAGGG
Found at i:20157436 original size:15 final size:14
Alignment explanation
Indices: 20157405--20157443 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
20157395 ATTTTAAGGT
* *
20157405 TTATGGATTATGGA
1 TTATGGTTTAGGGA
20157419 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGA
20157434 TTATGGTTTA
1 TTATGGTTTA
20157444 TGGTTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGA
Found at i:20157447 original size:7 final size:7
Alignment explanation
Indices: 20157397--20157450 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
20157387 GAGTTACTAT
*
20157397 TTTAAGG
1 TTTATGG
20157404 TTTATGG
1 TTTATGG
*
20157411 ATTATGG
1 TTTATGG
*
20157418 ATTATGGG
1 TTTAT-GG
*
20157426 TTTAGGG
1 TTTATGG
*
20157433 ATTATGG
1 TTTATGG
20157440 TTTATGG
1 TTTATGG
20157447 TTTA
1 TTTA
20157451 AGGGTTGGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:20157454 original size:22 final size:22
Alignment explanation
Indices: 20157402--20157450 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
20157392 ACTATTTTAA
*
20157402 GGTTTATGGATTATGGATTATG
1 GGTTTAGGGATTATGGATTATG
*
20157424 GGTTTAGGGATTATGGTTTAT-
1 GGTTTAGGGATTATGGATTATG
20157445 GGTTTA
1 GGTTTA
20157451 AGGGTTGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (22 bp):
GGTTTAGGGATTATGGATTATG
Found at i:20161366 original size:30 final size:30
Alignment explanation
Indices: 20161321--20161380 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20161311 ATTTAATACG
* *
20161321 AACTTTGGCAAAATTACATTTTTGCTCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
20161351 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
20161381 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:20168347 original size:47 final size:45
Alignment explanation
Indices: 20168225--20168347 Score: 144
Period size: 45 Copynumber: 2.7 Consensus size: 45
20168215 TGTAACCCGC
* *
20168225 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACAT
*
20168270 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTACAT
*
20168320 -C-TCA-CGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
20168348 TTCGAACTCA
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
45 36 0.51
47 24 0.34
48 3 0.04
49 1 0.01
50 6 0.09
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACAT
Found at i:20168823 original size:30 final size:30
Alignment explanation
Indices: 20168778--20168834 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20168768 ATTTAATACG
*
20168778 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
20168808 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
20168835 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:20171045 original size:23 final size:23
Alignment explanation
Indices: 20171015--20171089 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
20171005 TGGCTGCTGT
20171015 TGTTTAAATACTGCAAATTGAAG
1 TGTTTAAATACTGCAAATTGAAG
** *
20171038 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATACTGCAAATTGAAG
* * *
20171061 TGTTTAAGTACTACAAACTGAAG
1 TGTTTAAATACTGCAAATTGAAG
20171084 TGTTTA
1 TGTTTA
20171090 GTTGTTGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (23 bp):
TGTTTAAATACTGCAAATTGAAG
Found at i:20171083 original size:46 final size:46
Alignment explanation
Indices: 20171015--20171195 Score: 181
Period size: 46 Copynumber: 4.0 Consensus size: 46
20171005 TGGCTGCTGT
*
20171015 TGTTTAAATACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGA-A
1 TGTTTAAGTACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA
* * ** *
20171060 GTGTTTAAGTACTACAAACTGAAGTGTTTAGTTGTTGGAAATTGAGA
1 -TGTTTAAGTACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA
* * * * *
20171107 TGTTTTA-TCGCTG-TAATTG-AGTTGTATAAATGTTGTTAATTGAGA
1 TGTTTAAGT-ACTGCAAATTGAAG-TGTTTAAATGTTGTAAATTGAGA
* * *
20171152 TGTTAAAGTGCTGCAAATTGAATTGTTTAAATGTTGTAAATTGA
1 TGTTTAAGTACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGA
20171196 AGTGCTTAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
44 2 0.02
45 32 0.30
46 71 0.66
47 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (46 bp):
TGTTTAAGTACTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAGA
Found at i:20171150 original size:23 final size:22
Alignment explanation
Indices: 20171121--20171209 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 22
20171111 TTATCGCTGT
*
20171121 AATTGAGTTGTATAAATGTTGTT
1 AATTGAGTTGT-TAAATGTTGTA
* * *
20171144 AATTGAGATGTTAAAGTGCTGCA
1 AATTGAGTTGTTAAA-TGTTGTA
*
20171167 AATTGAATTGTTTAAATGTTGTA
1 AATTGAGTTG-TTAAATGTTGTA
20171190 AATTGAAG-TGCTTAAATGTT
1 AATTG-AGTTG-TTAAATGTT
20171210 ATACAAGATC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.08
23 43 0.81
24 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (22 bp):
AATTGAGTTGTTAAATGTTGTA
Found at i:20172172 original size:23 final size:23
Alignment explanation
Indices: 20172142--20172983 Score: 609
Period size: 23 Copynumber: 36.8 Consensus size: 23
20172132 CAAATGTTGC
*
20172142 AAATTGAAGTGTTTAAGTACTGT
1 AAATTGAAGTGTTTAAGTGCTGT
*
20172165 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
*
20172188 AAATTG-AGATGTTTTA-TCGCTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
20172211 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
20172233 TAATTGAAATGTTAAAAGTGCTGA
