Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 67 of 313
Found at i:22680875 original size:30 final size:30
Alignment explanation
Indices: 22680839--22680898 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
22680829 ACAAAAGAGA
*
22680839 ACAATTTTCTTTAACAATACCCAATACCCC
1 ACAATTTTCTTCAACAATACCCAATACCCC
22680869 ACAATTTTCTTCAACAATACCCAATACCCC
1 ACAATTTTCTTCAACAATACCCAATACCCC
22680899 CAAAGAGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (30 bp):
ACAATTTTCTTCAACAATACCCAATACCCC
Found at i:22681858 original size:10 final size:10
Alignment explanation
Indices: 22681843--22681903 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
22681833 CTGATTAGAC
22681843 TAAAAAATTA
1 TAAAAAATTA
22681853 TAAAAAA-TA
1 TAAAAAATTA
** *
22681862 TTTTAAAATTG
1 -TAAAAAATTA
22681873 TAAAAAAGTTA
1 TAAAAAA-TTA
*
22681884 TTAAAAATTA
1 TAAAAAATTA
*
22681894 TAAAACATTA
1 TAAAAAATTA
22681904 AAATATGTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
9 2 0.05
10 28 0.72
11 9 0.23
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:22681871 original size:20 final size:21
Alignment explanation
Indices: 22681845--22681898 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
22681835 GATTAGACTA
22681845 AAAAATTATAAAAAA--TATTT
1 AAAAATTATAAAAAAGTTA-TT
* *
22681865 TAAAATTGTAAAAAAGTTATT
1 AAAAATTATAAAAAAGTTATT
22681886 AAAAATTATAAAA
1 AAAAATTATAAAA
22681899 CATTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 13 0.46
22 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAATTATAAAAAAGTTATT
Found at i:22682403 original size:31 final size:31
Alignment explanation
Indices: 22682334--22682403 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
22682324 AATTTAAATG
*
22682334 TTTTTTTACAATTTTTATATATTTTTAACTA
1 TTTTTTTACAATTTTTATATATTTTTAACAA
* * * *
22682365 TTCTTTTACGATTTTATTTTTATTTTT-ACAA
1 TTTTTTTACAATTTT-TATATATTTTTAACAA
22682396 TTTTTTTA
1 TTTTTTTA
22682404 TTTGGTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.67
Consensus pattern (31 bp):
TTTTTTTACAATTTTTATATATTTTTAACAA
Found at i:22685927 original size:23 final size:23
Alignment explanation
Indices: 22685886--22685929 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22685876 TGGTTATGTC
*
22685886 AATGTAGTATTTTTGGAAAACAT
1 AATGTAGTATTTTTAGAAAACAT
22685909 AATGTA-TATTTTTCAGAAAAC
1 AATGTAGTATTTTT-AGAAAAC
22685930 TTCCTACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (23 bp):
AATGTAGTATTTTTAGAAAACAT
Found at i:22686043 original size:25 final size:25
Alignment explanation
Indices: 22686013--22686062 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22686003 ATTGTGGACA
22686013 ATGCCACCAAAGTGTAGTTAAACTG
1 ATGCCACCAAAGTGTAGTTAAACTG
*
22686038 ATGCCACCAGAGTGTAGTTAAACTG
1 ATGCCACCAAAGTGTAGTTAAACTG
22686063 CCAGATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
ATGCCACCAAAGTGTAGTTAAACTG
Found at i:22711946 original size:45 final size:45
Alignment explanation
Indices: 22711798--22712007 Score: 195
Period size: 45 Copynumber: 4.8 Consensus size: 45
22711788 TCGAACAATT
* ** * *
22711798 CCAACGTCCCAGACGTGGTCTTACATGCTATCTCATAT-T-GATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATG
* * *
22711841 CC-ACTATCTCAGACAG-GGTCTTACACG-AATCA-A-ATAT-GATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACATATATCGATG
* * * * * * *
22711882 CCTATGT-CCAAACATGGTCTTACTCGTAACCACATATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATG
22711926 CCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATG
*
22711971 CCAATGTCCCAGACGTGGTCTTACACGAAAACACATA
1 CCAACGTCCCAGACGTGGTCTTACACGAAAACACATA
22712008 GCAAAGTCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
40 16 0.12
41 13 0.09
42 7 0.05
43 23 0.17
44 10 0.07
45 68 0.50
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (45 bp):
CCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGATG
Found at i:22721579 original size:19 final size:18
Alignment explanation
Indices: 22721555--22721624 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 18
22721545 TTTTAAATTT
22721555 TTATGTATATTATGTACTG
1 TTATGTATATTATGTA-TG
22721574 TTATG-----TATGTATG
1 TTATGTATATTATGTATG
* *
22721587 TTATGTATGTTATGTGTTG
1 TTATGTATATTATGT-ATG
*
22721606 TTATGCATATTATGTATG
1 TTATGTATATTATGTATG
22721624 T
1 T
22721625 ATACTTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
13 7 0.17
14 6 0.15
18 8 0.20
19 20 0.49
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.54
Consensus pattern (18 bp):
TTATGTATATTATGTATG
Found at i:22721592 original size:32 final size:32
Alignment explanation
Indices: 22721555--22721627 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
22721545 TTTTAAATTT
22721555 TTATGTATATTATGTACTGTTATG-TATGTATG
1 TTATGTATATTATGTACTGTTATGATAT-TATG
* **
22721587 TTATGTATGTTATGTGTTGTTATGCATATTATG
1 TTATGTATATTATGTACTGTTATG-ATATTATG
22721620 -TATGTATA
1 TTATGTATA
22721628 CTTGTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 28 0.80
33 4 0.11
34 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (32 bp):
TTATGTATATTATGTACTGTTATGATATTATG
Found at i:22727206 original size:49 final size:48
Alignment explanation
Indices: 22727149--22727277 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 48
22727139 GATGTGTCTG
*
22727149 TGTAAGACCAT-TTTGGGACATGGCATCGGCATGGATATGTGA-GAGCTAA
1 TGTAAGACCATATTTGGGACATGGCATCGGCATGG--ATG-GATGAGCCAA
* * * *
22727198 TGTAAGACCATGTTTGGGACATGGCATCGAC-TTGATGGATGAGCCAG
1 TGTAAGACCATATTTGGGACATGGCATCGGCATGGATGGATGAGCCAA
*
22727245 TGTAAGACCATATCTGGGACATGGCATCGGCAT
1 TGTAAGACCATATTTGGGACATGGCATCGGCAT
22727278 TATACCCAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
46 2 0.03
47 36 0.51
48 1 0.01
49 13 0.19
50 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATATTTGGGACATGGCATCGGCATGGATGGATGAGCCAA
Found at i:22730705 original size:56 final size:56
Alignment explanation
Indices: 22730620--22730853 Score: 299
Period size: 56 Copynumber: 4.2 Consensus size: 56
22730610 TCCCAAATAG
* * * * *
22730620 GGTCTTTCTCGTAA-ACACATATCGAAATCACCTATCAATGCCAACATATTAAACAT
1 GGTCTTACTCG-AACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
* * * ** **
22730676 GTTCTTACTCGAATATACATATCGGAATCACATATCGATGGGAACGTATTAAATGT
1 GGTCTTACTCGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
* *
22730732 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
* **
22730788 GGTCTTACTCGAACACACATATTGGAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
22730844 GGTCTTACTC
1 GGTCTTACTC
22730854 ATAATCACAT
Statistics
Matches: 152, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
55 2 0.01
56 150 0.99
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
Found at i:22730794 original size:112 final size:112
Alignment explanation
Indices: 22730620--22730853 Score: 344
Period size: 112 Copynumber: 2.1 Consensus size: 112
22730610 TCCCAAATAG
* * * *
22730620 GGTCTTTCTCGTAAACACATATCGAAATCACCTATCAATGCCAACATATTAAACATGTTCTTACT
1 GGTCTTACTCGCAAACACATATCGAAATCACATATCAATGCCAACATATTAAACATGGTCTTACT
* * **
22730685 CGAATATACATATCGGAATCACATATCGATGGGAACGTATTAAATGT
66 CGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAATGT
* * *
22730732 GGTCTTACTCGCACACACATATC-AGAATCACATATCGATGCCAACGTATTAAACATGGTCTTAC
1 GGTCTTACTCGCAAACACATATCGA-AATCACATATCAATGCCAACATATTAAACATGGTCTTAC
*
22730796 TCGAACACACATATTGGAATCACATATCGATGCCAACGTATTAAATGT
65 TCGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAATGT
22730844 GGTCTTACTC
1 GGTCTTACTC
22730854 ATAATCACAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 108 0.99
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (112 bp):
GGTCTTACTCGCAAACACATATCGAAATCACATATCAATGCCAACATATTAAACATGGTCTTACT
CGAACACACATATCGGAATCACATATCGATGCCAACGTATTAAATGT
Found at i:22730927 original size:43 final size:43
Alignment explanation
Indices: 22730813--22731008 Score: 275
Period size: 43 Copynumber: 4.5 Consensus size: 43
22730803 CACATATTGG
*** * *
22730813 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCAT
1 AATCACATATCGATGCCAACGTCCCAGATGTGGTCTTACACAT
* **
22730856 AATCACATATTCGATGCCAACGTCCCAGACGTGGTCTTACATGT
1 AATCACATA-TCGATGCCAACGTCCCAGATGTGGTCTTACACAT
*
22730900 AATCACATATCGATACCAACGTCCCAGATGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGATGTGGTCTTACACAT
* * *
22730943 AATCACATATCGATGCCAACGTTCTAGATGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGATGTGGTCTTACACAT
22730986 AATCACATATCGATGCCAACGTC
1 AATCACATATCGATGCCAACGTC
22731009 TCATGACATA
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 100 0.74
44 35 0.26
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGATGTGGTCTTACACAT
Found at i:22731190 original size:43 final size:43
Alignment explanation
Indices: 22731129--22731280 Score: 216
Period size: 43 Copynumber: 3.5 Consensus size: 43
22731119 CTACCATTCA
* *
22731129 TGGTCTTACACAG-AATCACATATCGATGCCAACGTACGAGACG
1 TGGTCTTACAC-GTAATCACATATCGATGCCAACGTCCCAGACG
*
22731172 TGGTCTTACACTTAATCACATATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACG
* * * *
22731215 TGATCTTACACGTAATCACATATCGATGCCAACATCCTAGATG
1 TGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACG
*
22731258 TGGTCTTACACGTAATCAGATAT
1 TGGTCTTACACGTAATCACATAT
22731281 AAGAAATCCT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAGACG
Found at i:22731212 original size:285 final size:285
Alignment explanation
Indices: 22730843--22731411 Score: 939
Period size: 285 Copynumber: 2.0 Consensus size: 285
22730833 GTATTAAATG
* * *
22730843 TGGTCTTACTCATAATCACATATTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACAT
1 TGGTCTTACACAGAATCACATATTCGATGCCAACGTACCAGACGTGGTCTTACATGTAATCACAT
* * * *
22730908 ATCGATACCAACGTCCCAGATGTGGTCTTACACATAATCACATATCGATGCCAACGTTCTAGATG
66 ATCGATACCAACGTCCCAGACGTGATCTTACACATAATCACATATCGATGCCAACATCCTAGATG
*
22730973 TGGTCTTACACGTAATCACATAT-CG-ATGCCAACGTCTCATGACATATCTATCCTAGCTATTCC
131 TGGTCTTACACGTAATCACATATAAGAAT-CCAA--TCTCATGACATATCTATCCTAGCTATTCC
22731036 CAAGGTTTGTACGGGGCTTTCGGACGTCGTATCTCGGTCTAATCGAGTTTGTAAACATATCTCCC
193 CAAGGTTTGTACGGGGCTTTCGGACGTCGTATCTCGGTCTAATCGAGTTTGTAAACATATCTCCC
22731101 AAGAATATACACATTCGGCTACCATTCA
258 AAGAATATACACATTCGGCTACCATTCA
*
