Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 146 of 333
Found at i:47743531 original size:40 final size:40
Alignment explanation
Indices: 47743264--47743531 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
47743254 CAAACACATG
* * * *
47743264 TGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
* *
47743304 TGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
* *
47743344 TGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
*
47743384 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
47743424 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
47743464 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
47743504 TGCCTTCGGGTCTTAGCCCGGATATATT
1 TGCCTTCGGGTCTTAGCCCGGATATATT
47743532 CCAATGCTCA
Statistics
Matches: 216, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAAT
Found at i:47752008 original size:40 final size:40
Alignment explanation
Indices: 47751739--47752008 Score: 459
Period size: 40 Copynumber: 6.8 Consensus size: 40
47751729 CCGCAAACAC
* * * *
47751739 ATTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
* *
47751779 ATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
* *
47751819 ATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
*
47751859 ATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
47751899 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
47751939 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
47751979 ATTGCCTTCGGGTCTTAGCCCGGATATATT
1 ATTGCCTTCGGGTCTTAGCCCGGATATATT
47752009 CCAATGCTCA
Statistics
Matches: 218, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (40 bp):
ATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATA
Found at i:47758748 original size:52 final size:51
Alignment explanation
Indices: 47758671--47758768 Score: 178
Period size: 52 Copynumber: 1.9 Consensus size: 51
47758661 CATAGTAGTG
47758671 AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
1 AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
*
47758722 AAAGCTATCTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
1 AAAGCTA-CCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
47758769 AGTCACTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 7 0.16
52 38 0.84
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (51 bp):
AAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
Found at i:47759302 original size:21 final size:22
Alignment explanation
Indices: 47759273--47759313 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
47759263 AGTAAAAGTC
47759273 ATTTCTCTAACCA-TAAACATTT
1 ATTTCTCT-ACCATTAAACATTT
47759295 ATTT-TCTACCATTAAACAT
1 ATTTCTCTACCATTAAACAT
47759314 CAATATACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTCTCTACCATTAAACATTT
Found at i:47760031 original size:49 final size:47
Alignment explanation
Indices: 47759942--47760083 Score: 160
Period size: 49 Copynumber: 2.9 Consensus size: 47
47759932 CCCATGAGTA
* **
47759942 ATGTGATCCCATGTACAACCATGCCTGGGACATGACATTGGCATCGAT
1 ATGTGATCCCATGTACGACCATATCTGGGACATG-CATTGGCATCGAT
* * *
47759990 ATGTGAGGTCCCATGTAGGACCAT-TTTGGGACATAGCATTGGCATCGTT
1 ATGTGA--TCCCATGTACGACCATATCTGGGACAT-GCATTGGCATCGAT
* *
47760039 ATGTGATCCCATGTACGACCATATCTGGGATATGGCCTTGGCATC
1 ATGTGATCCCATGTACGACCATATCTGGGACAT-GCATTGGCATC
47760084 TTATTATGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
47 15 0.19
48 24 0.30
49 26 0.32
50 15 0.19
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (47 bp):
ATGTGATCCCATGTACGACCATATCTGGGACATGCATTGGCATCGAT
Found at i:47762772 original size:47 final size:45
Alignment explanation
Indices: 47762698--47762965 Score: 175
Period size: 47 Copynumber: 5.8 Consensus size: 45
47762688 ATTTGTTTGT
* * * *
47762698 GAGCTAGTGTAAGACATGTCTGAGACATGTATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TACGA
* *
47762744 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATACGA
* * *
47762792 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATACG-A
* * * * *
47762839 -AGCCAGTGTAAGACATGTCTGAGACGTGGATCGACTAC-TA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATACGA
* * * *** * * *
47762881 TGATGCCAGTGTAAGACCATGTTTGGGAAATGGCATCGACTTGAGATGT
1 -GA-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATACGA
*
47762930 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCG
47762966 ACACCTTACC
Statistics
Matches: 178, Mismatches: 29, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 2 0.01
45 12 0.07
46 67 0.38
47 68 0.38
48 25 0.14
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATACGA
Found at i:47762966 original size:47 final size:45
Alignment explanation
Indices: 47762695--47762967 Score: 201
Period size: 46 Copynumber: 5.9 Consensus size: 45
47762685 GTCATTTGTT
* * * * *** *
47762695 TGTGAGCTAGTGTAAGACATGTCTGAGACATGTATCGGCCACATTA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTTGA-GA
* *
47762741 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTGAGA
* * * * **
47762789 CGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACTTGAGA
* * * * *
47762835 CGTAAGCCAGTGTAAGACATGTCTGAGACGTGGATCGACTACT-AGA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACT--TGAGA
* *
47762881 --TGATGCCAGTGTAAGACCATGTTTGGGAAATGGCATCGACTTGAGA
1 TGTGA-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTTGAGA
*
47762927 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGAC
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGAC
47762968 ACCTTACCCA
Statistics
Matches: 184, Mismatches: 30, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
44 2 0.01
45 16 0.09
46 71 0.39
47 68 0.37
48 26 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGA
Found at i:47764085 original size:20 final size:21
Alignment explanation
Indices: 47764047--47764085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47764037 CCGAGTCGGT
*
47764047 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGATGCCCTTC
47764068 CACACGGGCGT-ATGCCCT
1 CACACGGGCGTGATGCCCT
47764086 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGATGCCCTTC
Found at i:47766449 original size:18 final size:16
Alignment explanation
Indices: 47766428--47766461 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
47766418 GTTGAGAAAA
47766428 TAATTTAATTTGAAATTT
1 TAATTT-ATTT-AAATTT
47766446 TAATTTATTTAAATTT
1 TAATTTATTTAAATTT
47766462 ATTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTATTTAAATTT
Found at i:47768198 original size:138 final size:138
Alignment explanation
Indices: 47767941--47768201 Score: 346
Period size: 138 Copynumber: 1.9 Consensus size: 138
47767931 CCTGGGTTTC
* * * * *
47767941 ATTTTTCTCCTACTCACATTTGTATTTTTTATTTTATATTGTTTTAAACTTTTAAACTTTTTAAT
1 ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAAACTTTTAAACTTTTTAAT
* * *
47768006 TAATTTTTTAACATATTAGTTCTTTAGTTAGATGATTAGATAGTTGCAAATACATCATTGATTCT
66 TAATTTTTTAACATATTAGTACTTTAGTTAGATGATTAGATAGCTACAAATACATCATTGATTCT
47768071 CGTGTTCA
131 CGTGTTCA
* * **
47768079 ATTTTT-TCCTATTCAAATTTATATTTTTTATTATATGTTGCTTCAAGTTTTTTAAA-TTTTTAA
1 ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAA-ACTTTTAAACTTTTTAA
* * * *
47768142 TTAATTTTTTTAACATATTAGTACTTTTGTTAGATGATTATATTGCTACAATTACATCAT
65 TTAA-TTTTTTAACATATTAGTACTTTAGTTAGATGATTAGATAGCTACAAATACATCAT
47768202 CAAGTCGGAG
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
137 44 0.42
138 61 0.58
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (138 bp):
ATTTTTCTCCTACTCAAATTTATATTTTTTATTATATATTGCTTCAAACTTTTAAACTTTTTAAT
TAATTTTTTAACATATTAGTACTTTAGTTAGATGATTAGATAGCTACAAATACATCATTGATTCT
CGTGTTCA
Found at i:47774279 original size:15 final size:14
Alignment explanation
Indices: 47774261--47774310 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
47774251 ATTATAAAAC
47774261 TAATTATTATATTAT
1 TAATTA-TATATTAT
47774276 TAA-TATATATTAT
1 TAATTATATATTAT
*
47774289 ATCATTATATATT-T
1 -TAATTATATATTAT
47774303 TATATTAT
1 TA-ATTAT
47774311 CATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 9 0.30
14 10 0.33
15 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTATATATTAT
Found at i:47774306 original size:7 final size:7
Alignment explanation
Indices: 47774263--47774310 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
47774253 TATAAAACTA
47774263 ATTATTAT
1 ATTA-TAT
47774271 ATTAT-T
1 ATTATAT
*
47774277 AATATAT
1 ATTATAT
47774284 ATTATAT
1 ATTATAT
47774291 CATTATAT
1 -ATTATAT
*
47774299 ATTTTAT
1 ATTATAT
47774306 ATTAT
1 ATTAT
47774311 CATTAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.15
7 18 0.53
8 11 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:47779820 original size:22 final size:22
Alignment explanation
Indices: 47779792--47779833 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47779782 ATGGACAAAT
* *
47779792 AGAATAAGATAAGATACATAAC
1 AGAATAACATAAAATACATAAC
47779814 AGAATAACATAAAATACATA
1 AGAATAACATAAAATACATA
47779834 CCTCATTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (22 bp):
AGAATAACATAAAATACATAAC
Found at i:47782382 original size:20 final size:19
Alignment explanation
