Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 65 of 186
Found at i:20435721 original size:28 final size:28
Alignment explanation
Indices: 20435690--20435771 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
20435680 CAGACATGGG
20435690 CGTGTCATGGCCGTGTGAGAGACACGAA
1 CGTGTCATGGCCGTGTGAGAGACACGAA
*
20435718 CGTGTCATGGCCGTGTGAGAGACACGAG
1 CGTGTCATGGCCGTGTGAGAGACACGAA
* *
20435746 CATGTCATGGTCGTGTGAGAGACACG
1 CGTGTCATGGCCGTGTGAGAGACACG
20435772 GGCAATGGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.20
Consensus pattern (28 bp):
CGTGTCATGGCCGTGTGAGAGACACGAA
Found at i:20441552 original size:16 final size:18
Alignment explanation
Indices: 20441526--20441558 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20441516 TAATATGCTC
20441526 AATTCCACAAA-CATACA
1 AATTCCACAAATCATACA
20441543 AATT-CACAAATCATAC
1 AATTCCACAAATCATAC
20441559 CATATTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (18 bp):
AATTCCACAAATCATACA
Found at i:20445551 original size:22 final size:22
Alignment explanation
Indices: 20445523--20445564 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20445513 GTGTAGCAAT
* *
20445523 CATCGAAAACTTTTTTACATAA
1 CATCGAAAACTCTTTCACATAA
20445545 CATCGAAAACTCTTTCACAT
1 CATCGAAAACTCTTTCACAT
20445565 CTTTTTGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (22 bp):
CATCGAAAACTCTTTCACATAA
Found at i:20449178 original size:16 final size:18
Alignment explanation
Indices: 20449152--20449184 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20449142 TAATATGCTC
20449152 AATTCCACAAA-CATACA
1 AATTCCACAAATCATACA
20449169 AATT-CACAAATCATAC
1 AATTCCACAAATCATAC
20449185 CATATTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (18 bp):
AATTCCACAAATCATACA
Found at i:20449628 original size:27 final size:27
Alignment explanation
Indices: 20449590--20449645 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
20449580 TAGCATCTAA
20449590 AATCAACTTACTAAATGTGTACAATTT
1 AATCAACTTACTAAATGTGTACAATTT
*
20449617 AATCAACTTACTAAATGTGTACATTTT
1 AATCAACTTACTAAATGTGTACAATTT
20449644 AA
1 AA
20449646 CCGTAAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (27 bp):
AATCAACTTACTAAATGTGTACAATTT
Found at i:20460369 original size:15 final size:15
Alignment explanation
Indices: 20460351--20460384 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20460341 TGGGATCTCA
*
20460351 TTATCATGGATTTCT
1 TTATCATGGATTTCC
*
20460366 TTATCTTGGATTTCC
1 TTATCATGGATTTCC
20460381 TTAT
1 TTAT
20460385 TCTAGGCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.56
Consensus pattern (15 bp):
TTATCATGGATTTCC
Found at i:20468767 original size:152 final size:153
Alignment explanation
Indices: 20468549--20468850 Score: 475
Period size: 152 Copynumber: 2.0 Consensus size: 153
20468539 TAAACTTTAA
* *
20468549 GATATTTTTCAGTATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAGCAAGAGAATTCAGT
1 GATATTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAACAAGAGAATTCAGT
20468614 TTCA-TAAAACTACTTCTTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
66 TTCACTAAAACTA-TTCTTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
20468678 TATAATTAACTAGTCTATATACAG
130 TATAATTAACTAGTCTATATACAG
* * *
20468702 GATATTTTTTCAATATTTTGAATTG-TTAGAAG-TTTATGTTTCTTAAGCAACAAGCGAGTTTAG
1 GATA-TTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAACAAGAGAATTCAG
* * *
20468765 TTTCACTAAAACTATTCTTATTTAGATTAATTAGAGTTTTATTGTATTTAGGAGTTTTATTTTGA
65 TTTCACTAAAACTATTCTTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGA
* *
20468830 TATAATTAGCTAGTCTCTATA
130 TATAATTAACTAGTCTATATA
20468851 AAAAAATCTT
Statistics
Matches: 137, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
152 99 0.72
153 19 0.14
154 19 0.14
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (153 bp):
GATATTTTTCAATATTTTGAATTGTTTAGAAGTTTTATGTTTCTTAAGCAACAAGAGAATTCAGT
TTCACTAAAACTATTCTTATTTAGATTAATTAGAGTTTTATTATACTTAGGAGTTTTACTTTGAT
ATAATTAACTAGTCTATATACAG