1 AAATTGAAGTGTT-TAAGTGCTGT
*
20172257 AAATTGAAGTGTTTTAA-TACTGT
1 AAATTGAAGTG-TTTAAGTGCTGT
* * *
20172280 AAATTGAAGTGTTAAACTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
20172303 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
*
20172326 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
20172349 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
20172372 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
20172395 AAATTGAAGTGTTT-AGTTGCTAG-
1 AAATTGAAGTGTTTAAG-TGCT-GT
* *
20172418 ACATTG-AGATGTTTTA-TCGCTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
20172441 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
20172463 TAATTGAGGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
20172486 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* * * *
20172509 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
20172532 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
20172555 AAATTGAATTGTTT-AGTTGCTAG-
1 AAATTGAAGTGTTTAAG-TGCT-GT
* *
20172578 ACATTG-AGATGTTTTA-TCGCTGT
1 AAATTGAAG-TGTTTAAGT-GCTGT
* * * *
20172601 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
20172623 TAATTG-AGATGTTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAGTGCTGT
*
20172646 AAATTGAAGTGCTTAA-TGCTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* *
20172668 AAATTGAAGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
20172691 AAATTGAAGTGTTTGAA-TGCTGT
1 AAATTGAAGTGTTT-AAGTGCTGT
* * *
20172714 AAATTGAATTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
20172737 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
* *
20172760 AAATTGAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
20172783 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGT
* * *
20172806 ACATTGAAATGTTTTA-TCGCTGT
1 AAATTGAAGTGTTTAAGT-GCTGT
* * * *
20172829 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * *
20172851 TAATTGATA-TGTTAAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGT
* *
20172874 AAATTGAAGTGTTAAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGT
*
20172897 AAATTGAAGTGTTTGAA-TGCTGC
1 AAATTGAAGTGTTT-AAGTGCTGT
* *
20172920 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGT
* * * *
20172943 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAAGTGCTGT
20172966 AAATTGAAGTGTTTAAGT
1 AAATTGAAGTGTTTAAGT
20172984 ACTTATTTTG
Statistics
Matches: 663, Mismatches: 110, Indels: 92
0.77 0.13 0.11
Matches are distributed among these distances:
22 106 0.16
23 522 0.79
24 33 0.05
25 2 0.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGT
Found at i:20172507 original size:160 final size:159
Alignment explanation
Indices: 20172320--20172728 Score: 705
Period size: 160 Copynumber: 2.6 Consensus size: 159
20172310 AGTGTTTGAA
*
20172320 TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGTTT-AATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTT
*
20172385 TAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGT
65 TAAGTGCTGCAAATTGAATTGTTTAGTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGT
*
20172450 GTATAAATGTTGTTAATTGAGGTGTTAAAG
130 GTATAAATGTTGTTAATTGAGATGTTAAAG
20172480 TGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGTTT-AATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTT
*
20172545 TAAGTACTGCAAATTGAATTGTTTAGTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGT
65 TAAGTGCTGCAAATTGAATTGTTTAGTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGT
20172610 GTATAAATGTTGTTAATTGAGATGTTAAAG
130 GTATAAATGTTGTTAATTGAGATGTTAAAG
* *
20172640 TGCTGCAAATTGAAGTGCTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGTTTAATGCTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGTT
*
20172704 TGAA-TGCTGTAAATTGAATTGTTTA
65 T-AAGTGCTGCAAATTGAATTGTTTA
20172729 AATGTTGTAA
Statistics
Matches: 238, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
158 5 0.02
159 57 0.24
160 176 0.74
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (159 bp):
TGCTGCAAATTGAAGTGTTTAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
AAGTGCTGCAAATTGAATTGTTTAGTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGTG
TATAAATGTTGTTAATTGAGATGTTAAAG
Found at i:20172761 original size:228 final size:229
Alignment explanation
Indices: 20172441--20172981 Score: 838
Period size: 228 Copynumber: 2.4 Consensus size: 229
20172431 TTATCGCTGT
* * * ** * * *
20172441 AATTGAGGTGTATAAATGTTGTTAATTGAGGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATG
* *
20172505 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAATTGTTTA
65 TTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTA
*
20172570 GTTGCTAGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGT
130 GTTGCTAGACATTGAAATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGT
*
20172635 TAAAGTGCTGCAAATTGAAGTGCTT-AA-TGCTGTA
195 TAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCA
* *
20172669 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAATTGTTTAAATG
1 AATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATG
20172733 TTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTA
65 TTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTA
* *
20172798 GTTGCTGGACATTGAAATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGT
130 GTTGCTAGACATTGAAATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGT
20172863 TAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCA
195 TAAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCA
* * *
20172898 AATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGT
* *
20172963 TGCAAATTGAAGTGTTTAA
66 TGTAAATTGAAGTGCTTAA
20172982 GTACTTATTT
Statistics
Matches: 285, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
227 6 0.02
228 193 0.68
229 82 0.29
230 4 0.01
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (229 bp):
AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGT
TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
TTGCTAGACATTGAAATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
AAAGTGCTGCAAATTGAAGTGTTAAAGTGCTGCA
Found at i:20173814 original size:43 final size:43
Alignment explanation
Indices: 20173767--20173866 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
20173757 ACTAAAGGTT
20173767 ATGACTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCC
1 ATGACTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCC
* *
20173810 ATGACTTTTAACGGCGCTTTTCCCACAAACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCC
20173853 ATGACTTTTAGCGG
1 ATGACTTTTAGCGG
20173867 TGTTTTTTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCC
Found at i:20192496 original size:40 final size:39
Alignment explanation
Indices: 20192447--20192588 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 39
20192437 GATTCGGATA
*
20192447 TATATATGGCACTTAGTGTGCGATTCAACATAGCTTCGGC
1 TATAGATGGCACTTAGTGTGCGATTCAA-ATAGCTTCGGC
* *
20192487 TATAGATGGCACTTAGTGTACAATTCGAAATAGCTTCGGC
1 TATAGATGGCACTTAGTGTGCGATTC-AAATAGCTTCGGC
* *
20192527 TATATATGGCACTTAGTGTGTGAGATT-ATAATAGCTTCGGC
1 TATAGATGGCACTTA--GTGTGCGATTCA-AATAGCTTCGGC
*
20192568 TAT-GTATTGGCACTTACTGTG
1 TATAG-A-TGGCACTTAGTGTG
20192589 TGAGATATCG
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
40 53 0.61
41 18 0.21
42 16 0.18
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (39 bp):
TATAGATGGCACTTAGTGTGCGATTCAAATAGCTTCGGC
Found at i:20196449 original size:16 final size:16
Alignment explanation
Indices: 20196428--20196464 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20196418 CGGCAAATCT
20196428 TGAAATGCCGAAAAGC
1 TGAAATGCCGAAAAGC
*
20196444 TGAAATGCTGAAAAGC
1 TGAAATGCCGAAAAGC
20196460 TGAAA
1 TGAAA
20196465 GTTTGGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (16 bp):
TGAAATGCCGAAAAGC
Found at i:20196715 original size:29 final size:29
Alignment explanation
Indices: 20196673--20196769 Score: 158
Period size: 29 Copynumber: 3.3 Consensus size: 29
20196663 GAAAGCATGT
*
20196673 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAGTGGGCC
20196702 ATATGAATGTGATTTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAGTGGGCC
* *
20196731 ATATGATTGAGATTTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAGTGGGCC
*
20196760 ATATGTATGT
1 ATATGAATGT
20196770 ATGTAGACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAGTGGGCC
Found at i:20198988 original size:40 final size:40
Alignment explanation
Indices: 20198923--20199183 Score: 357
Period size: 40 Copynumber: 6.6 Consensus size: 40
20198913 ATTCGGATTG
*
20198923 ATAACCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
20198962 ATATCTGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
20199002 ATAACCGGGCCAAGTCCCGAAGGCATTTGTTCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
20199042 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20199082 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
20199122 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
20199162 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
20199184 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 27 0.14
40 172 0.86
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20205058 original size:17 final size:18
Alignment explanation
Indices: 20205018--20205060 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
20205008 GTGTACTAAT
* *
20205018 TTTTATATTCATTAATTG
1 TTTTATTTTCATTAATTA
*
20205036 TATTATTTTC-TTAATTA
1 TTTTATTTTCATTAATTA
20205053 TTTTATTT
1 TTTTATTT
20205061 ACCTTGTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTTTCATTAATTA
Found at i:20209182 original size:27 final size:27
Alignment explanation
Indices: 20209052--20209182 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
20209042 ATTACCAAAG
* *
20209052 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20209079 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20209106 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
20209133 TACGCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20209160 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
20209183 AAAATACCCC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:20209207 original size:81 final size:81
Alignment explanation
Indices: 20209059--20209208 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
20209049 AAGTACCCTC
* * **** *
20209059 GATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAA
20209124 TTACTGTTTTACGCTT
66 TTACTGTTTTACGCTT
* * * *
20209140 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCC-CTGGTTTGTAAA
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTC-GATTTATAAA