22731129 TGGTCTTACACAGAATCACATA-TCGATGCCAACGTACGAGACGTGGTCTTACACT-TAATCACA
1 TGGTCTTACACAGAATCACATATTCGATGCCAACGTACCAGACGTGGTCTTACA-TGTAATCACA
* *
22731192 TATCGATGCCAACGTCCCAGACGTGATCTTACACGTAATCACATATCGATGCCAACATCCTAGAT
65 TATCGATACCAACGTCCCAGACGTGATCTTACACATAATCACATATCGATGCCAACATCCTAGAT
* * *
22731257 GTGGTCTTACACGTAATCAGATATAAGAAATCCTATGTCATGACATATCTATCCTAGCTATTCCC
130 GTGGTCTTACACGTAATCACATATAAG-AATCCAATCTCATGACATATCTATCCTAGCTATTCCC
22731322 AAGGTTTGTACGGGGCTTTCGGACGTCGTATCTCGGTCTAATCGAGTTTGTAAACATATCTCCCA
194 AAGGTTTGTACGGGGCTTTCGGACGTCGTATCTCGGTCTAATCGAGTTTGTAAACATATCTCCCA
22731387 AGAATATACACATTCGGCTACCATT
259 AGAATATACACATTCGGCTACCATT
22731412 TATATACTTT
Statistics
Matches: 265, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
285 238 0.90
286 22 0.08
287 3 0.01
288 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (285 bp):
TGGTCTTACACAGAATCACATATTCGATGCCAACGTACCAGACGTGGTCTTACATGTAATCACAT
ATCGATACCAACGTCCCAGACGTGATCTTACACATAATCACATATCGATGCCAACATCCTAGATG
TGGTCTTACACGTAATCACATATAAGAATCCAATCTCATGACATATCTATCCTAGCTATTCCCAA
GGTTTGTACGGGGCTTTCGGACGTCGTATCTCGGTCTAATCGAGTTTGTAAACATATCTCCCAAG
AATATACACATTCGGCTACCATTCA
Found at i:22734775 original size:89 final size:89
Alignment explanation
Indices: 22734654--22734862 Score: 285
Period size: 89 Copynumber: 2.3 Consensus size: 89
22734644 ACTACGGTAC
* * * *
22734654 AGACATGCAGTATGAACTGCCAGATCAAATATATTATATAGCAAGGCTAGCATATAAGCTGTACT
1 AGACATGCAGTATAAACTGCCAGATCAGATATATTACACAGCAAGGCTAGCATATAAGCTGTACT
22734719 ATATAATACGG-AAGACCGCGATAT
66 ATATAATACGGTAA-ACCGCGATAT
* * *
22734743 AGACATGCAGTATAAACTCCCAGATCAGATATATTACGCAGCAAGGCTAGCTTATAAGCTGTACT
1 AGACATGCAGTATAAACTGCCAGATCAGATATATTACACAGCAAGGCTAGCATATAAGCTGTACT
* * * *
22734808 GTGTAATGCGGTAAACCGCGGTAT
66 ATATAATACGGTAAACCGCGATAT
* *
22734832 AGACGTGCAGTAAAAACTGCCAGATCAGATA
1 AGACATGCAGTATAAACTGCCAGATCAGATA
22734863 GTGGTACGTA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
89 103 0.98
90 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (89 bp):
AGACATGCAGTATAAACTGCCAGATCAGATATATTACACAGCAAGGCTAGCATATAAGCTGTACT
ATATAATACGGTAAACCGCGATAT
Found at i:22736246 original size:12 final size:11
Alignment explanation
Indices: 22736216--22736269 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
22736206 AAGGAAGAAG
*
22736216 AATAAAATTAAA
1 AATAAAAAT-AA
22736228 AATTAAAAATAA
1 AA-TAAAAATAA
22736240 AAGTAAAAATAA
1 AA-TAAAAATAA
*
22736252 TAATAATAATAA
1 -AATAAAAATAA
22736264 AATAAA
1 AATAAA
22736270 CTAAATAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 5 0.14
12 23 0.64
13 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:22755231 original size:20 final size:21
Alignment explanation
Indices: 22755188--22755233 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
22755178 ACTGTTTTGT
22755188 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
22755208 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
22755227 TATGGGC
1 TATGGGC
22755234 AATGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:22757569 original size:7 final size:6
Alignment explanation
Indices: 22757554--22757599 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
22757544 GAAGAAGAAG
* *
22757554 AAAAAT AAAAATT AAAAAT AAAAGT AAAAAT AAATAAT AATAAT AA
1 AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AA
22757600 TAAACAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:22757581 original size:19 final size:19
Alignment explanation
Indices: 22757554--22757610 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
22757544 GAAGAAGAAG
22757554 AAAAATAAAAATTAAA-AAT
1 AAAAATAAAAA-TAAATAAT
*
22757573 AAAAGTAAAAATAAATAAT
1 AAAAATAAAAATAAATAAT
* *
22757592 AATAATAATAAACAAATAA
1 AAAAATAA-AAATAAATAA
22757611 ACTAAATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 19 0.59
20 9 0.28
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAATAAAAATAAATAAT
Found at i:22762296 original size:28 final size:28
Alignment explanation
Indices: 22762263--22762344 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
22762253 TTTGAATCAT
* *
22762263 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
*
22762291 TCAATATCTCGCACACTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
22762319 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
22762345 ATTTGATTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:22766430 original size:35 final size:35
Alignment explanation
Indices: 22766391--22766463 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
22766381 CCCATCACAG
*
22766391 ATACAGATGCATATTCGGGCCTAAGCCTAT-TTCAA
1 ATACAGATACATATTCGGGCCTAAGCCTATCTT-AA
*
22766426 ATACAGATACATATTTGGGCCTAAGCCTATCTTAA
1 ATACAGATACATATTCGGGCCTAAGCCTATCTTAA
22766461 ATA
1 ATA
22766464 TAAATATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (35 bp):
ATACAGATACATATTCGGGCCTAAGCCTATCTTAA
Found at i:22768215 original size:13 final size:13
Alignment explanation
Indices: 22768197--22768227 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22768187 TGGTAATCAC
*
22768197 GTCACACGGTCGT
1 GTCACACGGGCGT
22768210 GTCACACGGGCGT
1 GTCACACGGGCGT
22768223 GTCAC
1 GTCAC
22768228 TTTTTCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (13 bp):
GTCACACGGGCGT
Found at i:22774419 original size:6 final size:6
Alignment explanation
Indices: 22774408--22774446 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
22774398 ATTTTATTTA
22774408 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
22774447 GATTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:22774452 original size:12 final size:12
Alignment explanation
Indices: 22774394--22774486 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
22774384 AATCCTCCTA
*
22774394 TTTTATTTTATTT
1 TTTTATTTT-TCT
*
22774407 ATTTTCTTTTTCT
1 -TTTTATTTTTCT
*
22774420 TTTTCTTTTTCT
1 TTTTATTTTTCT
*
22774432 TTTTCTTTTTCT
1 TTTTATTTTTCT
* *
22774444 TTTGATTTTTAT
1 TTTTATTTTTCT
* *
22774456 TTTCA-TTTTCA
1 TTTTATTTTTCT
* *
22774467 TTTTATTATT-A
1 TTTTATTTTTCT
22774478 TTTTATTTT
1 TTTTATTTT
22774487 GAAAGACATA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
11 17 0.25
12 40 0.60
13 2 0.03
14 8 0.12
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTCT
Found at i:22774452 original size:18 final size:18
Alignment explanation
Indices: 22774413--22774458 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
22774403 ATTTATTTTC
**
22774413 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTCTTTTGA
22774431 TTTTTCTTTTTCTTTTGA
1 TTTTTCTTTTTCTTTTGA
*
22774449 TTTTTATTTT
1 TTTTTCTTTT
22774459 CATTTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTGA
Found at i:22774453 original size:7 final size:6
Alignment explanation
Indices: 22774394--22774486 Score: 55
Period size: 6 Copynumber: 15.5 Consensus size: 6
22774384 AATCCTCCTA
* * * * * * *
22774394 TTTTAT TTTATTT ATTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
22774444 TTTGAT TTTTAT TTTCAT TTTCA- TTTTAT TATTA- TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
22774487 GAAAGACATA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
5 8 0.11
6 59 0.80
7 4 0.05
8 3 0.04
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:22786863 original size:68 final size:69
Alignment explanation
Indices: 22786739--22786866 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 69
22786729 AAGAGTTCAC
* * *
22786739 TTTAATATTAAATTAATATAATACTTATCAAGATAAATATTATATTAAATTTAATATTAAGATAA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAGATAA
22786804 TCAA
66 TCAA
* *
22786808 TTTAATATTAAATTAATAAAATAC-TATCAGGATAAGTATTAAATTAAATTAAATATTAA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAA
22786867 ATTTATTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 31 0.57
69 23 0.43
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (69 bp):
TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAGATAA
TCAA
Found at i:22786866 original size:17 final size:17
Alignment explanation
Indices: 22786839--22786882 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
22786829 TACTATCAGG
22786839 ATAAGTATTAAATTAAATT
1 ATAA-TATTAAATT-AATT
*
22786858 A-AATATTAAATTTATT
1 ATAATATTAAATTAATT
22786874 ATAATATTA
1 ATAATATTA
22786883 TTATTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 2 0.09
19 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATAATATTAAATTAATT
Found at i:22790066 original size:25 final size:24
Alignment explanation
Indices: 22790014--22790072 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
22790004 TTTTCTTTTC
*
22790014 TTTTCTTTTTATTTTTAGATTAAG
1 TTTTCTTTTTATTTTTAGAATAAG
*
22790038 TTTTCTCTTTTCTTTTTAGAAT-AG
1 TTTTCT-TTTTATTTTTAGAATAAG
22790062 ATTTTCTTTTT
1 -TTTTCTTTTT
22790073 GTTTCTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.17, C:0.08, G:0.07, T:0.68
Consensus pattern (24 bp):
TTTTCTTTTTATTTTTAGAATAAG
Found at i:22795111 original size:48 final size:47
Alignment explanation
Indices: 22795016--22795194 Score: 178
Period size: 48 Copynumber: 3.7 Consensus size: 47
22795006 CTTGCACACT
* * * * *
22795016 AAGTGCTCATATCATGGCCCGAAGCCAACTGAATTTATCTCGCACCTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAA-TGAACTCGCACCTG
* * *
22795064 AAGTGCTAATATCATGGCCTGAAACCAAATCAATGAAGCTCGAACCTG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAA-CTCGCACCTG
** ** * * *
22795112 AAGTGCCGATATCATATCCTGAAGCCAAATCTATGCAACTCGCACCCG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATG-AACTCGCACCTG
* *
22795160 AGGAGCTAATATCATGGCCCGAAGCCAAATCAATG
1 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATG
22795195 TATCCTAATC
Statistics
Matches: 105, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 2 0.02
48 101 0.96
49 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (47 bp):
AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAACTCGCACCTG
Found at i:22802327 original size:48 final size:48
Alignment explanation
Indices: 22802258--22802448 Score: 125
Period size: 48 Copynumber: 4.0 Consensus size: 48
22802248 CTCAAGAATA
* * * * *
22802258 TCGCACACTAAGTGCTCATATCATGGCTCAAAGTCAACTCAATGTATT
1 TCGCACACTAAGTCCTAATATCATGGCCCAAAGCCAAATCAATGTATT
* **
22802306 TCGCAC-CTGAAGTCCTAATATCATGGCCCAAAGCCAAATCAATGAAGC