Found at i:20470636 original size:78 final size:77
Alignment explanation
Indices: 20470500--20470657 Score: 226
Period size: 78 Copynumber: 2.0 Consensus size: 77
20470490 AGTTTGACTT
20470500 AAAATTATTGGATATATATAGAATTACTAAGTGTCTATCTATAGACTTAACAAATGTCTTACAAG
1 AAAATTATTGGATATATATAGAATTACTAAGTGTCTATCTATAGACTTAACAAATGTCTTACAAG
20470565 TATCCTATTAAA
66 TATCCTATTAAA
* * * * * * *
20470577 AAAATGTATTGGATATCTATGGACTTACTAAGTGTCTATTTATAGGCTTACCAAGTGTCTTACAA
1 AAAAT-TATTGGATATATATAGAATTACTAAGTGTCTATCTATAGACTTAACAAATGTCTTACAA
* *
20470642 GTGTCCTATTTAA
65 GTATCCTATTAAA
20470655 AAA
1 AAA
20470658 TAAAATAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 5 0.07
78 66 0.93
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (77 bp):
AAAATTATTGGATATATATAGAATTACTAAGTGTCTATCTATAGACTTAACAAATGTCTTACAAG
TATCCTATTAAA
Found at i:20471017 original size:83 final size:85
Alignment explanation
Indices: 20470865--20471022 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 85
20470855 TGTATTATTA
* ** * **
20470865 TTTTCCTTACTTAAATGTATATTCATTTTGCTTATGTTCATTGTCAAGTATCAAATGGGGTTGGT
1 TTTTCCTTACTCAAATGTATATTCATTTTGCTTATGTTCATCATCAAGTACCAAATGGGGTTGAC
20470930 AATTAAATATGCATTATTGC
66 AATTAAATATGCATTATTGC
*
20470950 TTTT-CTTACTCAAATGTATATTCA-TTTGCTTCTGTTCATCAT-AGAGTACCAAATGGGGTTGA
1 TTTTCCTTACTCAAATGTATATTCATTTTGCTTATGTTCATCATCA-AGTACCAAATGGGGTTGA
20471012 CAATTAAATAT
65 CAATTAAATAT
20471023 TAGGACATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.02
83 41 0.63
84 19 0.29
85 4 0.06
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (85 bp):
TTTTCCTTACTCAAATGTATATTCATTTTGCTTATGTTCATCATCAAGTACCAAATGGGGTTGAC
AATTAAATATGCATTATTGC
Found at i:20474388 original size:13 final size:13
Alignment explanation
Indices: 20474370--20474395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20474360 CTGTGCACCC
20474370 TTAGTTTAGATAA
1 TTAGTTTAGATAA
20474383 TTAGTTTAGATAA
1 TTAGTTTAGATAA
20474396 ACAAATCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:20476060 original size:47 final size:47
Alignment explanation
Indices: 20475991--20476081 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
20475981 GATGAAGTGA
*
20475991 TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTACTTAGTTAAGCT
1 TGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTTAAGCT
*
20476038 TGTTAAATTTGTTCTTAATATTTCTGGATAAGTTACTTAGTTAA
1 TGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTTAA
20476082 AGAAAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (47 bp):
TGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTTAAGCT
Found at i:20477382 original size:31 final size:31
Alignment explanation
Indices: 20477339--20477424 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
20477329 TCAAGCTCAG
20477339 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
20477369 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
20477400 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
20477425 TGTAACAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:20477687 original size:26 final size:26
Alignment explanation
Indices: 20477642--20477712 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
20477632 CTCTTTTAAT
* *
20477642 AACTAGGGC-AAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
20477667 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
20477693 AACTGGGGCAAAA-CCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
20477713 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 15 0.36
26 27 0.64
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:20479729 original size:43 final size:45
Alignment explanation
Indices: 20479595--20479731 Score: 199
Period size: 45 Copynumber: 3.1 Consensus size: 45
20479585 GGATATTACA
**
20479595 AGGCTATAATGCCGGTGATATACTATTCGGGCCTTTAAGCCTAGC
1 AGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCTAGC
*
20479640 AGGCTATAATACCGGTGATATACTATTCGGGCCTTCGAGCCTAGC