20209204 ATTAC
65 ATTAC
20209209 CGAAATACCC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 56 0.98
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (81 bp):
GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAA
TTACTGTTTTACGCTT
Found at i:20209332 original size:27 final size:27
Alignment explanation
Indices: 20209174--20209333 Score: 189
Period size: 27 Copynumber: 5.9 Consensus size: 27
20209164 CTCGATTTAC
* **
20209174 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
*
20209201 AAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AATTTGT
* *
20209228 AAAATTACCAAAATACCTCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* **
20209255 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* *
20209282 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AATTTGT
20209309 AAAATTACCAAAATACCCCTAATTT
1 AAAATTACCAAAATACCCCTAATTT
20209334 ACAAAGTTTC
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.06
27 99 0.88
28 7 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:20209349 original size:54 final size:54
Alignment explanation
Indices: 20209168--20209354 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
20209158 TTTACCCTCG
** *
20209168 ATTTACAAAATTACTA-AAATACCC-CTGGTTTGTAAAATTACCGAAATA-CCCTCA
1 ATTTAC-AAATTAC-AGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCT-A
* * *
20209222 ATTTGTA-AAATTACCA-AAATA-CCTCTAGTTTGTAAAATTACCAAAATACCACTG
1 A-TT-TACAAATTA-CAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
* ** *
20209276 GTTTGTGAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTA
1 ATTT-ACAAATTACAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
*
20209330 ATTTACAAAGTTTCAGAAATACCCT
1 ATTTACAAA-TTACAGAAATACCCT
20209355 TGACTTTCTA
Statistics
Matches: 108, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
52 1 0.01
53 8 0.07
54 87 0.81
55 10 0.09
56 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
ATTTACAAATTACAGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
Found at i:20209352 original size:81 final size:81
Alignment explanation
Indices: 20209168--20209338 Score: 279
Period size: 81 Copynumber: 2.1 Consensus size: 81
20209158 TTTACCCTCG
* *
20209168 ATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
*
20209233 TACCAAAATACCTCTA
66 TACCAAAATACCCCTA
* ** *
20209249 GTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
20209314 TACCAAAATACCCCTA
66 TACCAAAATACCCCTA
20209330 ATTTACAAA
1 ATTTACAAA
20209339 GTTTCAGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
TACCAAAATACCCCTA
Found at i:20209404 original size:27 final size:27
Alignment explanation
Indices: 20209365--20209416 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
20209355 TGACTTTCTA
20209365 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
20209392 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
20209417 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:20209561 original size:27 final size:27
Alignment explanation
Indices: 20209470--20209561 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
20209460 ACCCCTATTA
* * *
20209470 GGTAAAAAGAACGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
20209497 GGTAAACA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
20209524 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
20209551 GGTAAAATGAC
1 GGTAAAATGAC
20209562 AAATATGCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:20210391 original size:26 final size:26
Alignment explanation
Indices: 20210362--20210536 Score: 246
Period size: 26 Copynumber: 6.8 Consensus size: 26
20210352 GAGGAAGTGT
* **
20210362 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20210388 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
20210414 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
20210440 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
20210466 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20210492 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20210517 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20210537 ATTAAAGAGG
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.24
26 100 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20210440 original size:52 final size:52
Alignment explanation
Indices: 20210362--20210536 Score: 300
Period size: 52 Copynumber: 3.4 Consensus size: 52
20210352 GAGGAAGTGT
*
20210362 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
20210414 AAAAGGGCTTATGCCCTAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
20210466 AAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
20210517 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20210537 ATTAAAGAGG
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 9 0.08
51 25 0.21
52 84 0.71
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20210740 original size:42 final size:42
Alignment explanation
Indices: 20210681--20210772 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
20210671 TAGTCTCCCC
* * ** *
20210681 AAATGGGTTTGCATACATTCATTGGTATTTCATGTGATATAG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATAG
*
20210723 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATAG
20210765 AAATGGGC
1 AAATGGGC
20210773 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATAG
Done.