Indices: 47782352--47782393 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47782342 ATTTTCATAA
47782352 TTAAAATAATTT-ATATTAT
1 TTAAAATAATTTAATATT-T
47782371 TTAAATATAATTTAATATTT
1 TTAAA-ATAATTTAATATTT
47782391 TTA
1 TTA
47782394 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAATAATTTAATATTT
Found at i:47782389 original size:18 final size:18
Alignment explanation
Indices: 47782336--47782390 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
47782326 AAAAATTTAA
* * *
47782336 AAATATATTTTCATAATT
1 AAATATAATTTAATATTT
47782354 AAA-ATAATTTATATTATTT
1 AAATATAATTTA-A-TATTT
47782373 AAATATAATTTAATATTT
1 AAATATAATTTAATATTT
47782391 TTATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 8 0.26
20 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATAATTTAATATTT
Found at i:47788525 original size:19 final size:19
Alignment explanation
Indices: 47788501--47788537 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
47788491 ACACTTGGGT
47788501 TTGGTGTTTCTAACACTTA
1 TTGGTGTTTCTAACACTTA
47788520 TTGGTGTTTCTAACACTT
1 TTGGTGTTTCTAACACTT
47788538 CTACACTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGGTGTTTCTAACACTTA
Found at i:47791180 original size:25 final size:25
Alignment explanation
Indices: 47791152--47791223 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
47791142 TGTGAGTTAT
* * *
47791152 ATATCAGGAAGCTCTTGCGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
47791177 ATATCGGGAAGCTCATGAGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
* *
47791202 GTATCGGGAAGCTCAAGAGAGC
1 ATATCGGGAAGCTCATGAGAGC
47791224 TGTGGTTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
ATATCGGGAAGCTCATGAGAGCCAA
Found at i:47793805 original size:38 final size:37
Alignment explanation
Indices: 47793760--47793858 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 37
47793750 GAAATCCTTG
** *
47793760 TTATAATTATTGTAATTATAATTTAGGATGGAATATTA
1 TTATAATTATTGTAATTATAATTTAGG-TCAAACATTA
* * **
47793798 TTATAATTACTGTAATTGTAATTTTTTGTCAAACATTA
1 TTATAATTATTGTAATTATAA-TTTAGGTCAAACATTA
*
47793836 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
47793859 ATTATATTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 2 0.04
38 44 0.88
39 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (37 bp):
TTATAATTATTGTAATTATAATTTAGGTCAAACATTA
Found at i:47795925 original size:93 final size:93
Alignment explanation
Indices: 47795765--47795946 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 93
47795755 CAAAAGCATA
* * *
47795765 TTTGGAGTCAAACTCCATCCTACTCTCTAAATGGTCAAAATTTGTTGAAGAAGACGCATGCCCTA
1 TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCAAAATTTGTTGAAGAAGACGCATGCCCTA
47795830 GTCTTCTACGAGGGAGGTCTAGAACATC
66 GTCTTCTACGAGGGAGGTCTAGAACATC
* * * *
47795858 TTTGGAGTCAAGCTCCATCCCAATCTCTAAATGATCGAAATTTGTTGAAGAAGATGCATGCCTTA
1 TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCAAAATTTGTTGAAGAAGACGCATGCCCTA
*
47795923 GTCTTCTATGAGGGAGGTCTAGAA
66 GTCTTCTACGAGGGAGGTCTAGAA
47795947 ATACTAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (93 bp):
TTTGGAGTCAAACTCCATCCCAATCTCTAAATGATCAAAATTTGTTGAAGAAGACGCATGCCCTA
GTCTTCTACGAGGGAGGTCTAGAACATC
Found at i:47798637 original size:20 final size:20
Alignment explanation
Indices: 47798614--47798654 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47798604 AATGTGTAAT
*
47798614 TAGAGGCACCGAAGTGAAAA
1 TAGAGGCACCAAAGTGAAAA
*
47798634 TAGAGGCACCAAAGTGCAAA
1 TAGAGGCACCAAAGTGAAAA
47798654 T
1 T
47798655 CCCATACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (20 bp):
TAGAGGCACCAAAGTGAAAA
Found at i:47804138 original size:79 final size:81
Alignment explanation
Indices: 47804002--47804184 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
47803992 TCGAATGATG
* * *
47804002 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACCAAATCCGGACTAAGATCCGAAGGCATT
47804066 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
47804081 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACCAAATCCGGACTAAGAT-CCGAAGGCA
47804143 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
47804161 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47804185 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:47804193 original size:40 final size:39
Alignment explanation
Indices: 47804003--47804186 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
47803993 CGAATGATGT
* * * *
47804003 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
47804043 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
47804083 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47804121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47804162 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47804187 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47804208 original size:79 final size:79
Alignment explanation
Indices: 47804055--47804219 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
47804045 GGACTAAGAT
* **
47804055 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAA
*
47804120 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
47804134 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT-AGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-C
* *
47804197 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47804213 CCGAAGG
1 CCGAAGG
47804220 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAA
ATCCGGGTTAAATC
Found at i:47812238 original size:40 final size:39
Alignment explanation
Indices: 47812154--47812338 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
47812144 TCGAATGATG
* * * *
47812154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
47812194 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
47812234 TCCGGGCTAAGCCCGAAGGAATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
47812273 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
47812314 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGCTAAG-TCCGAAGGCATTTG
47812339 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47812360 original size:79 final size:79
Alignment explanation
Indices: 47812207--47812371 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
47812197 GGACTAAGAT
* **
47812207 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGAATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTTACTAA
*
47812272 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
47812286 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGCCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGAATTGGAACGAGTTA-C
* *
47812349 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47812365 CCGAAGG
1 CCGAAGG
47812372 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:47815819 original size:50 final size:52
Alignment explanation
Indices: 47815709--47815828 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 52
47815699 ATGAACAAAT
* * *
47815709 GAGTTACTTAATGCATGACTTAATTTAATGATACAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
* * *
47815761 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
*
47815811 GAGTTACATAATGAATGA
1 GAGTTACATAATGCATGA
47815829 TTTTATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 27 0.45
51 10 0.17
52 23 0.38
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATACAAACTTTAACTAACATGA
Found at i:47815915 original size:39 final size:39
Alignment explanation
Indices: 47815848--47815923 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
47815838 ATGCAGAACA
* *
47815848 CATATTAATGATATTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATATTCAAACTATAACATAATTAAAGACT
* *
47815887 CATACTAATGATGTTCAAATTATAACATAATTAAAGA
1 CATACTAATGATATTCAAACTATAACATAATTAAAGA
47815924 TAATTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (39 bp):
CATACTAATGATATTCAAACTATAACATAATTAAAGACT
Found at i:47821453 original size:46 final size:43
Alignment explanation
Indices: 47821312--47821445 Score: 130
Period size: 46 Copynumber: 3.0 Consensus size: 43
47821302 ACCCGCCCTA
47821312 AGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTATTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A--ACCA-TT
* * * *
47821357 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
47821403 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
47821446 CCTAGTGACA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
44 9 0.12
45 7 0.09
46 51 0.69
47 2 0.03
48 4 0.05
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:47835337 original size:55 final size:54
Alignment explanation
Indices: 47835220--47835349 Score: 152
Period size: 55 Copynumber: 2.4 Consensus size: 54
47835210 AGATACCAAG
* * * * * *
47835220 TAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCATG
1 TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATC
* * * **
47835274 TAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCATC
1 TAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAAACCATC
47835329 TAAGACCATGCCAAGGCATGG
1 TAAGACCATGCCAAGGCATGG
47835350 AAATGGTGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 25 0.40