1 AGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCTAGC
* *
20479685 AGGCTATAATGCCAGTGAAATGA-TA-TC-GGCCTTCGAGCCTAGC
1 AGGCTATAATGCCGGTGATAT-ACTATTCGGGCCTTCGAGCCTAGC
20479728 AGGC
1 AGGC
20479732 GAAATGCTGA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
43 20 0.24
44 2 0.02
45 62 0.73
46 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (45 bp):
AGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCTAGC
Found at i:20483186 original size:16 final size:16
Alignment explanation
Indices: 20483165--20483197 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20483155 CACAGGTTGG
20483165 AGAGTTTGCATTGATT
1 AGAGTTTGCATTGATT
*
20483181 AGAGTTTGCTTTGATT
1 AGAGTTTGCATTGATT
20483197 A
1 A
20483198 TAGGAAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (16 bp):
AGAGTTTGCATTGATT
Found at i:20486193 original size:21 final size:21
Alignment explanation
Indices: 20486169--20486209 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20486159 TAAACACCTA
*
20486169 TTATTTTTACCTTTTTTTATT
1 TTATTTTTACCTTTATTTATT
*
20486190 TTATTTTTATCTTTATTTAT
1 TTATTTTTACCTTTATTTAT
20486210 ATGTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTTTTACCTTTATTTATT
Found at i:20493289 original size:16 final size:17
Alignment explanation
Indices: 20493259--20493305 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
20493249 ATGATTCGCA
*
20493259 ACATAT-CCGTACAATC
1 ACATATCCCGTGCAATC
20493275 A-ATTATCCC-TGCAATC
1 ACA-TATCCCGTGCAATC
20493291 ACATATCCCGTGCAA
1 ACATATCCCGTGCAA
20493306 ATTCGCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.04
16 17 0.65
17 8 0.31
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.26
Consensus pattern (17 bp):
ACATATCCCGTGCAATC
Found at i:20494224 original size:15 final size:16
Alignment explanation
Indices: 20494196--20494234 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
20494186 ATCAACTTAA
20494196 TTAA-TAAACATTTAT
1 TTAATTAAACATTTAT
20494211 TTAATTAAAC-TTTAT
1 TTAATTAAACATTTAT
20494226 TTAATTAAA
1 TTAATTAAA
20494235 ACTCAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAATTAAACATTTAT
Found at i:20495265 original size:43 final size:43
Alignment explanation
Indices: 20495199--20495283 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
20495189 GGATTCATGT
20495199 AACTTATTCCAAAATCTGAAGGTAAATCTCAATCTCAATTTGA
1 AACTTATTCCAAAATCTGAAGGTAAATCTCAATCTCAATTTGA
*
20495242 AACTTATTCCAAAATCTGGAGGTAAATCTCAATCTCAATTTG
1 AACTTATTCCAAAATCTGAAGGTAAATCTCAATCTCAATTTG
20495284 TAATGACAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (43 bp):
AACTTATTCCAAAATCTGAAGGTAAATCTCAATCTCAATTTGA
Found at i:20498009 original size:37 final size:38
Alignment explanation
Indices: 20497959--20498038 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
20497949 TTATTACGAA
* *
20497959 GTCTTACCCGGAC-ATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAAATTC-CCACACGAAGTCATCGG
*
20497996 GTCTTACCCGGACAAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
20498034 GTCTT
1 GTCTT
20498039 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.34
38 23 0.61
39 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
Found at i:20498235 original size:47 final size:47
Alignment explanation
Indices: 20498210--20498630 Score: 842
Period size: 47 Copynumber: 9.0 Consensus size: 47
20498200 CGGCCCCGTC
20498210 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498257 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498304 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498351 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498398 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498445 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498492 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498539 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
20498586 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
20498631 CTATCATTTC
Statistics