1 TCGCACACT-AAGTCCTAATATCATGGCCCAAAGCCAAATCAATGTATT
* * * * * * * * * * *
22802354 TCACACCCGAAGTGCTGATATCATGTCTCGAAGCCAAATCTATGCAACT
1 TCGCACACTAAGTCCTAATATCATGGCCCAAAGCCAAATCAATG-TATT
* * ** * *
22802403 T-GCACCCGAAGAGCTAATATTATGGCCCGAAGCCAAATCAATGTAT
1 TCGCACACTAAGTCCTAATATCATGGCCCAAAGCCAAATCAATGTAT
22802449 CCCCTAATGA
Statistics
Matches: 113, Mismatches: 27, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.03
48 106 0.94
49 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (48 bp):
TCGCACACTAAGTCCTAATATCATGGCCCAAAGCCAAATCAATGTATT
Found at i:22807489 original size:22 final size:21
Alignment explanation
Indices: 22807460--22807529 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 21
22807450 CTTCTAATGT
22807460 TCAT-AGTGTGTCATACTTGAA
1 TCATGAGTGTGTCATAC-TGAA
22807481 TCATGAGTG-G--ATGAC--AA
1 TCATGAGTGTGTCAT-ACTGAA
*
22807498 ACTATGAGTGTGTCATACCTGAA
1 TC-ATGAGTGTGTCATA-CTGAA
22807521 TCATGAGTG
1 TCATGAGTG
22807530 GATGACAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 17
0.67 0.04 0.30
Matches are distributed among these distances:
17 3 0.08
18 7 0.18
19 3 0.08
20 3 0.08
21 8 0.21
22 11 0.29
23 3 0.08
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (21 bp):
TCATGAGTGTGTCATACTGAA
Found at i:22807521 original size:40 final size:40
Alignment explanation
Indices: 22807464--22807543 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
22807454 TAATGTTCAT
*
22807464 AGTGTGTCATACTTGAATCATGAGTGGATGACAAACTATG
1 AGTGTGTCATACCTGAATCATGAGTGGATGACAAACTATG
22807504 AGTGTGTCATACCTGAATCATGAGTGGATGACAAACTATG
1 AGTGTGTCATACCTGAATCATGAGTGGATGACAAACTATG
22807544 TATGCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (40 bp):
AGTGTGTCATACCTGAATCATGAGTGGATGACAAACTATG
Found at i:22808260 original size:13 final size:12
Alignment explanation
Indices: 22808224--22808261 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
22808214 TGATTTTCTC
22808224 AAAATGGAAATG
1 AAAATGGAAATG
22808236 AAAATGGAAATG
1 AAAATGGAAATG
22808248 AGAAA-GAGAAATG
1 A-AAATG-GAAATG
22808261 A
1 A
22808262 TACATTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:22813703 original size:21 final size:21
Alignment explanation
Indices: 22813677--22813747 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
22813667 TGGGTAGGAA
22813677 ACTAATATTAAAATAACCTAC
1 ACTAATATTAAAATAACCTAC
* * * *
22813698 ACTAATCAAAGTTTAGAT-A-GTAA
1 ACTAAT---A-TTAAAATAACCTAC
22813721 ACTAATATTAAAATAACCTAC
1 ACTAATATTAAAATAACCTAC
22813742 ACTAAT
1 ACTAAT
22813748 TGAAATTTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 14 0.39
23 8 0.22
24 2 0.06
25 5 0.14
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (21 bp):
ACTAATATTAAAATAACCTAC
Found at i:22814276 original size:46 final size:45
Alignment explanation
Indices: 22814197--22814283 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
22814187 ACCATTTATT
* *
22814197 TAACTAAATAAAGATACATAAAATATTAGTTAAACTCTTAATAAC
1 TAACTAAATAAAGATAAATAAAATATTAATTAAACTCTTAATAAC
* *
22814242 TAACTAAATATAGAATAAATCAAATATTAATTAAACTCTTAA
1 TAACTAAATAAAG-ATAAATAAAATATTAATTAAACTCTTAA
22814284 CAAAATATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 12 0.32
46 25 0.68
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (45 bp):
TAACTAAATAAAGATAAATAAAATATTAATTAAACTCTTAATAAC
Found at i:22814900 original size:32 final size:31
Alignment explanation
Indices: 22814854--22814928 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
22814844 ATTTGGTTAC
* * * *
22814854 TGAATTATTCAAAAATTTTTATTTAAGTCTT
1 TGAACTATTAAAAAAATTTTATTTAAGTCAT
22814885 TGAACTATTAAAAAAATTTTATTTAAGTCAT
1 TGAACTATTAAAAAAATTTTATTTAAGTCAT
* *
22814916 TGAGCTGTTAAAA
1 TGAACTATTAAAA
22814929 TTTTTTTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (31 bp):
TGAACTATTAAAAAAATTTTATTTAAGTCAT
Found at i:22816779 original size:3 final size:3
Alignment explanation
Indices: 22816771--22816810 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
22816761 GTGCTTAGTT
* *
22816771 TTG TTG TTG TTA TTG TTA TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
22816811 CATTATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:22819035 original size:22 final size:22
Alignment explanation
Indices: 22819010--22819054 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
22819000 TTTAATAAAA
22819010 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
22819032 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
22819054 A
1 A
22819055 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:22823634 original size:22 final size:22
Alignment explanation
Indices: 22823606--22823650 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
22823596 TTAATAAAAA
22823606 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
22823628 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
22823650 A
1 A
22823651 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:22827521 original size:64 final size:64
Alignment explanation
Indices: 22827453--22827582 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
22827443 ACAATTAAGC
22827453 TTTTTAGAATAAAACTTCTTCACATTATTAAAAACATGAAATTAGTATATACTTTTCTCTAATT
1 TTTTTAGAATAAAACTTCTTCACATTATTAAAAACATGAAATTAGTATATACTTTTCTCTAATT
22827517 TTTTTAGAATAAAACTTCTTCACATTATTAAAAACATGAAATTAGTATATACTTTTCTCTAATT
1 TTTTTAGAATAAAACTTCTTCACATTATTAAAAACATGAAATTAGTATATACTTTTCTCTAATT
22827581 TT
1 TT
22827583 AGTTAGTTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (64 bp):
TTTTTAGAATAAAACTTCTTCACATTATTAAAAACATGAAATTAGTATATACTTTTCTCTAATT
Found at i:22837300 original size:52 final size:52
Alignment explanation
Indices: 22837221--22838165 Score: 1740
Period size: 52 Copynumber: 18.2 Consensus size: 52
22837211 TACTTCTGAT
* **
22837221 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
22837274 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837326 C------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
22837372 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837424 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837476 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837528 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837580 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837632 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837684 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837736 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837788 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837840 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837892 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837944 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22837996 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
22838048 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
22838100 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
22838152 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
22838166 GCTACACTTA
Statistics
Matches: 872, Mismatches: 13, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
46 44 0.05
52 811 0.93
53 17 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:22838175 original size:37 final size:37
Alignment explanation
Indices: 22838128--22838237 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
22838118 TGATAGCTTC
*
22838128 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
22838165 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
22838202 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
22838237 G
1 G
22838238 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:22853396 original size:2 final size:2
Alignment explanation
Indices: 22853389--22853426 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22853379 TCCCAATATT
22853389 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22853427 ATTATCTCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22859998 original size:19 final size:18
Alignment explanation
Indices: 22859967--22860023 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
22859957 TCAAAATTCA
22859967 TTAATAATAATTTTAAAT
1 TTAATAATAATTTTAAAT
* *
22859985 TTATCTATTAATTTTAACA-
1 TTA-ATAATAATTTTAA-AT
22860004 TTAATAATAATTTTAAAT
1 TTAATAATAATTTTAAAT
22860022 TT
1 TT
22860024 TAAATAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 14 0.44
20 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAATAATTTTAAAT
Found at i:22861465 original size:34 final size:33
Alignment explanation
Indices: 22861420--22861487 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 33
22861410 CCTACATTTT
*
22861420 ATTGGGAAAATCGCGTTACATTATTTATGGAAA
1 ATTGGGAAAATCGCGTTACATTATTTATGCAAA
*
22861453 ANTTGGGGAAATCGCGTTACATTATTTATGCAAA
1 A-TTGGGAAAATCGCGTTACATTATTTATGCAAA
22861487 A
1 A
22861488 GAAAGAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.32
Consensus pattern (33 bp):
ATTGGGAAAATCGCGTTACATTATTTATGCAAA
Found at i:22861976 original size:23 final size:22
Alignment explanation
Indices: 22861937--22862016 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 22
22861927 TGATTTAATG
* *
22861937 TGCGAATCCTATATGAATTAGTA
1 TGCGAA-CCTATATGAACTATTA
*
22861960 TGCGAACCTTATGTGAACTATTA
1 TGCGAACC-TATATGAACTATTA
22861983 TGCGAATCCTATATGAACTATTA
1 TGCGAA-CCTATATGAACTATTA
*
22862006 TGCAAACCTAT
1 TGCGAACCTAT
22862017 GTGATTCAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.14
23 41 0.82
24 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
TGCGAACCTATATGAACTATTA
Found at i:22864063 original size:2 final size:2
Alignment explanation
Indices: 22864047--22864079 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
22864037 AGTGAAAATC
*
22864047 AT AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22864080 GATTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:22865331 original size:18 final size:19
Alignment explanation
Indices: 22865290--22865337 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
22865280 TTTTTTATTC
*
22865290 CTTAAATAAATTTAATTTA
1 CTTAAATAAATTAAATTTA
* *
22865309 ATTAACTAAATTAAATTT-
1 CTTAAATAAATTAAATTTA
*
22865327 CTTAATTAAAT
1 CTTAAATAAAT
22865338 AATTTTCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (19 bp):