55 37 0.60
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATC
Found at i:47835387 original size:53 final size:54
Alignment explanation
Indices: 47835211--47835414 Score: 205
Period size: 53 Copynumber: 3.8 Consensus size: 54
47835201 TTAGGGTTAA
* * * *
47835211 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
* * * * * * * * *
47835265 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAG
* * * *
47835320 GATCCCATC-TAAGACCATGCCAAGGCATGGAAATGGTGAGTTC-ATAAGGCAAG
1 GATACCA-CGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
* *
47835373 GATACCACGTAAGACGATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47835415 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 29, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
52 1 0.01
53 43 0.36
54 34 0.29
55 40 0.34
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (54 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
Found at i:47845208 original size:13 final size:13
Alignment explanation
Indices: 47845190--47845219 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47845180 GCTGAGCAGG
47845190 GACACGCCCGTGT
1 GACACGCCCGTGT
*
47845203 GACACGGCCGTGT
1 GACACGCCCGTGT
47845216 GACA
1 GACA
47845220 TGATTGCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47847603 original size:15 final size:15
Alignment explanation
Indices: 47847583--47847620 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
47847573 TATATAAGGG
47847583 AGGGCCACACGGCCT
1 AGGGCCACACGGCCT
47847598 AGGGCCACACGGCCT
1 AGGGCCACACGGCCT
*
47847613 AAGGCCAC
1 AGGGCCAC
47847621 GCCCGTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.39, G:0.32, T:0.05
Consensus pattern (15 bp):
AGGGCCACACGGCCT
Found at i:47853635 original size:93 final size:93
Alignment explanation
Indices: 47853476--47853647 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
47853466 GCCCATAAGC
* *
47853476 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47853541 CGAGCTCGGATGCCTAGTTACATCTCTT
66 CGAGCTCGGATGCCTAGTTACATCTCTT
* * *
47853569 GAACTCGGACTTAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47853633 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
47853648 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTT
Found at i:47853638 original size:46 final size:46
Alignment explanation
Indices: 47853468--47853643 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
47853458 TGTAACCCGC
* * *
47853468 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * *
47853514 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
47853564 CTC-T---TGAACTCGGACTTAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
47853607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47853644 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 61 0.56
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:47853662 original size:46 final size:46
Alignment explanation
Indices: 47853476--47853662 Score: 154
Period size: 46 Copynumber: 4.0 Consensus size: 46
47853466 GCCCATAAGC
* * * *
47853476 GAACTCGGACTCAACTCAACGAGCTC--AGGCGT-TCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T-AGT
*
47853522 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--T
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGT
* * * *
47853569 GAACTCGGACTTAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGT
* *
47853615 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
47853661 GA
1 GA
47853663 CATGTCACTT
Statistics
Matches: 115, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 60 0.52
47 29 0.25
48 10 0.09
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
Found at i:47856056 original size:14 final size:16
Alignment explanation
Indices: 47856037--47856086 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
47856027 CAAAGATAAC
47856037 AAGAAAAT-C-GAATA
1 AAGAAAATCCAGAATA
47856051 AAG-AAATCCAGAATA
1 AAGAAAATCCAGAATA
* *
47856066 AAG-AGATCCAGGATA
1 AAGAAAATCCAGAATA
47856081 AAGAAA
1 AAGAAA
47856087 CCCAAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 21 0.70
16 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (16 bp):
AAGAAAATCCAGAATA
Found at i:47856066 original size:15 final size:15
Alignment explanation
Indices: 47856046--47856086 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
47856036 CAAGAAAATC
47856046 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
47856061 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
47856076 GGATAAAGAAA
1 GAATAAAGAAA
47856087 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:47856095 original size:15 final size:15
Alignment explanation
Indices: 47856048--47856095 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
47856038 AGAAAATCGA
47856048 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
47856062 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47856078 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47856093 ATA
1 ATA
47856096 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47866579 original size:36 final size:36
Alignment explanation
Indices: 47866532--47866604 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
47866522 TTGCCAAGAA
*
47866532 AGATGCTAAGCTGAGGCTGATCCGGTGGGTGCTTCT
1 AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
*
47866568 AGATGCTAAGCTGAGGCTGATCTAGTGGGTGCTTCT
1 AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
47866604 A
1 A
47866605 CTTCAAGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (36 bp):
AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
Found at i:47869312 original size:25 final size:27
Alignment explanation
Indices: 47869257--47869312 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
47869247 TTCTCTTAAT
* **
47869257 TTTTAATTTTATTCAATTAATTAATTT
1 TTTTAATTTCATTCAATTAATTAATAA
*
47869284 TTTTAA-TTCATTGAATT-ATTAATAA
1 TTTTAATTTCATTCAATTAATTAATAA
47869309 TTTT
1 TTTT
47869313 TATTAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 9 0.36
27 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTAATTTCATTCAATTAATTAATAA
Found at i:47869312 original size:26 final size:28
Alignment explanation
Indices: 47869253--47869314 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
47869243 AGTTTTCTCT
*
47869253 TAATTTTTAATTTTATTCAATTAATTAA
1 TAATTTTTAATTTCATTCAATTAATTAA
* *
47869281 T-TTTTTTAA-TTCATTGAATT-ATTAA
1 TAATTTTTAATTTCATTCAATTAATTAA
47869306 TAATTTTTA
1 TAATTTTTA
47869315 TTAAATCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 7 0.24
28 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (28 bp):
TAATTTTTAATTTCATTCAATTAATTAA
Found at i:47878564 original size:18 final size:18
Alignment explanation
Indices: 47878543--47878581 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
47878533 AGCATTTAGA
*
47878543 CTTAGATAAGTCTTTAAG
1 CTTAGATAAGTCTTGAAG
47878561 CTTAGATAAGTCTTGAAG
1 CTTAGATAAGTCTTGAAG
47878579 CTT
1 CTT
47878582 TTTGGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (18 bp):
CTTAGATAAGTCTTGAAG
Found at i:47887438 original size:40 final size:39
Alignment explanation
Indices: 47887340--47887562 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
47887330 TCCTCGTTCA
* * ** * *
47887340 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
47887379 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
47887418 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
47887458 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
47887498 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
47887539 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47887563 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:47887496 original size:80 final size:79
Alignment explanation
Indices: 47887338--47887562 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
47887328 GCTCCTCGTT
* * ** * *
47887338 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
47887403 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
47887417 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
47887482 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
47887497 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
47887560 GGA
63 GGA
47887563 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:47887562 original size:120 final size:119
Alignment explanation
Indices: 47887340--47887562 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
47887330 TCCTCGTTCA
* * *
47887340 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
47887405 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
47887459 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
47887523 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
47887563 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:47895344 original size:40 final size:39
Alignment explanation
Indices: 47895247--47895468 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
47895237 TCCTCGTTCA
* * ** * *
47895247 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
47895285 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