CTTAAATAAATTAAATTTA
Found at i:22870333 original size:49 final size:47
Alignment explanation
Indices: 22870076--22870396 Score: 171
Period size: 46 Copynumber: 6.8 Consensus size: 47
22870066 CATATTATGA
* * *
22870076 GAGCCAGTGTAAGACCATGCCTAGGACTTGGCATCGGCATTAAGA-CGA-
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TT--GATCGAT
** * * * * *
22870124 GAGTTAGTGTAAGA-CAAGTCTGGGACAT-ACATCGGCCTCGA--GAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGATCGAT
* *
22870168 GTAAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGA--GAT
1 G--AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-TGATCGAT
* * * * * * **
22870214 GTGTCAGTGTAAGACCATGTGTAGGACATGGTATTGGCAC-GGATATAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCA-TCG-ACTTGATCGAT
* * *
22870262 GAGAGCTAGTGTAAGACCATGTCTTGGACATGGCGTCGACCTTGATTTCGAT
1 --GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CTTGA--TCGAT
* * * * * *
22870314 -AGTCATTGTAAGACTATGTCTGGGACATGGCATTGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATCGAT
22870360 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
22870397 TATTATACCC
Statistics
Matches: 208, Mismatches: 47, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.07
45 16 0.08
46 47 0.23
47 45 0.22
48 21 0.10
49 32 0.15
50 28 0.13
52 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATCGAT
Found at i:22879187 original size:19 final size:19
Alignment explanation
Indices: 22879159--22879197 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22879149 AAAGCGAAAG
22879159 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
22879177 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
22879197 A
1 A
22879198 GTACAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:22887791 original size:27 final size:27
Alignment explanation
Indices: 22887761--22887859 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
22887751 TTTAGTTTAC
*
22887761 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGACTTG
* ** * *
22887788 TAAAAATAGTGAAATACCCTCGACTTG
1 TAAAATTACCGAAATACCTTAGACTTG
* *
22887815 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGACTTG
22887842 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
22887860 CCCGATTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.10
27 54 0.90
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGACTTG
Found at i:22887886 original size:27 final size:27
Alignment explanation
Indices: 22887856--22888038 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
22887846 ATTACCAAAG
* *
22887856 TACCCCCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
22887883 TACCCTCGATTTACATAATTACCCTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
22887910 TAACCC-CGATTTACATAATTATC-TTT
1 T-ACCCTCGATTTACAGAATTACCATTT
22887936 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
22887963 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
22887990 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
22888017 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
22888039 TAAAATACCC
Statistics
Matches: 139, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
25 4 0.03
26 19 0.14
27 112 0.81
28 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:22887957 original size:80 final size:81
Alignment explanation
Indices: 22887856--22888038 Score: 253
Period size: 80 Copynumber: 2.3 Consensus size: 81
22887846 ATTACCAAAG
* * *
22887856 TACCCCCGATTTATAGAATTACCATTTTACCCTCGATTTACATAATTACCCTTTTAACCC-CGAT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTT-ACCCTCGAT
*
22887920 TTACATAATTA-TCTTT
65 TTACAGAATTACTCTTT
* ** *
22887936 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTTACCCTCGATT
*
22888001 TACAGAATTACTGTTT
66 TACAGAATTACTCTTT
*
22888017 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
22888039 TAAAATACCC
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
79 4 0.04
80 62 0.68
81 25 0.27
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCCTTTTACCCTCGATT
TACAGAATTACTCTTT
Found at i:22888047 original size:27 final size:27
Alignment explanation
Indices: 22887799--22888239 Score: 126
Period size: 27 Copynumber: 16.3 Consensus size: 27
22887789 AAAAATAGTG
* ** *
22887799 AAATACCCTCGACTTGTAAAATTACTG
1 AAATACCCTCGATTTACAAAATTACTA
* * ** *
22887826 AAATACCTTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACTA
* * * * *
22887853 AAGTACCCCCGATTTATAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACTA
*** * *
22887880 TTTTACCCTCGATTTACATAATTACCCTT
1 AAATACCCTCGATTTACAAAATTA--CTA
** *
22887909 TTA-ACCC-CGATTTACATAATTATCT-
1 AAATACCCTCGATTTACAAAATTA-CTA
** * *
22887934 -TTTACCCTCGATTTACAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACTA
*** * * *
22887960 TTTTACCCTCGATTTATAGAATTACTG
1 AAATACCCTCGATTTACAAAATTACTA
*** * * *
22887987 TTTTACCCTTGATTTACAGAATTACTG
1 AAATACCCTCGATTTACAAAATTACTA
***
22888014 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCTCGATTTACAAAATTACTA
* * ** *
22888041 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACTA
* ** *
22888068 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTACAAAATTACTA
* * *** **
22888095 AAATACCCTTGGTTTGTGAAATTACCG
1 AAATACCCTCGATTTACAAAATTACTA
* * ** *
22888122 CAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACTA
*
22888149 AAATACCC-CTGATTTACAAAGTTAC-A
1 AAATACCCTC-GATTTACAAAATTACTA
*
22888175 AAATACCCTTGACTTT-CTAAAAATTA-TA
1 AAATACCCTCGA-TTTAC--AAAATTACTA
* * * *
22888203 GAAATACCATTGGTTTACAAAATTACTG
1 -AAATACCCTCGATTTACAAAATTACTA
22888231 AAATACCCT
1 AAATACCCT
22888240 TGGTTTGTAG
Statistics
Matches: 334, Mismatches: 63, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
24 1 0.00
25 5 0.01
26 29 0.09
27 270 0.81
28 15 0.04
29 14 0.04
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACTA
Found at i:22888064 original size:81 final size:80
Alignment explanation
Indices: 22887856--22888065 Score: 197
Period size: 80 Copynumber: 2.6 Consensus size: 80
22887846 ATTACCAAAG
* * * *** * * ** *
22887856 TACCCCCGATTTATAGAATTACCATTTTACCCTCGATTTACATAATTACCCTTTTAACCC-CGAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTT-ACCCTTGAT
*
22887920 TTACATAATTATCTTT
65 TTACAGAATTATCTTT
* *** *
22887936 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTTGATT
*
22888001 TACAGAATTACTGTTT
66 TACAGAATTA-TCTTT
* * * *
22888017 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTAC
22888066 CAAAATACCC
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 4 0.04
80 62 0.56
81 44 0.40
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTGTTTTACCCTTGATT
TACAGAATTATCTTT
Found at i:22888102 original size:81 final size:79
Alignment explanation
Indices: 22888017--22888268 Score: 204
Period size: 81 Copynumber: 3.1 Consensus size: 79
22888007 ATTACTGTTT
*
22888017 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GTT
22888082 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** *** *** *
22888098 TACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTTGATTT-CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTT
22888163 -TACAAAGTTA-CAAAA
65 GTA-AAA-TTACCAAAA
* ** ** *
22888178 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-
* * *
22888242 GTTTGTAGATTTACCAAAG
61 GTTTGTAAAATTACCAAAA
*
22888261 CACCCTTG
1 TACCCTTG
22888269 TAGGATGAAA
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
79 2 0.02
80 19 0.15
81 56 0.43
82 36 0.28
83 15 0.12
84 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (79 bp):
TACCCTTGATTTCAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGTTTG
TAAAATTACCAAAA
Found at i:22888196 original size:54 final size:55
Alignment explanation
Indices: 22888031--22888268 Score: 198
Period size: 54 Copynumber: 4.4 Consensus size: 55
22888021 CTCGATTTAC
* ** * *
22888031 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGAATTTGT
*** ** *
22888085 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGCAATACCC-TCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGAATTTGT
* * * * *
22888139 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGAATTTGT
* * ** *
22888193 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG-GTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGAATTTGT
* * **
22888248 AGATTTACCAAAGCACCCTTG
1 AAAATTACCAAAATACCCTTG
22888269 TAGGATGAAA
Statistics
Matches: 147, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
53 9 0.06
54 95 0.65
55 32 0.22
56 11 0.07
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGAATTTGT
Found at i:22888242 original size:27 final size:27
Alignment explanation
Indices: 22888017--22888245 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
22888007 ATTACTGTTT
* * *
22888017 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
**
22888044 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
22888071 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
22888098 TACCCTTGGTTTGTGAAATTACCGCAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
22888125 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
22888152 TACCCCTGATTTACAAAGTTA-CAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
22888178 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
22888207 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
22888234 TACCCTTGGTTT
1 TACCCTTGGTTT
22888246 GTAGATTTAC
Statistics
Matches: 164, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.08
27 129 0.79
28 11 0.07
29 11 0.07
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:22889439 original size:25 final size:25
Alignment explanation
Indices: 22889410--22889457 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22889400 TTATAACATG
* *
22889410 AAAATGAACATTTTGCCCCTAGGTA
1 AAAATGAACATTATACCCCTAGGTA
*
22889435 AAAATGACCATTATACCCCTAGG
1 AAAATGAACATTATACCCCTAGG
22889458 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGAACATTATACCCCTAGGTA
Found at i:22889523 original size:20 final size:20
Alignment explanation
Indices: 22889500--22889540 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
22889490 ATAAACATTG
22889500 TATGGATGATATGCACATGA
1 TATGGATGATATGCACATGA
*
22889520 TATGTATGATATGCACATGA
1 TATGGATGATATGCACATGA
22889540 T
1 T
22889541 GTATTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
TATGGATGATATGCACATGA
Found at i:22889621 original size:23 final size:23
Alignment explanation
Indices: 22889591--22889755 Score: 258
Period size: 23 Copynumber: 7.1 Consensus size: 23
22889581 AGGAAGTGAA
*
22889591 AAAGGGCTTATGCCCCAGTAATT
1 AAAGGGCTTATGCCCCAGTTATT
*
22889614 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
22889637 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
22889660 AAAGGGCTTGTGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
22889683 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
22889706 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
22889729 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
22889753 AAA
1 AAA
22889756 AGAGGCTAGG
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
23 108 0.84
24 21 0.16
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:22889661 original size:46 final size:47
Alignment explanation
Indices: 22889590--22889755 Score: 291
Period size: 46 Copynumber: 3.6 Consensus size: 47
22889580 GAGGAAGTGA
*
22889590 AAAAGGGCTTATGCCCCAGTAATTAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
*
22889637 AAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTGTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
22889683 -AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
*
22889729 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
22889756 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
45 3 0.03
46 81 0.72
47 29 0.26
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
Found at i:22890005 original size:31 final size:30
Alignment explanation
Indices: 22889970--22890050 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
22889960 CGTTTATAGT
*
22889970 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTT-GGCCCAGTAATATGAAATATGA
**
22890001 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGC-TTGGCCCAGTAATATGAAATATGA
22890032 AAAGCGCTATGGCCCAGTA
1 AAAG-GCT-TGGCCCAGTA
22890051 CATGTTTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
31 30 0.70
32 13 0.30
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAGGCTTGGCCCAGTAATATGAAATATGA
Found at i:22893586 original size:21 final size:21
Alignment explanation
Indices: 22893538--22893586 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
22893528 GTGGGGGTTT
* * * *
22893538 ACACGCACATGTGGAGGCCTC
1 ACACGCCCATATGAAGGCCCC
22893559 ACACGCCCATATGAAGGCCCC
1 ACACGCCCATATGAAGGCCCC
22893580 ACACGCC
1 ACACGCC
22893587 TGTGTGGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.41, G:0.22, T:0.10
Consensus pattern (21 bp):
ACACGCCCATATGAAGGCCCC
Found at i:22903306 original size:18 final size:18
Alignment explanation
Indices: 22903283--22903318 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22903273 ATTGAATCCA
22903283 TGAAAATTTAGTAAGGTT
1 TGAAAATTTAGTAAGGTT
22903301 TGAAAATTTAGTAAGGTT
1 TGAAAATTTAGTAAGGTT
22903319 GCATTCGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (18 bp):
TGAAAATTTAGTAAGGTT
Found at i:22903884 original size:27 final size:27
Alignment explanation
Indices: 22903854--22904030 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
22903844 AAATTGTACA
* *
22903854 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
22903881 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
22903908 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
22903935 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
22903963 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
22903990 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
22904017 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
22904031 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:22903967 original size:82 final size:81
Alignment explanation
Indices: 22903854--22904009 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
22903844 AAATTGTACA
* * *
22903854 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
22903918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
22903935 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
22904000 TGCGAGTTGA
65 TGCGAATTGA
22904010 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22904021 original size:82 final size:81
Alignment explanation
Indices: 22903850--22904030 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
22903840 GATTAAATTG
* * * *
22903850 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22903915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22903931 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22903995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22904013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22904031 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22909791 original size:50 final size:49
Alignment explanation
Indices: 22909681--22909912 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
22909671 CTGGTACGCA
* * * * *
22909681 TAGTAGCATGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
**
22909730 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACACG
* * * * *
22909780 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGATACACG
* * ** * *
22909831 TAGTAGCTTGCACTTAGTACTACACATGCAACCAATTATTTGATTCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
*
22909880 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
22909913 TCACAATAGC
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 66 0.44
50 48 0.32
51 36 0.24
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
Found at i:22911847 original size:30 final size:30
Alignment explanation
Indices: 22911811--22911871 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
22911801 CATTTAATAC
*
22911811 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
22911841 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
22911871 A
1 A
22911872 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:22921499 original size:47 final size:47
Alignment explanation
Indices: 22920463--22921498 Score: 1912
Period size: 47 Copynumber: 22.0 Consensus size: 47
22920453 TTAGGATTTT
** * * *
22920463 AATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGG-C
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
*** * *
22920509 AAATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCC
1 -AATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGAC
*
22920561 AATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920608 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920655 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920702 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920749 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920796 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920843 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920890 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920937 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22920984 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921031 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921078 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921125 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921172 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921219 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921266 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921313 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921360 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
*
22921407 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
22921454 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
1 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
22921499 CTAATGCGAA
Statistics
Matches: 969, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 929 0.96
50 1 0.00
51 38 0.04
52 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGAC
Found at i:22921546 original size:46 final size:46
Alignment explanation
Indices: 22921490--22921613 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
22921480 GTGTGATAAG
22921490 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGGTAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGGTAAA
* * *
22921536 GCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGTGGTAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGGTAAA
* * * *
22921582 GCCAAATGGCTAATGTGAGATATGTATGAGAT
1 GCCGAATGGCTAATGCGAAATGTGTATGAGAT
22921614 GTGTATATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.25
Consensus pattern (46 bp):
GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGGTAAA
Found at i:22921826 original size:37 final size:37
Alignment explanation
Indices: 22921796--22921906 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
22921786 GTGGTGACTA
*
22921796 TGTCCGGGTAAGACCCGATGATTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
22921833 TTTCCGGGTAAGACCCGATGACTACGTCTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
22921870 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
22921907 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:22926462 original size:43 final size:41
Alignment explanation
Indices: 22926414--22926527 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 41
22926404 AACTTGTACA
* ***
22926414 ATGCCAATGCCCCAGACGTGTTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTG-TCTTACACAAAATCAAATAT-G
* * *
22926457 ATGCCACTGTCCTAGACAGTGTCTTGCACAAAATCAAATATG
1 ATGCCAATGTCCCAGAC-GTGTCTTACACAAAATCAAATATG
*
22926499 ATGCCAATGTTCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACGT-GTCTTACAC
22926528 GATAACACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 23 0.40
43 30 0.52
44 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGTCTTACACAAAATCAAATATG
Found at i:22928072 original size:20 final size:19
Alignment explanation
Indices: 22928045--22928086 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22928035 CCTTTCAAAT
22928045 TTTCTTACTTT-CATTTTCA
1 TTTCTTACTTTCCATTTT-A
22928064 TTTCATTACTTTCCATTTTA
1 TTTC-TTACTTTCCATTTTA
22928084 TTT
1 TTT
22928087 ACTTTCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTCTTACTTTCCATTTTA
Found at i:22928726 original size:25 final size:25