47895324 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
47895364 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
47895404 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
47895445 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47895469 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 22 0.14
39 16 0.10
40 108 0.70
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:47895402 original size:80 final size:79
Alignment explanation
Indices: 47895245--47895468 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
47895235 GCTCCTCGTT
* * ** * *
47895245 CAAATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
47895309 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
47895323 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
47895388 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
47895403 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
47895466 GGA
63 GGA
47895469 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 22 0.18
79 18 0.15
80 77 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:47895458 original size:120 final size:118
Alignment explanation
Indices: 47895247--47895468 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 118
47895237 TCCTCGTTCA
* * *
47895247 AATGCCTTCGGGACATAGCCCGGTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTT
1 AATGCCTTCGGGACATAACCCGGTTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATAT
* *
47895312 AACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 AACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
47895365 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGG-TTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
47895429 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
63 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
47895469 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 21 0.24
119 16 0.18
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (118 bp):
AATGCCTTCGGGACATAACCCGGTTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATAT
AACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:47913213 original size:23 final size:21
Alignment explanation
Indices: 47913162--47913214 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
47913152 AAATCCCCTA
*
47913162 ATATTAAAAAAAAGAAAAAAT
1 ATATGAAAAAAAAGAAAAAAT
* * *
47913183 AAAAGAAAAAAAGGAGAATAAAT
1 ATATGAAAAAAA--AGAAAAAAT
47913206 ATATGAAAA
1 ATATGAAAA
47913215 TGTGAATAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 9 0.38
23 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (21 bp):
ATATGAAAAAAAAGAAAAAAT
Found at i:47915484 original size:100 final size:100
Alignment explanation
Indices: 47915311--47915507 Score: 340
Period size: 100 Copynumber: 2.0 Consensus size: 100
47915301 TATTGTGAGG
* * * *
47915311 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATCATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACCACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
*
47915376 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
*
47915411 TCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACCACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
47915476 AAGTGCAGGCTACTATGCGTACCAGATAACTT
66 AAGTGCAGGCTACTATGCGTACCAGATAACTT
47915508 TGGCTACAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACCACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:47915498 original size:49 final size:49
Alignment explanation
Indices: 47915316--47915504 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
47915306 TGAGGTCACG
* * * * *
47915316 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATCATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGTCGCA
* * * * *
47915365 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TTAG-TCGCA
* *
47915416 TGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGTCGCA
* *
47915465 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA
47915505 CTTTGGCTAC
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.62
50 6 0.05
51 39 0.33
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTAGTCGCA
Found at i:47919107 original size:43 final size:43
Alignment explanation
Indices: 47919055--47919404 Score: 610
Period size: 43 Copynumber: 8.1 Consensus size: 43
47919045 CCGGCATTAT
*
47919055 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
47919098 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
47919141 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
47919184 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
47919227 GCCTGATAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
47919270 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
47919313 GCCTTCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
47919356 GCCTGCTAGGCACGAAGGCCCAAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
47919399 GCCTGC
1 GCCTGC
47919405 GGGATTTAAC
Statistics
Matches: 292, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 292 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:47924260 original size:32 final size:30
Alignment explanation
Indices: 47924213--47924300 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 30
47924203 TTTACATCTC
*
47924213 AAAAAAATTATATATATAAAAGTTAAAAAAGTT
1 AAAAAAATTA-ATATATAAAAATT-AAAAA-TT
*
47924246 AAAAAAATTAATATATAAAAAATTATAAATT
1 AAAAAAATTAATATAT-AAAAATTAAAAATT
*
47924277 ATAAAAATTTAATATATAAAAATT
1 A-AAAAAATTAATATATAAAAATT
47924301 TTAAAAACTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 10 0.20
32 24 0.48
33 16 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAAAAATTAATATATAAAAATTAAAAATT
Found at i:47924267 original size:15 final size:15
Alignment explanation
Indices: 47924247--47924298 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
47924237 AAAAAAGTTA
47924247 AAAAAATTAATATAT
1 AAAAAATTAATATAT
*
47924262 AAAAAATTATAAATTAT
1 AAAAAATTA-ATA-TAT
*
47924279 AAAAATTTAATATAT
1 AAAAAATTAATATAT
47924294 AAAAA
1 AAAAA
47924299 TTTTAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 17 0.53
16 4 0.12
17 11 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAATTAATATAT
Found at i:47924299 original size:15 final size:15
Alignment explanation
Indices: 47924247--47924301 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 15
47924237 AAAAAAGTTA
*
47924247 AAAAAATTAATATAT
1 AAAAATTTAATATAT
47924262 AAAAAATTATAA-ATTAT
1 -AAAAATT-TAATA-TAT
47924279 AAAAATTTAATATAT
1 AAAAATTTAATATAT
47924294 AAAAATTT
1 AAAAATTT
47924302 TAAAAACTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 14 0.40
16 15 0.43
17 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATTTAATATAT
Found at i:47926242 original size:39 final size:40
Alignment explanation
Indices: 47926197--47926307 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
47926187 CGGGGTTTAG
* * *
47926197 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
47926236 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
47926276 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
47926308 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:47926347 original size:41 final size:41
Alignment explanation
Indices: 47926220--47926364 Score: 190
Period size: 40 Copynumber: 3.6 Consensus size: 41
47926210 CTCGCACAAG
* * * *
47926220 GCCTTCGGG-TCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
47926260 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
47926300 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGATCTTAGCCCGGATATAGTCGC-TAGCACAAAT
47926341 GCCTTCGGGAT-TTAGCCCGGATAT
1 GCCTTCGGGATCTTAGCCCGGATAT
47926365 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 26 0.28
42 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:47926356 original size:81 final size:79
Alignment explanation
Indices: 47926184--47926364 Score: 202
Period size: 81 Copynumber: 2.3 Consensus size: 79
47926174 AATCAAGCAT
* * * *
47926184 CTTCGGGGTTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAACCCGGATATGGTC
1 CTTCGGGATTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAACCCGGATATAGTC
* *
47926248 ACTAGCATAAATGC
66 ACTAGCACAAAAGC
* ** * * ** *
47926262 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGTCCGGATGTAGT
1 CTTCGGGATTTAGCCCGGATATAACCACTAGCAC-AAGGCCTTCGGATCTTAACCCGGATATAGT
*
47926327 CGCTTAGCACAAAAGC
65 CAC-TAGCACAAAAGC
47926343 CTTCGGGATTTAGCCCGGATAT
1 CTTCGGGATTTAGCCCGGATAT
47926365 CATTCGAGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
78 11 0.13
79 16 0.19
80 26 0.31
81 31 0.37
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (79 bp):
CTTCGGGATTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAACCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:47932427 original size:41 final size:41
Alignment explanation
Indices: 47932368--47932447 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 41
47932358 GGGTTATGTG
* *
47932368 TGATTTCGTGTAAGACCA-TATCGGGATATGGCATCGATATT
1 TGATTTCATGTAAAACCATTAT-GGGATATGGCATCGATATT
47932409 TGATTTCATGTAAAACCATTTATGGGATATGGCATCGAT
1 TGATTTCATGTAAAACCA-TTATGGGATATGGCATCGAT
47932448 TCGAGATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 16 0.46
42 16 0.46
43 3 0.09
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (41 bp):
TGATTTCATGTAAAACCATTATGGGATATGGCATCGATATT
Found at i:47932463 original size:42 final size:41
Alignment explanation
Indices: 47932373--47932463 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
47932363 ATGTGTGATT
* ** *
47932373 TCGTGTAAGACCATATCGGGATATGGCATCGATATTTGATT
1 TCGTGTAAAACCATATCGGGATATGGCATCGATATGAGATA
*
47932414 TCATGTAAAACCATTTAT-GGGATATGGCATCGAT-TCGAGATA
1 TCGTGTAAAACCA--TATCGGGATATGGCATCGATAT-GAGATA
47932456 TCGTGTAA
1 TCGTGTAA
47932464 GACTATAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
41 12 0.29
42 26 0.63
43 3 0.07
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (41 bp):
TCGTGTAAAACCATATCGGGATATGGCATCGATATGAGATA
Found at i:47932525 original size:87 final size:83
Alignment explanation
Indices: 47932373--47932530 Score: 190
Period size: 87 Copynumber: 1.9 Consensus size: 83
47932363 ATGTGTGATT
* * ** * *
47932373 TCGTGTAAGACCATATCGGGATATGGCATCGATATTTGATTTCATGTAAAACCATTTATGGGATA
1 TCGTGTAAGACCATAGCGGGATATGACATCGATATTTGATCCCATGTAAAACCATATATGAGATA
47932438 TGGCATCGATTCGAGATA
66 TGGCATCGATTCGAGATA
* * * *
47932456 TCGTGTAAGACTATAGCTGGGCTATCGACATCGATATATGTGATCCCATGTAAGACCATATCTGA
1 TCGTGTAAGACCATAGC-GGGATAT-GACATCGATAT-T-TGATCCCATGTAAAACCATATATGA
47932521 GATATGGCAT
62 GATATGGCAT
47932531 TGGCATCTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
83 15 0.25
84 6 0.10
85 10 0.16
86 1 0.02
87 29 0.48
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (83 bp):
TCGTGTAAGACCATAGCGGGATATGACATCGATATTTGATCCCATGTAAAACCATATATGAGATA
TGGCATCGATTCGAGATA
Found at i:47936429 original size:18 final size:18
Alignment explanation
Indices: 47936406--47936444 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47936396 ATTTGTCAAT
47936406 AACTTTGGTTGTTAAAAA
1 AACTTTGGTTGTTAAAAA
* *
47936424 AACTTTTGTTGTTAAATA
1 AACTTTGGTTGTTAAAAA
47936442 AAC
1 AAC
47936445 ATATGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (18 bp):
AACTTTGGTTGTTAAAAA
Found at i:47936451 original size:18 final size:18
Alignment explanation
Indices: 47936413--47936451 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47936403 AATAACTTTG
* *
47936413 GTTGTTAAAAAAACTTTT
1 GTTGTTAAAAAAACATAT
*
47936431 GTTGTTAAATAAACATAT
1 GTTGTTAAAAAAACATAT
47936449 GTT
1 GTT
47936452 TGGTTGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (18 bp):
GTTGTTAAAAAAACATAT
Found at i:47940231 original size:26 final size:27
Alignment explanation
Indices: 47940180--47940231 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
47940170 TAACTTTTTT
* *
47940180 TAAATTTTTAATTTTTCATAATTATTA
1 TAAATTTTTAATTTTTCAAAAATATTA
*
47940207 TAAA-TTTTAATTTTTTAAAAATATT
1 TAAATTTTTAATTTTTCAAAAATATT
47940232 TTGGATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TAAATTTTTAATTTTTCAAAAATATTA
Found at i:47945284 original size:20 final size:20
Alignment explanation
Indices: 47945242--47945302 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
47945232 GCTACCATCA
* * **
47945242 GTGCCTCTGTTTGCACTTTG
1 GTGCCTTTGTTTACACTACG
47945262 GTGCCTTTGTTTACACTACG
1 GTGCCTTTGTTTACACTACG
*
47945282 GTGCCTTTGTATAGCACTACG
1 GTGCCTTTGTTTA-CACTACG
47945303 ATGCTTTCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 28 0.80
21 7 0.20
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (20 bp):
GTGCCTTTGTTTACACTACG
Found at i:47946975 original size:43 final size:42
Alignment explanation
Indices: 47946884--47946989 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
47946874 AATTAACTCA
* * *
47946884 TATGAGTTTCAGTTTAACCCTATTGGATTTCTGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTATTGGATTTCCGTTCAGCTCT
* *
47946926 TTTGAGCTTCAGTTTAACCATTATTAGG-TTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACC-CTATT-GGATTTCCGTTCAGCTCT
*
47946969 TATGAGCTTCCGTTTAACCCT
1 TATGAGCTTCAGTTTAACCCT
47946990 TGTGGGTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 18 0.33
43 34 0.63
44 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTATTGGATTTCCGTTCAGCTCT
Found at i:47947013 original size:42 final size:41
Alignment explanation
Indices: 47946884--47947020 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
47946874 AATTAACTCA
* *
47946884 TATGAGTTTCAGTTTAACCCTATTGGATTTCTGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCT-TTGGGTTTCTGTTTAGCTCT
* * * * *
47946926 TTTGAGCTTCAGTTTAACCATTATTAGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACC-CT-TTGGGTTTCTGTTTAGCTCT
* * *
47946969 TATGAGCTTCCGTTTAACCCTTGTGGGTTTCTATTTAGCACT
1 TATGAGCTTCAGTTTAACCCTT-TGGGTTTCTGTTTAGCTCT
*
47947011 TATGTGCTTC
1 TATGAGCTTC
47947021 TGTGTAGCCT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 41 0.53
43 35 0.45
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (41 bp):
TATGAGCTTCAGTTTAACCCTTTGGGTTTCTGTTTAGCTCT
Found at i:47951953 original size:47 final size:47
Alignment explanation
Indices: 47951882--47952240 Score: 556
Period size: 47 Copynumber: 7.6 Consensus size: 47
47951872 GATAATTGTG
* *
47951882 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
47951929 ACGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47951976 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47952025 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47952074 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47952121 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
47952168 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47952215 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
47952241 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
47 195 0.67
49 95 0.33
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47954521 original size:40 final size:40
Alignment explanation
Indices: 47954462--47954901 Score: 614
Period size: 40 Copynumber: 11.1 Consensus size: 40
47954452 AGGTCTCGAC
*
47954462 GATG-ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
47954501 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
47954541 GATGTACCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
47954581 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
47954621 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
47954661 GATGTAT-CGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * **
47954700 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
47954740 GATGTATTCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
47954780 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
47954820 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
47954860 GTTATATCCGGGCTAGGTCCCGAAGAGAAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
47954900 GA
1 GA
47954902 CGTGTATTCG
Statistics
Matches: 355, Mismatches: 44, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 40 0.11
40 315 0.89
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:47958307 original size:49 final size:47
Alignment explanation
Indices: 47958247--47958395 Score: 271
Period size: 47 Copynumber: 3.1 Consensus size: 47
47958237 GATAATTGTG
47958247 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47958294 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47958343 ATGTGAATGTATATATATGTGATAAGGCCTAGTGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47958390 ATGTGA
1 ATGTGA
47958396 GGCCTAATGG
Statistics
Matches: 99, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
47 50 0.51
48 4 0.04
49 45 0.45
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (47 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47958401 original size:75 final size:77
Alignment explanation
Indices: 47958320--47958472 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
47958310 ATATGTGATA
*
47958320 AGGCCTAATGGCCGATGTGATGAATGTG-AA-TGTATATATATGTGATAAGGCCTAGTGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
47958383 GTGATGAATGTG
66 GTGATGAATGTG
47958395 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
47958460 GTGATGAATGTG
66 GTGATGAATGTG
47958472 A
1 A
47958473 AAGTGTATAT
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 28 0.37
76 2 0.03
77 45 0.60
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.29
Consensus pattern (77 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTG
Found at i:47958406 original size:28 final size:28
Alignment explanation
Indices: 47958367--47958423 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
47958357 ATATGTGATA
*
47958367 AGGCCTAGTGGCCGATGTGATGAATGTG
1 AGGCCTAATGGCCGATGTGATGAATGTG
47958395 AGGCCTAATGGCCGATGTGATGAATGTG
1 AGGCCTAATGGCCGATGTGATGAATGTG
47958423 A
1 A
47958424 AAGTGTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.37, T:0.25
Consensus pattern (28 bp):
AGGCCTAATGGCCGATGTGATGAATGTG
Found at i:47958406 original size:124 final size:124
Alignment explanation
Indices: 47958271--47958519 Score: 462
Period size: 124 Copynumber: 2.0 Consensus size: 124