Alignment explanation
Indices: 22928692--22928783 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
22928682 TACATATATA
*
22928692 CTCACATGAGCTGTGAATAAGTATG
1 CTCACATGAGCTGTGAATAAGAATG
* * *
22928717 CTCACATGAGATATGAATTAGAATG
1 CTCACATGAGCTGTGAATAAGAATG
* *
22928742 CTCATATGAGCAGTGAATCAA-AATG
1 CTCACATGAGCTGTGAAT-AAGAATG
*
22928767 CTCACACGAGCTGTGAA
1 CTCACATGAGCTGTGAA
22928784 AATAGGCCTG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (25 bp):
CTCACATGAGCTGTGAATAAGAATG
Found at i:22930721 original size:111 final size:111
Alignment explanation
Indices: 22930522--22930744 Score: 410
Period size: 111 Copynumber: 2.0 Consensus size: 111
22930512 TATATTTTTG
* * *
22930522 AGATTGTTGCGGCTTAATCTAGCTAGCCTAGGGACTATTTTGCAAGACTGTTAAAGGTTGAGGAT
1 AGATCGTTGCAGCTTAATCTAGCTAGCCCAGGGACTATTTTGCAAGACTGTTAAAGGTTGAGGAT
22930587 TTTGCCATTGATGAATCTATATGTGTTTTGATGTTTAATGGTAGAA
66 TTTGCCATTGATGAATCTATATGTGTTTTGATGTTTAATGGTAGAA
*
22930633 AGATCGTTGCAGCTTAATCTAGCTAGCCCAGGGACTATTTTGCAAGACTGTTAAAGGTTGAGGGT
1 AGATCGTTGCAGCTTAATCTAGCTAGCCCAGGGACTATTTTGCAAGACTGTTAAAGGTTGAGGAT
22930698 TTTGCCATTGATGAATCTATATGTGTTTTGATGTTTAATGGTAGAA
66 TTTGCCATTGATGAATCTATATGTGTTTTGATGTTTAATGGTAGAA
22930744 A
1 A
22930745 ATGCATGCTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (111 bp):
AGATCGTTGCAGCTTAATCTAGCTAGCCCAGGGACTATTTTGCAAGACTGTTAAAGGTTGAGGAT
TTTGCCATTGATGAATCTATATGTGTTTTGATGTTTAATGGTAGAA
Found at i:22939789 original size:29 final size:30
Alignment explanation
Indices: 22939756--22939812 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
22939746 AAATTGATTT
* *
22939756 TCAAA-CCAAGGGGTAAAATGGTTATTTTA
1 TCAAAGCCAAGGGGCAAAATGGTCATTTTA
* *
22939785 TCAAAGTCTAGGGGCAAAATGGTCATTT
1 TCAAAGCCAAGGGGCAAAATGGTCATTT
22939813 CACCAAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (30 bp):
TCAAAGCCAAGGGGCAAAATGGTCATTTTA
Found at i:22939820 original size:30 final size:30
Alignment explanation
Indices: 22939764--22939820 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22939754 TTTCAAACCA
* * * *
22939764 AGGGGTAAAATGGTTATTTTATCAAAGTCT
1 AGGGGCAAAATGGTCATTTCACCAAAGTCT
22939794 AGGGGCAAAATGGTCATTTCACCAAAG
1 AGGGGCAAAATGGTCATTTCACCAAAG
22939821 AAGGGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTCACCAAAGTCT
Found at i:22940318 original size:93 final size:93
Alignment explanation
Indices: 22940159--22940374 Score: 423
Period size: 93 Copynumber: 2.3 Consensus size: 93
22940149 ACTTGTGTGA
22940159 GCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGAGAGCTAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGAGAGCTAGTGTAAGACCATGTCT
22940224 GGGACATGTCATTGGCATTGAGACGAGC
66 GGGACATGTCATTGGCATTGAGACGAGC
22940252 GCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGAGAGCTAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGAGAGCTAGTGTAAGACCATGTCT
22940317 GGGACATGTCATTGGCATTGAGACGAGC
66 GGGACATGTCATTGGCATTGAGACGAGC
*
22940345 GCTAGTGTAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACTTGCAT
22940375 CGGCCATGAA
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 122 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGTCATTGGCATTGAGACGAGC
Found at i:22940369 original size:47 final size:44
Alignment explanation
Indices: 22940157--22940374 Score: 246
Period size: 46 Copynumber: 4.7 Consensus size: 44
22940147 TCACTTGTGT
*
22940157 GAGCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATGGG-ACATTATGA
*
22940202 GAGCTAGTGTAAGACCATGTCTGGGACATGTCATTGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATGGGACATT-ATGA
*
22940247 CGAGCGCTAGTGTAAGACATGTCTGGGACTTGCATGGGCACATTATGA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATGGG-ACATTATGA
*
22940295 GAGCTAGTGTAAGACCATGTCTGGGACATGTCATTGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATGGGACATT-ATGA
22940340 CGAGCGCTAGTGTAAGACATGTCTGGGACATGCAT
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCAT
22940375 CGGCCATGAA
Statistics
Matches: 152, Mismatches: 6, Indels: 29
0.81 0.03 0.16
Matches are distributed among these distances:
45 38 0.25
46 42 0.28
47 42 0.28
48 30 0.20
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATGGGACATTATGA
Found at i:22959206 original size:27 final size:26
Alignment explanation
Indices: 22959134--22959248 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
22959124 AGCATGGCTG
* *
22959134 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
22959160 CCATATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
22959187 CCAGAACAGATAATTATGGCATAGCCA
1 CCAGAACAGAT-ATTGTGGCAGAGCCA
*
22959214 CCAGAAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
22959242 CCAGAAC
1 CCAGAAC
22959249 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.12
27 42 0.55
28 26 0.34
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:22959411 original size:27 final size:28
Alignment explanation
Indices: 22959352--22959414 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
22959342 AATTAACCCT
* *
22959352 AGGGGTATAATGGTAATTTTGCATACTT
1 AGGGGTATAATGGTAATTGTGCATACTC
22959380 AGGGGTATAATGGTAATTGT-CATACTC
1 AGGGGTATAATGGTAATTGTGCATACTC
22959407 AGGGGTAT
1 AGGGGTAT
22959415 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (28 bp):
AGGGGTATAATGGTAATTGTGCATACTC
Found at i:22963506 original size:30 final size:30
Alignment explanation
Indices: 22963461--22963520 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22963451 ATTTAATACG
*
22963461 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
22963491 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
22963521 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:22972959 original size:16 final size:15
Alignment explanation
Indices: 22972933--22972962 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22972923 ACTAGATCAG
22972933 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
22972948 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
22972963 TTAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:22973420 original size:27 final size:26
Alignment explanation
Indices: 22973380--22973486 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
22973370 AGGAAGCGTC
*
22973380 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGTT
22973407 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGTT
*
22973434 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCAC-ATTATCTGTT
* *
22973461 CTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGTT
22973487 ATCACAACCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 13 0.18
27 57 0.79
28 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGTT
Found at i:22973464 original size:54 final size:53
Alignment explanation
Indices: 22973380--22973486 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
22973370 AGGAAGCGTC
*
22973380 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACAT-TATCTGTT
* * *
22973434 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTT
22973487 ATCACAACCA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTT
Found at i:22976047 original size:48 final size:48
Alignment explanation
Indices: 22975993--22976150 Score: 280
Period size: 48 Copynumber: 3.3 Consensus size: 48
22975983 CATCTCCTAC
22975993 ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
1 ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
* * * *
22976041 GTACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAAAT
1 ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
22976089 ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
1 ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
22976137 ATACATATCTCATA
1 ATACATATCTCATA
22976151 NNNNNNNNNN
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (48 bp):
ATACATATCTCATACATATTTCACACTAGCCATTCGACTTTACCACAT
Found at i:22981808 original size:37 final size:37
Alignment explanation
Indices: 22981751--22981853 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
22981741 CGAATAGTCC
* * *
22981751 CCACACGTAGTTATCAGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
22981788 CCACACGTAGTCATCGGGTCTCACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
22981825 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
22981854 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:22982055 original size:48 final size:48
Alignment explanation
Indices: 22981994--22982562 Score: 1057
Period size: 48 Copynumber: 11.9 Consensus size: 48
22981984 ATATACACAC
* *
22981994 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
22982042 ATCTCATATATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
22982090 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982138 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982186 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982234 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982282 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982330 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982378 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982426 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
22982474 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
22982522 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
22982563 CACATATATA
Statistics
Matches: 507, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 507 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:22989947 original size:27 final size:26
Alignment explanation
Indices: 22989907--22990007 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 26
22989897 TGTCAGAACC
* *
22989907 GATATTGTGACAGAGTCACCAAATACA
1 GATATTGTGGCAGAGCCACCAAA-ACA
*
22989934 GATATTGTGGCAGAGCCACCAGAACA
1 GATATTGTGGCAGAGCCACCAAAACA
*
22989960 GATATCTGTGGCATAGCCACCAGAAACA
1 GATAT-TGTGGCAGAGCCACCA-AAACA
* *
22989988 AATAATTGTGGCATAGCCAC
1 GAT-ATTGTGGCAGAGCCAC
22990008 TGGAACGCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
26 8 0.12
27 35 0.54
28 20 0.31
29 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
GATATTGTGGCAGAGCCACCAAAACA
Found at i:22990173 original size:25 final size:26
Alignment explanation
Indices: 22990125--22990177 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