47958261 ATATGTGATA
47958271 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
* * *
47958336 GTGATGAATGTGAATGTATATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
47958395 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
*
47958460 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
47958519 A
1 A
47958520 AAGTGTATAT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (124 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
Found at i:47958505 original size:47 final size:47
Alignment explanation
Indices: 47958395--47958633 Score: 370
Period size: 47 Copynumber: 5.0 Consensus size: 47
47958385 GATGAATGTG
47958395 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA
47958444 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* *
47958491 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATG
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
47958538 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * * * * * *
47958585 GGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
47958632 AG
1 AG
47958634 TCCCGAAGGG
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 142 0.81
49 34 0.19
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
Found at i:47964124 original size:23 final size:23
Alignment explanation
Indices: 47964059--47964124 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
47964049 CATTAATTAG
*
47964059 GAAGCTCACAAAGAG-CATAACGA
1 GAAGCTTAC-AAGAGCCATAACGA
* *
47964082 GAAGCTTAC--GGGCTATATAACGA
1 GAAGCTTACAAGAGC--CATAACGA
47964105 GAAGCTTACAAGAGCCATAA
1 GAAGCTTACAAGAGCCATAA
47964125 TCGAAAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.06
23 28 0.85
25 3 0.09
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (23 bp):
GAAGCTTACAAGAGCCATAACGA
Found at i:47964163 original size:26 final size:25
Alignment explanation
Indices: 47964134--47964186 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
47964124 ATCGAAAAGT
*
47964134 TCACAAAAAACTTTTAATCAGGAAGC
1 TCACAAAAAACCTTTAATCAGG-AGC
* * *
47964160 TCACGAAGAGCCTTTAATCAGGAGC
1 TCACAAAAAACCTTTAATCAGGAGC
47964185 TC
1 TC
47964187 CGGATAGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (25 bp):
TCACAAAAAACCTTTAATCAGGAGC
Found at i:47965317 original size:19 final size:18
Alignment explanation
Indices: 47965286--47965321 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47965276 ATATGATGAT
*
47965286 ATTTTTATTTTTTTTATC
1 ATTTTTATCTTTTTTATC
47965304 ATTTTTCATCTTTTTTAT
1 ATTTTT-ATCTTTTTTAT
47965322 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTATCTTTTTTATC
Found at i:47965319 original size:21 final size:21
Alignment explanation
Indices: 47965293--47965332 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47965283 GATATTTTTA
*
47965293 TTTTTT-TTATCATTTTTCATC
1 TTTTTTATT-TCACTTTTCATC
47965314 TTTTTTATTTCACTTTTCA
1 TTTTTTATTTCACTTTTCA
47965333 ATTTCATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTATTTCACTTTTCATC
Found at i:47967064 original size:16 final size:17
Alignment explanation
Indices: 47967043--47967075 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47967033 CCCCAGAGTG
47967043 TATTCTG-ATGTTTGAT
1 TATTCTGTATGTTTGAT
47967059 TATTCTGTATGTTTGAT
1 TATTCTGTATGTTTGAT
47967076 ATCTGTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.58
Consensus pattern (17 bp):
TATTCTGTATGTTTGAT
Found at i:47967698 original size:22 final size:22
Alignment explanation
Indices: 47967673--47967726 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
47967663 CTGTAAGTTT
* * **
47967673 TCTGAAACTCTGTTTAGAATTG
1 TCTGAAACTATGATTAGAATAC
*
47967695 TCTGAAAATATGATTAGAATAC
1 TCTGAAACTATGATTAGAATAC
47967717 TCTGAAACTA
1 TCTGAAACTA
47967727 CTTTAGGTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
TCTGAAACTATGATTAGAATAC
Found at i:47971383 original size:40 final size:40
Alignment explanation
Indices: 47971346--47971530 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
47971336 GCTACTCGTT
*
47971346 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
47971386 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
47971426 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47971465 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47971506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47971531 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47971463 original size:79 final size:81
Alignment explanation
Indices: 47971346--47971528 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
47971336 GCTACTCGTT
* ** *
47971346 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
47971410 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
47971426 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
47971489 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
47971506 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
47971529 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 32 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:48009519 original size:42 final size:41
Alignment explanation
Indices: 48009472--48009626 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 41
48009462 TTGAGACTAT
* *
48009472 GTGTAAGACCATATCTGGGATATGGCATCAATGTGAAACTTC
1 GTGTAAGACCATATCTAGGATATGGCATCGATGTGAAA-TTC
* * * * *
48009514 GTGTAAGACCATGTCTAGGATATGGTATCGATATGAGATTTT
1 GTGTAAGACCATATCTAGGATATGGCATCGATGTGA-AATTC
* * * * * *
48009556 GTCTAAGACAATAGCTAGGCTATTGGCATCGATGCGAAATCCC
1 GTGTAAGACCATATCTAGGATA-TGGCATCGATGTGAAAT-TC
* * *
48009599 ATGTAAGACCACATCTGGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
48009627 TGGTATGATA
Statistics
Matches: 85, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
42 58 0.68
43 27 0.32
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATATCTAGGATATGGCATCGATGTGAAATTC
Found at i:48032514 original size:40 final size:40
Alignment explanation
Indices: 48032455--48032706 Score: 312
Period size: 40 Copynumber: 6.3 Consensus size: 40
48032445 CATTTGAATG
*
48032455 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
48032495 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
48032535 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
48032575 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
48032615 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * * *
48032655 ATACCCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
48032695 ATATCC-GGCTAA
1 ATATCCGGGCTAA
48032707 ATTCCGAAGA
Statistics
Matches: 190, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 7 0.04
40 180 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:48040952 original size:40 final size:40
Alignment explanation
Indices: 48040893--48041144 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
48040883 CATTTGAATG
*
48040893 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
48040933 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
48040973 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
48041013 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
48041053 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
48041093 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
48041133 ATATCC-GGCTAA
1 ATATCCGGGCTAA
48041145 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:48050727 original size:20 final size:20
Alignment explanation
Indices: 48050702--48050748 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
48050692 ATGGGATATC
48050702 CATCGAGGTTTCGAGAAATT
1 CATCGAGGTTTCGAGAAATT
48050722 CATCGAGGTTTCGAGAAATT
1 CATCGAGGTTTCGAGAAATT
*
48050742 CAACGAG
1 CATCGAG
48050749 ATTAATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (20 bp):
CATCGAGGTTTCGAGAAATT
Found at i:48051850 original size:37 final size:37
Alignment explanation
Indices: 48051800--48051873 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
48051790 GATCAATGCC
*
48051800 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
48051837 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
48051874 TGACTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:48053827 original size:15 final size:15
Alignment explanation
Indices: 48053807--48053844 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
48053797 GATATGGTAT
48053807 CTTGGATTTCTTTAC
1 CTTGGATTTCTTTAC
* *
48053822 CTTGGATATCTTTAT
1 CTTGGATTTCTTTAC
48053837 CTTGGATT
1 CTTGGATT
48053845 CCTCTGTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (15 bp):
CTTGGATTTCTTTAC
Found at i:48076875 original size:30 final size:30
Alignment explanation
Indices: 48076831--48076919 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
48076821 CAAAGATAAT
*
48076831 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
* *
48076860 GAGAAACCCAGAATAAAGAAAACC-AGAATA
1 AAGAAAACCAGAATAAAGAAAACCAAG-ATA
* * * *
48076890 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
48076920 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAAACCAAGATA
Found at i:48076879 original size:15 final size:15
Alignment explanation
Indices: 48076831--48076910 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48076821 CAAAGATAAT
48076831 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
48076845 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
* *
48076860 GAGAAACCCAGAATA
1 AAGAAAACCAGAATA
48076875 AAGAAAACCAGAATA
1 AAGAAAACCAGAATA
* * *
48076890 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
48076905 AAGAAA
1 AAGAAA
48076911 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:48076919 original size:15 final size:15
Alignment explanation
Indices: 48076842--48076919 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
48076832 AGAAAACCGA
*
48076842 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
48076857 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
*
48076871 AATAAAGAAAACC-AG
1 -ATAAAGAAACCCAAG
* * *
48076886 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
48076902 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
48076917 ATA
1 ATA
48076920 CGATACTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
14 2 0.04
15 48 0.94
16 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:48080040 original size:46 final size:46
Alignment explanation
Indices: 48079872--48080047 Score: 146
Period size: 46 Copynumber: 3.8 Consensus size: 46
48079862 TGTAACCCGC
* * * *
48079872 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
48079918 CCATAAGTGAACTC-GAACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCAG-ACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* * * *
48079968 CTC-T---CGAATTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
48080011 CCATAGGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
48080048 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 2 0.02
45 1 0.01
46 59 0.57
47 23 0.22
48 1 0.01
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:48082479 original size:16 final size:16
Alignment explanation
Indices: 48082452--48082498 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
48082442 GGAAAGAAAT
48082452 AAAGAA-AAGAGAAGG
1 AAAGAAGAAGAGAAGG
*
48082467 AAAGAAGAAGAGAGGG
1 AAAGAAGAAGAGAAGG
*
48082483 AAAGCAAGGAGAGAAG
1 AAAG-AAGAAGAGAAG
48082499 CTAGGTGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAGAAGG
Found at i:48082761 original size:18 final size:19
Alignment explanation
Indices: 48082738--48082774 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48082728 GTTGTTCGCT
48082738 TATCCC-ACGCCCGTGTGG
1 TATCCCAACGCCCGTGTGG
48082756 TATCCCAAACGCCCGTGTG
1 TATCCC-AACGCCCGTGTG
48082775 TACGAACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.38, G:0.24, T:0.22
Consensus pattern (19 bp):
TATCCCAACGCCCGTGTGG
Found at i:48087436 original size:28 final size:24
Alignment explanation
Indices: 48087383--48087431 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
48087373 AGTAAACCAC
48087383 AAGTAATCATATATTGAGAGTCTA
1 AAGTAATCATATATTGAGAGTCTA
*
48087407 AAGTAATCATATATTGAGGGTCTA
1 AAGTAATCATATATTGAGAGTCTA
48087431 A
1 A
48087432 CTAAAAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
AAGTAATCATATATTGAGAGTCTA
Found at i:48090875 original size:10 final size:10
Alignment explanation
Indices: 48090860--48090891 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
48090850 ACAGAAAAGG
48090860 GGGAAAGAAA
1 GGGAAAGAAA
48090870 GGGAAAGAAA
1 GGGAAAGAAA
48090880 GAGGAAAGAAA
1 G-GGAAAGAAA
48090891 G
1 G
48090892 AAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (10 bp):
GGGAAAGAAA
Found at i:48090879 original size:4 final size:4
Alignment explanation
Indices: 48090862--48090926 Score: 51
Period size: 4 Copynumber: 14.8 Consensus size: 4
48090852 AGAAAAGGGG
*
48090862 GAAA GAAA GGGAAA GAAA G-AG GAAA GAAA GAAA GAAAA GAGAA GAAA
1 GAAA GAAA --GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GA-AA GAAA
48090909 GAAATA GAAA GGAAA GAA
1 G-AA-A GAAA -GAAA GAA
48090927 GAAGAGAGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 2 0.04
4 27 0.53
5 16 0.31
6 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:48090887 original size:11 final size:11
Alignment explanation
Indices: 48090861--48090892 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
48090851 CAGAAAAGGG
48090861 GGAAAGAAAG-
1 GGAAAGAAAGA
48090871 GGAAAGAAAGA
1 GGAAAGAAAGA
48090882 GGAAAGAAAGA
1 GGAAAGAAAGA
48090893 AAGAAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
GGAAAGAAAGA
Found at i:48090892 original size:15 final size:13
Alignment explanation
Indices: 48090862--48090931 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 13
48090852 AGAAAAGGGG
*
48090862 GAAAGAAAGGGAAA
1 GAAAGAAA-AGAAA
48090876 GAAAGAGGAAAGAAA
1 GAAAGA--AAAGAAA
48090891 GAAAGAAAAGAGAA
1 GAAAGAAAAGA-AA
48090905 GAAAGAAATAGAAA
1 GAAAGAAA-AGAAA
48090919 GGAAAGAAGAAGA
1 -GAAAGAA-AAGA
48090932 GAGGGAGAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
13 5 0.10
14 18 0.37
15 23 0.47
16 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:48090908 original size:18 final size:19
Alignment explanation
Indices: 48090861--48090926 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
48090851 CAGAAAAGGG
48090861 GGAAAGAAAGGGAAAGAAAGA
1 GGAAAGAAA--GAAAGAAAGA
48090882 GGAAAGAAAGAAAGAAA-A
1 GGAAAGAAAGAAAGAAAGA
*
48090900 -GAGAAGAAAGAAATAGAA-A
1 GGA-AAGAAAGAAAGA-AAGA
48090919 GGAAAGAA
1 GGAAAGAA
48090927 GAAGAGAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.05
18 12 0.29
19 16 0.39
20 2 0.05
21 9 0.22
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (19 bp):
GGAAAGAAAGAAAGAAAGA
Found at i:48091405 original size:15 final size:16
Alignment explanation
Indices: 48091379--48091408 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48091369 ATGAACCCTC
48091379 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
48091395 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
48091409 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:48105977 original size:40 final size:40
Alignment explanation
Indices: 48105920--48106096 Score: 250
Period size: 40 Copynumber: 4.5 Consensus size: 40
48105910 CGGATGATAA
*
48105920 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
**
48105960 CCGGGCTAAGACGTGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
48106000 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTCCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
48106040 CCGGGCTAGGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
48106080 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
48106097 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 112 0.90
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:48109930 original size:46 final size:46
Alignment explanation
Indices: 48109880--48110008 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
48109870 TGGTTGAGCA
*
48109880 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
48109926 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
48109972 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48110009 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:48111367 original size:40 final size:40
Alignment explanation
Indices: 48111312--48111511 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
48111302 GGGCGTTATA
*
48111312 GCATTTGTGCGAGTTACTATATCAGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
48111352 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
* *
48111392 GCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCTCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
* *
48111432 GCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAG
1 GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
* * * * *
48111472 GCATTCGAGCAAG-TAGCTATATCC-GGTTAAATCCCGAAG
1 GCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAG
48111511 G
1 G
48111512 TACTTGGCTT
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.10
40 131 0.90
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
Found at i:48119542 original size:40 final size:40
Alignment explanation
Indices: 48119487--48119744 Score: 403
Period size: 40 Copynumber: 6.5 Consensus size: 40
48119477 TGGATGATAA
48119487 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48119527 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48119567 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48119607 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48119647 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
48119687 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48119727 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48119745 TACTTGGCTT
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 15 0.07
40 188 0.93
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48128114 original size:40 final size:39
Alignment explanation
Indices: 48128052--48128189 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 39
48128042 TATTCGATTG
* *
48128052 ATAATCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACT
* *
48128090 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACT
*