22990115 CCCAGTGGTA
*
22990125 TAATGGTAATTTTGCATACTTAGGGG
1 TAATGGTAATTGTGCATACTTAGGGG
22990151 TAATGGTAATTGT-CATACTTAGGGG
1 TAATGGTAATTGTGCATACTTAGGGG
22990176 TA
1 TA
22990178 TTTTAGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (26 bp):
TAATGGTAATTGTGCATACTTAGGGG
Found at i:22994747 original size:15 final size:15
Alignment explanation
Indices: 22994727--22994756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22994717 TGGCACATTA
*
22994727 TGGTATTGATATGGT
1 TGGTATTGAAATGGT
22994742 TGGTATTGAAATGGT
1 TGGTATTGAAATGGT
22994757 ATGAATTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TGGTATTGAAATGGT
Found at i:22996507 original size:27 final size:26
Alignment explanation
Indices: 22996472--22996688 Score: 118
Period size: 27 Copynumber: 8.1 Consensus size: 26
22996462 CCAATTATTG
* *
22996472 AAATGCCCTCGACTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
22996498 AAAGTACCCTCGATTTATAGAATTACC
1 AAA-TACCCTCGATTTGTAAAATTACC
*** * *
22996525 GTTTTACCCTCGATTTATAGAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
** * *
22996552 ATTTTACCCTCGA-TTGTGAAATTACTG
1 A-AATACCCTCGATTTGTAAAATTAC-C
* ** *
22996579 AAATACCC-CTATAGGATAGAATTACC
1 AAATACCCTCGATTTG-TAAAATTACC
*
22996605 AAAATACCC-CTAGTTTGTAAAATTACC
1 -AAATACCCTCGA-TTTGTAAAATTACC
* *
22996632 AAAATACCACTAG-TTTGTGAAATTACC
1 -AAATACC-CTCGATTTGTAAAATTACC
* *
22996659 GAAATACCCTCAATTTGTAAAATTATC
1 -AAATACCCTCGATTTGTAAAATTACC
22996686 AAA
1 AAA
22996689 ATGCCCCTAA
Statistics
Matches: 149, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
25 2 0.01
26 23 0.15
27 121 0.81
28 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACC
Found at i:22996700 original size:27 final size:27
Alignment explanation
Indices: 22996598--22996711 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
22996588 TATAGGATAG
*
22996598 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
22996625 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
22996652 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
* * **
22996679 AATTATCAAAATGCCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
22996706 AATTAC
1 AATTAC
22996712 AGAAAAACCC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.90
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:22996868 original size:27 final size:27
Alignment explanation
Indices: 22996825--22996898 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
22996815 AAATGACTAA
* *
22996825 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCAT
**
22996852 AA-AGCCCCTGTAGGGTAAAGTGACCAT
1 AATA-CCCCTGTAGGGTAAAAAGACCAT
*
22996879 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
22996899 TGATGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCAT
Found at i:22997750 original size:25 final size:25
Alignment explanation
Indices: 22997712--22997781 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
22997702 AGGAAGTGCT
* *
22997712 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
* *
22997737 AAAAGGGTTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
22997762 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
22997782 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:22998040 original size:31 final size:31
Alignment explanation
Indices: 22997994--22998076 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
22997984 CGCTTACAGT
*
22997994 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
* *
22998024 AAAGGTTTTGGCCCAGTGATACGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
22998055 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
22998077 TCGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 13 0.28
31 34 0.72
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGATTTATGA
Found at i:23001455 original size:123 final size:123
Alignment explanation
Indices: 23001283--23001762 Score: 827
Period size: 123 Copynumber: 3.9 Consensus size: 123
23001273 CACGTACGTA
* ** * * * *
23001283 CCCTTATTTATACTTCAGTACCCTTGAATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCT
1 CCCTT-TTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCT
23001348 TGAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
65 TGAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
23001407 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
1 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
23001472 GAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
66 GAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
23001530 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
1 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
23001595 GAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
66 GAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
23001653 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
1 CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
*** * *
23001718 GAATTGCACATGCATG-CCCTTGTTTGTACTTTGGTACCCCTGAAT
66 GAATTGCACATATGTGCCCCTT-TTTGTACTTCGGCACCCCTGAAT
23001763 ATCACTTACG
Statistics
Matches: 343, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
122 5 0.01
123 333 0.97
124 5 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (123 bp):
CCCTTTTTGTACTTCAGTACTATAGAATTGCATATACATGCCCTTGTTTGTACTTCGGTACCCTT
GAATTGCACATATGTGCCCCTTTTTGTACTTCGGCACCCCTGAATTGTGTATTTGTGC
Found at i:23001734 original size:41 final size:41
Alignment explanation
Indices: 23001263--23001803 Score: 455
Period size: 41 Copynumber: 13.2 Consensus size: 41
23001253 CTTAGTTATT
* * * *
23001263 CCTTGAATTGCACGTACGT-ACCCTTATTTATACTTCAGTAC
1 CCTTGAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTAC
* *
23001304 CCTTGAATTGCACATACGTGCCCATGTTTGTACTTCGGTAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
* *
23001345 CCTTGAATTGCACATATGTGCCCCTTTTTGTACTTCGGCAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
* *** ** *
23001386 CCCTGAATTGTGTATTTGTGCCCCTTTTTGTACTTCAGTAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
** * * *
23001427 TATAGAATTGCATATACATG-CCCTTGTTTGTACTTCGGTAC
1 CCTTGAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTAC
* *
23001468 CCTTGAATTGCACATATGTGCCCCTTTTTGTACTTCGGCAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
* *** ** *
23001509 CCCTGAATTGTGTATTTGTGCCCCTTTTTGTACTTCAGTAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
** * * *
23001550 TATAGAATTGCATATACATG-CCCTTGTTTGTACTTCGGTAC
1 CCTTGAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTAC
* *
23001591 CCTTGAATTGCACATATGTGCCCCTTTTTGTACTTCGGCAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
* *** ** *
23001632 CCCTGAATTGTGTATTTGTGCCCCTTTTTGTACTTCAGTAC
1 CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
** * * *
23001673 TATAGAATTGCATATACATG-CCCTTGTTTGTACTTCGGTAC
1 CCTTGAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTAC
* * *
23001714 CCTTGAATTGCACATGCATG-CCCTTGTTTGTACTTTGGTAC
1 CCTTGAATTGCACATACGTGCCCCTT-TTTGTACTTCGGTAC
* * * * ** * *
23001755 CCCTGAATAT-CACTTACGTGACCCTGTTTACACTTTGGTAA
1 CCTTGAAT-TGCACATACGTGCCCCTTTTTGTACTTCGGTAC
23001796 CCTTGAAT
1 CCTTGAAT
23001804 CAAGTAAAAT
Statistics
Matches: 402, Mismatches: 90, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
40 15 0.04
41 369 0.92
42 18 0.04
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (41 bp):
CCTTGAATTGCACATACGTGCCCCTTTTTGTACTTCGGTAC
Found at i:23007937 original size:48 final size:48
Alignment explanation
Indices: 23007876--23008094 Score: 294
Period size: 48 Copynumber: 4.6 Consensus size: 48
23007866 GTAACCGTGC
* * * *
23007876 AAGACCATGTCTGGGACATGGCGTCGACATTGCTACATGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAGTGT
* ** * *
23007924 AAGACCATATCTGGGACATGGCATTTGCATTGTTATGTGAGCCAGTAT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAGTGT
* * *
23007972 AAGACCATGTCTGGGATATGGCATTGGCATTGTTACGTAAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAGTGT
* * *
23008020 AAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGACAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAGTGT
*
23008068 AAGACCATGTATGGGACATGGCATCGG
1 AAGACCATGTCTGGGACATGGCATCGG
23008095 TATGAGGCAT
Statistics
Matches: 149, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCAGTGT
Found at i:23011196 original size:18 final size:18
Alignment explanation
Indices: 23011173--23011209 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23011163 AAACACAGAA
23011173 CTCCTTTAGAGTTAAACC
1 CTCCTTTAGAGTTAAACC
23011191 CTCCTTTAGAGTTAAACC
1 CTCCTTTAGAGTTAAACC
23011209 C
1 C
23011210 CAAATCTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (18 bp):
CTCCTTTAGAGTTAAACC
Found at i:23019375 original size:110 final size:111
Alignment explanation
Indices: 23019244--23019465 Score: 428
Period size: 110 Copynumber: 2.0 Consensus size: 111
23019234 GTAACATGAG
23019244 TAATCGGTTAAGAGAAAATGTTCAAGAAATGGTGTTGTTCATGTTATTTGGATGG-AAAAAAATG
1 TAATCGGTTAAGAGAAAATGTTCAAGAAATGGTGTTGTTCATGTTATTTGGATGGAAAAAAAATG
23019308 GTAGTTAGGTGAAGTAGAGTCTAACAAATGAGCACATATGTGCATT
66 GTAGTTAGGTGAAGTAGAGTCTAACAAATGAGCACATATGTGCATT
23019354 TAATCGGTTAAGAGAAAATGTTCAAGAAATGGTGTTGTTCATGTTATTTGGATGGAAAAAAAAAT
1 TAATCGGTTAAGAGAAAATGTTCAAGAAATGGTGTTGTTCATGTTATTTGGATGG-AAAAAAAAT
23019419 GGTAGTTAGGTGAAGTAGAGTCTAACAAATGAGCACATATGTGCATT
65 GGTAGTTAGGTGAAGTAGAGTCTAACAAATGAGCACATATGTGCATT
23019466 AGTTGCTAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 55 0.50
112 55 0.50
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (111 bp):
TAATCGGTTAAGAGAAAATGTTCAAGAAATGGTGTTGTTCATGTTATTTGGATGGAAAAAAAATG
GTAGTTAGGTGAAGTAGAGTCTAACAAATGAGCACATATGTGCATT
Found at i:23019965 original size:159 final size:159
Alignment explanation
Indices: 23019676--23019991 Score: 596
Period size: 159 Copynumber: 2.0 Consensus size: 159
23019666 TAATAATCTT
*
23019676 CTTGGGGACAGCAGCAGTAAGGTGATTTTGGAAAATCGCCATAATTTGTAGGAGTTGAATTAGAA
1 CTTGGGGACAGCAGCAGTAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAATTAGAA
*
23019741 GCTGAATAAATTATGTCATTAAATCTTGAAGAGTCTAATTTCTTAGAAAAGAAACTATAAAAACA
66 GCTGAATAAATTATGTCATTAAAGCTTGAAGAGTCTAATTTCTTAGAAAAGAAACTATAAAAACA
23019806 AAAGAGTTACCGATCTTGAGATATTTGGG
131 AAAGAGTTACCGATCTTGAGATATTTGGG
*