48128130 ATAACCGGGCTAAGTCCCGAATGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACT
48128170 ATAACC-GGCTAAGTCCGAAG
1 ATAACCGGGCTAAGTCCGAAG
48128190 CATTTGAGCG
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 17 0.19
39 8 0.09
40 65 0.72
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCGAAGGCAATTGTGCGAGTTACT
Found at i:48131425 original size:33 final size:35
Alignment explanation
Indices: 48131353--48131425 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
48131343 GATTACAAGT
*
48131353 AATTTTTTTTAATTTCAAAATATCACATTGAGGAT
1 AATTTTTTTTAATTTCAAAATATCACATTGAGGAA
48131388 AATTTTTTTTAATTTCAAAATATCACATT-A-GAA
1 AATTTTTTTTAATTTCAAAATATCACATTGAGGAA
48131421 AATTT
1 AATTT
48131426 AATAAAGTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
33 7 0.19
34 1 0.03
35 29 0.78
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (35 bp):
AATTTTTTTTAATTTCAAAATATCACATTGAGGAA
Found at i:48134897 original size:47 final size:47
Alignment explanation
Indices: 48134828--48134964 Score: 247
Period size: 47 Copynumber: 2.9 Consensus size: 47
48134818 CTATGCAATG
*
48134828 CTAAACTTGGTTTTCCACTATCTACACTCTTTCACTATTTATATTTT
1 CTAAACTTGGTCTTCCACTATCTACACTCTTTCACTATTTATATTTT
48134875 CTAAACTTGGTCTTCCACTATCTACACTCTTTCACTATTTATATTTT
1 CTAAACTTGGTCTTCCACTATCTACACTCTTTCACTATTTATATTTT
*
48134922 CTAAACTTGGTCTTCCACTATCTACAATCTTATCACTATTTAT
1 CTAAACTTGGTCTTCCACTATCTACACTCTT-TCACTATTTAT
48134965 TCCCTCTTGA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
47 76 0.87
48 11 0.13
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (47 bp):
CTAAACTTGGTCTTCCACTATCTACACTCTTTCACTATTTATATTTT
Found at i:48136331 original size:20 final size:19
Alignment explanation
Indices: 48136306--48136349 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
48136296 CATTTCAAGA
48136306 TTCATATCTCATTTCATCAT
1 TTCATATCTCATTTC-TCAT
48136326 TTCATATCTCATTTCTCAT
1 TTCATATCTCATTTCTCAT
*
48136345 CTCAT
1 TTCAT
48136350 GTTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCATATCTCATTTCTCAT
Found at i:48151587 original size:39 final size:39
Alignment explanation
Indices: 48151493--48151832 Score: 485
Period size: 39 Copynumber: 8.6 Consensus size: 39
48151483 TTGAATGATG
*
48151493 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48151531 ATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
48151572 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
48151611 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
48151650 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
48151689 TCCGGGCTAAGCCAGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48151728 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
48151767 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
48151806 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
48151833 AATGAGGAGC
Statistics
Matches: 280, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
39 210 0.75
40 58 0.21
41 11 0.04
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48159679 original size:39 final size:39
Alignment explanation
Indices: 48159636--48159843 Score: 289
Period size: 39 Copynumber: 5.3 Consensus size: 39
48159626 GGACTAAGAT
48159636 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
48159675 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
48159714 CCGAAGGCATTTGTGCGAGATACTAATT-CGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
48159752 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
48159792 CCGAAGGCATTTGTACGA-ATTACT-ATAACC-GGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
48159831 CCGAAGGCATTTG
1 CCGAAGGCATTTG
48159844 AATGAGGAGC
Statistics
Matches: 154, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 36 0.23
39 94 0.61
40 24 0.16
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:48162334 original size:28 final size:27
Alignment explanation
Indices: 48162293--48162354 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
48162283 TTCGAAATAT
48162293 AAAAAAAATCAAAAAAAACTGAA-ATG
1 AAAAAAAATCAAAAAAAACTGAAGATG
** *
48162319 AAAAAAAATTCGAAAAAATTCTGAAGTTG
1 AAAAAAAA-TC-AAAAAAAACTGAAGATG
48162348 AAAAAAA
1 AAAAAAA
48162355 CAAGTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.27
27 2 0.07
28 11 0.37
29 9 0.30
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (27 bp):
AAAAAAAATCAAAAAAAACTGAAGATG
Found at i:48164930 original size:29 final size:29
Alignment explanation
Indices: 48164898--48164993 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
48164888 AACTCTACAT
* *
48164898 ACATGCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
48164927 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
48164956 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48164985 ACATTCATA
1 ACATTCATA
48164994 CATGCTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48169646 original size:46 final size:44
Alignment explanation
Indices: 48169579--48169744 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 44
48169569 CGCCCTTAAG
*
48169579 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATA-A
* * *
48169625 TGAACTCGGACTCAACTCAACGAGTTAGGATGCCTAGTTACAT-C-TCA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAA
* * * *
48169672 CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAA
48169717 GTGAACTCGGACTCAACTCAACGAGTTC
1 -TGAACTCGGACTCAACTCAACGAGTTC
48169745 AGATGCTCAA
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 52 0.53
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAA
Found at i:48169766 original size:46 final size:45
Alignment explanation
Indices: 48169577--48169766 Score: 99
Period size: 46 Copynumber: 4.1 Consensus size: 45
48169567 CCCGCCCTTA
* * ** * *
48169577 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-C-T
48169622 AGATGAACTCGGACTCAACTCAACGAGTT-AGGATGC-CTAGTTA-CATCT
1 AG-TGAACTCGGACTCAACTCAACGAGTTCA-GATGCTC-A---ACCATCT
* * * * * *
48169670 CA-CGAACTCGAACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCT
48169716 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CT
48169762 AGTGA
1 AGTGA
48169767 CATGTCACTT
Statistics
Matches: 109, Mismatches: 17, Indels: 37
0.67 0.10 0.23
Matches are distributed among these distances:
44 9 0.08
45 5 0.05
46 57 0.52
47 27 0.25
48 1 0.01
49 5 0.05
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCT
Found at i:48171693 original size:29 final size:29
Alignment explanation
Indices: 48171660--48171761 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
48171650 TGAATGTGAC
*
48171660 TGGGCCTAACGGGCCATATAAATATGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* **
48171689 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* * *
48171718 TAGGCCTAATGGCCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
*
48171746 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
48171762 GATACAAGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 14 0.23
29 46 0.77
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:48174070 original size:79 final size:80
Alignment explanation
Indices: 48173928--48174110 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
48173918 TACTCGTTCA
* *
48173928 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
48173993 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
48174008 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
48174070 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
48174087 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
48174111 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 58 0.66
80 26 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:48174110 original size:40 final size:40
Alignment explanation
Indices: 48173907--48174110 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
48173897 CGGAATTTAA
** *
48173907 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48173947 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48173987 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48174026 CTGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48174066 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48174106 CCGGA
1 CCGGA
48174111 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48175305 original size:56 final size:56
Alignment explanation
Indices: 48175238--48175413 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
48175228 TATTAGTTTA
48175238 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
48175294 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
48175350 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
48175406 TTGCCCAT
1 TTGCCCAT
48175414 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:48181612 original size:16 final size:16
Alignment explanation
Indices: 48181593--48181627 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48181583 CGAAAAGTCG
*
48181593 AAATACTAAAAAGCTA
1 AAATACCAAAAAGCTA
48181609 AAATACCAAAAAGCTA
1 AAATACCAAAAAGCTA
48181625 AAA
1 AAA
48181628 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (16 bp):
AAATACCAAAAAGCTA
Done.