23019835 CTTGGGGACAGCAGCAGTAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAA
1 CTTGGGGACAGCAGCAGTAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAATTAGAA
*
23019900 GCTGAATAAATTATGTCATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAAGAAACTATAAAAACA
66 GCTGAATAAATTATGTCATTAAAGCTTGAAGAGTCTAATTTCTTAGAAAAGAAACTATAAAAACA
23019965 AAAGAGTTACCGATCTTGAGATATTTG
131 AAAGAGTTACCGATCTTGAGATATTTG
23019992 AAGTATTGTG
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 153 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (159 bp):
CTTGGGGACAGCAGCAGTAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAATTAGAA
GCTGAATAAATTATGTCATTAAAGCTTGAAGAGTCTAATTTCTTAGAAAAGAAACTATAAAAACA
AAAGAGTTACCGATCTTGAGATATTTGGG
Found at i:23020530 original size:104 final size:104
Alignment explanation
Indices: 23020310--23020520 Score: 404
Period size: 104 Copynumber: 2.0 Consensus size: 104
23020300 GTCAAGAAAA
*
23020310 ATTTACGGAAATTGATTTGGAGTTTCGTAGCTCCAGTTATAAAAACTTTAGTGACTATTGCTCAG
1 ATTTACAGAAATTGATTTGGAGTTTCGTAGCTCCAGTTATAAAAACTTTAGTGACTATTGCTCAG
23020375 GAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAAAC
66 GAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAAAC
*
23020414 ATTTACAGAAATTGATTTGGAGTTTCGTAGCTCCAGTTATAAAAACTTTAGTGACTGTTGCTCAG
1 ATTTACAGAAATTGATTTGGAGTTTCGTAGCTCCAGTTATAAAAACTTTAGTGACTATTGCTCAG
23020479 GAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAAAC
66 GAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAAAC
23020518 ATT
1 ATT
23020521 AATGAAAATT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (104 bp):
ATTTACAGAAATTGATTTGGAGTTTCGTAGCTCCAGTTATAAAAACTTTAGTGACTATTGCTCAG
GAAGTCAGCTTATAGGGAAATTGTAATTATATTGTAAAC
Found at i:23021144 original size:40 final size:40
Alignment explanation
Indices: 23021062--23021284 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
23021052 TATTTGGATG
* * * *
23021062 ATATCCGGGCTATGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
23021101 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
* *
23021141 ATATCCGGGCTAAGTCCCGAAGG-CGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGTAG-TTGTGCTA-TTGACT
* *
23021181 ATATCCGGGCTAAGTCCCGAAGGCT-TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGG-TAGTTGTGCTATTGACT
* * * * * **
23021221 ATATTCGAGCTAAGACCCGAAGGCATTTGTGCGGGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGC-TATTGACT
*
23021261 ATATCC-GGCTAAATCCCGAAGGTA
1 ATATCCGGGCTAAGTCCCGAAGGTA
23021285 CTTGGGTTTG
Statistics
Matches: 155, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 40 0.26
40 110 0.71
41 5 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGTAGTTGTGCTATTGACT
Found at i:23021201 original size:80 final size:79
Alignment explanation
Indices: 23021062--23021284 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 79
23021052 TATTTGGATG
* * * *
23021062 ATATCCGGGCTATGTCCCGAAGGCATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGTA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGTA
*
23021126 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
23021141 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG-T
*
23021206 -TTTGTGCTAGTGACT
64 AGTTGTGCTAGTGACT
* * * * *
23021221 ATATTCGAGCTAAGACCCGAAGGCATTTGTGCGGGTTGCTATATCC-GGCTAAATCCCGAAGGTA
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGTA
23021285 CTTGGGTTTG
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 38 0.30
80 86 0.67
81 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGTAG
TTGTGCTAGTGACT
Found at i:23036850 original size:193 final size:191
Alignment explanation
Indices: 23036489--23036866 Score: 616
Period size: 193 Copynumber: 2.0 Consensus size: 191
23036479 ACAAATAGAA
*
23036489 GTTATTTATACACTTTCTCCTCAAAATACACTTTAATGTCACCCCCCATGTGTCATGCATAGTGC
1 GTTATTTATACACTTTCCCCTCAAAATACACTTTAATGTCACCCCCCATGTGTCATGCATAGTGC
* *
23036554 TAACAAAACAGTTATCTCACAGCAACAACGCTTTGGCGTAGTCCTTCAAAAAAGTCTTCCTTCAA
66 TAACAAAACAGTTATCTCACAACAACAACGCTCTGGCGTAGTCCTTCAAAAAAGTCTTCCTTCAA
23036619 TCAATAAGCCTAAGAAAGAAAAGGTAACAGGATAAGTTCATAAGAACTTAGTGAGATAACT
131 TCAATAAGCCTAAGAAAGAAAAGGTAACAGGATAAGTTCATAAGAACTTAGTGAGATAACT
* *
23036680 GTTATTTATACATTTTCCCCTCAAAATACAC-TTAGATGTCA-CCCCCATGTGTCATGTATAGTG
1 GTTATTTATACACTTTCCCCTCAAAATACACTTTA-ATGTCACCCCCCATGTGTCATGCATAGTG
23036743 CTAACAAAACAGTTATCTCACAACAACAACAGCGCTCTGGCGTAGTCCTTCAAAAAAGTCTTCCT
65 CTAACAAAACAGTTATCTCACAACAAC-A-A-CGCTCTGGCGTAGTCCTTCAAAAAAGTCTTCCT
* * ** *
23036808 TCAATCAGTAAGTCTAAGATGGAAAAGGTAACAGGCTAAGTTCATAAGAACTTAGTGAG
127 TCAATCAATAAGCCTAAGAAAGAAAAGGTAACAGGATAAGTTCATAAGAACTTAGTGAG
23036867 TTCTAAAGAG
Statistics
Matches: 173, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
190 50 0.29
191 36 0.21
192 1 0.01
193 86 0.50
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (191 bp):
GTTATTTATACACTTTCCCCTCAAAATACACTTTAATGTCACCCCCCATGTGTCATGCATAGTGC
TAACAAAACAGTTATCTCACAACAACAACGCTCTGGCGTAGTCCTTCAAAAAAGTCTTCCTTCAA
TCAATAAGCCTAAGAAAGAAAAGGTAACAGGATAAGTTCATAAGAACTTAGTGAGATAACT
Found at i:23038375 original size:51 final size:51
Alignment explanation
Indices: 23038315--23038417 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
23038305 AAGGTTTCTA
* *
23038315 ATTGCTATGGCTTATTAAATGATAGGTCCTTATGTTTTTATTAGACCATTG
1 ATTGCTATGGCTTATTAAATGAAAGGTCCTTATGTTGTTATTAGACCATTG
23038366 ATTGCTATGGCTTATTAAATGAAAGGTCCTTATGTTGTTATTAGACCATTG
1 ATTGCTATGGCTTATTAAATGAAAGGTCCTTATGTTGTTATTAGACCATTG
23038417 A
1 A
23038418 AAGTGGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (51 bp):
ATTGCTATGGCTTATTAAATGAAAGGTCCTTATGTTGTTATTAGACCATTG
Found at i:23047084 original size:47 final size:47
Alignment explanation
Indices: 23047033--23047342 Score: 458
Period size: 47 Copynumber: 6.6 Consensus size: 47
23047023 GATAATTGTG
* * *
23047033 ATGTGAATGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23047080 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23047127 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23047176 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23047223 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
23047270 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23047317 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
23047343 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:23063341 original size:23 final size:24
Alignment explanation
Indices: 23063315--23063362 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23063305 ATATCCCTAC
* *
23063315 ATGGAGTGTAG-GGTTGGATGGAT
1 ATGGAGTGTAGAGGCTAGATGGAT
*
23063338 ATGGTGTGTAGAGGCTAGATGGAT
1 ATGGAGTGTAGAGGCTAGATGGAT
23063362 A
1 A
23063363 GGATTTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.25, C:0.02, G:0.44, T:0.29
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTAGATGGAT
Found at i:23081766 original size:27 final size:27
Alignment explanation
Indices: 23081736--23081788 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23081726 ATAAAGTTAG
23081736 AGAAATAAATTACATTTGGAAATGAAC
1 AGAAATAAATTACATTTGGAAATGAAC
* *
23081763 AGAACTGAATTACATTTGGAAATGAA
1 AGAAATAAATTACATTTGGAAATGAA
23081789 TGTGGATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (27 bp):
AGAAATAAATTACATTTGGAAATGAAC
Found at i:23082016 original size:15 final size:15
Alignment explanation
Indices: 23081995--23082037 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
23081985 TTGAGTTCAG
23081995 AAAATTATTTAATTA
1 AAAATTATTTAATTA
* *
23082010 GAAATTAATTAATTA
1 AAAATTATTTAATTA
*
23082025 AAAATAATTTAAT
1 AAAATTATTTAAT
23082038 AATATTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AAAATTATTTAATTA
Found at i:23082588 original size:13 final size:13
Alignment explanation
Indices: 23082570--23082598 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23082560 TTTAGTTTAA
23082570 TTAGTTAATTAGT
1 TTAGTTAATTAGT
23082583 TTAGTTAATTAGT
1 TTAGTTAATTAGT
23082596 TTA
1 TTA
23082599 ATAAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:23085614 original size:47 final size:47
Alignment explanation
Indices: 23085556--23085650 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
23085546 ATAGCATGAA
*
23085556 TGAGGATTATAAACTCCTCAAACCACCCTGACCATTCACCAGAGAGG
1 TGAGGAGTATAAACTCCTCAAACCACCCTGACCATTCACCAGAGAGG
*
23085603 TGAGGAGTATAAACTCCTCAAACCACCCTGACCATTCACTAGAGAGG
1 TGAGGAGTATAAACTCCTCAAACCACCCTGACCATTCACCAGAGAGG
23085650 T
1 T
23085651 AAGTCGAGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (47 bp):
TGAGGAGTATAAACTCCTCAAACCACCCTGACCATTCACCAGAGAGG
Found at i:23088091 original size:6 final size:6
Alignment explanation
Indices: 23088080--23088106 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23088070 CCTCCCATCT
23088080 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
23088107 CAATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:23089118 original size:45 final size:45
Alignment explanation
Indices: 23089069--23089192 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 45
23089059 CATTTCATCG
*
23089069 GCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACTA
1 GCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCA
* * *
23089114 GCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCACCG
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
* *
23089159 GCATAATAGCCTACTAGGCTCAAAGGCCCGAATA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
23089193 TAATACCAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (45 bp):
GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
Found at i:23089420 original size:38 final size:38
Alignment explanation
Indices: 23089185--23089393 Score: 355
Period size: 38 Copynumber: 5.5 Consensus size: 38
23089175 GGCTCAAAGG
* *
23089185 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
23089223 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
23089261 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
23089299 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
23089337 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
23089375 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
23089394 TATAGCCTGC
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 160 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Done.