Matches: 374, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 374 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATT
Found at i:20510618 original size:22 final size:21
Alignment explanation
Indices: 20510593--20510646 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
20510583 TGCAGGGCTC
*
20510593 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGT-GACCAAGGG
* **
20510615 ACACGCCCATGTGACCCTGGG
1 ACACGCCCGTGTGACCAAGGG
20510636 ACACGCCCGTG
1 ACACGCCCGTG
20510647 CTACAGGTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACCAAGGG
Found at i:20518114 original size:24 final size:24
Alignment explanation
Indices: 20518086--20518138 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
20518076 AAATCACATT
*
20518086 ACATAGAAACAGAACATTCAATTA
1 ACATAGAAACACAACATTCAATTA
20518110 ACATAGAAACACAACATTCAATTA
1 ACATAGAAACACAACATTCAATTA
20518134 ACATA
1 ACATA
20518139 ATTACATGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.21
Consensus pattern (24 bp):
ACATAGAAACACAACATTCAATTA
Found at i:20521181 original size:21 final size:21
Alignment explanation
Indices: 20521155--20521198 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
20521145 TGAGAACCCT
20521155 TAGCACGAGAATATTCTACCA
1 TAGCACGAGAATATTCTACCA
20521176 TAGCACGAGAATATTCTACCA
1 TAGCACGAGAATATTCTACCA
20521197 TA
1 TA
20521199 TTTAAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (21 bp):
TAGCACGAGAATATTCTACCA
Found at i:20521679 original size:50 final size:50
Alignment explanation
Indices: 20521600--20521701 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
20521590 TACTCCTCTC
*
20521600 TAATGTTGCGGCATTACTGCTCAATACTTATTAGCAAATCTGGACCTTTT
1 TAATGTTGCGGCATTACTGCTCAACACTTATTAGCAAATCTGGACCTTTT
*
20521650 TAATGTTGCGGCATTACTGCTCAGCACTTATTAGCAAATCTGGACCTTTT
1 TAATGTTGCGGCATTACTGCTCAACACTTATTAGCAAATCTGGACCTTTT
20521700 TA
1 TA
20521702 TTCTACTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (50 bp):
TAATGTTGCGGCATTACTGCTCAACACTTATTAGCAAATCTGGACCTTTT
Found at i:20524787 original size:43 final size:42
Alignment explanation
Indices: 20524730--20524891 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
20524720 TGCCATATCT
* * *
20524730 CAGATATGGTCTTACATGTTATCTCATATCGATGCCAATGTCC
1 CAGACATGGTCTTACACG-AATCTCATATCGATGCCAATGTCC
** *
20524773 CAGACATAATCTTACACGAAATCATC-TAACGATGCCAATGTCC
1 CAGACATGGTCTTACACG-AATC-TCATATCGATGCCAATGTCC
*
20524816 CAGACATGGTCTTACACGTAA--TCATAGTACAATGCCAATGTCC
1 CAGACATGGTCTTACACG-AATCTCATA-T-CGATGCCAATGTCC
* *
20524859 CAGACTTGGTCTTACATGCAATCTCATATCGAT
1 CAGACATGGTCTTACACG-AATCTCATATCGAT
20524892 AATCCTAATG
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
43 85 0.88
44 3 0.03
45 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
CAGACATGGTCTTACACGAATCTCATATCGATGCCAATGTCC
Found at i:20527575 original size:46 final size:49
Alignment explanation
Indices: 20527519--20527743 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 49
20527509 TCACTCGTAT
*
20527519 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAA
*
20527565 GAGCCAGTGTAAGACCATTTCTGGGACATGGCATC-G--ACATTGA-GACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATG--AA
* * * ** *
20527613 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAA
* *
20527660 -AGCCAGTGTAAGACCATGTCTGGGACATGGCAT---CTACATGA-GATA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-A
* **
20527705 TGAGCTAGTGTAAGACTGTGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
20527744 ACCTTAACCA
Statistics
Matches: 143, Mismatches: 18, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
44 1 0.01
45 12 0.08
46 30 0.21
47 73 0.51
48 23 0.16
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAA
Found at i:20527682 original size:94 final size:93
Alignment explanation
Indices: 20527519--20527743 Score: 326
Period size: 94 Copynumber: 2.4 Consensus size: 93
20527509 TCACTCGTAT
** *
20527519 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATG
20527584 TCTGGGACATGGCATCGACATTGAGACAA
66 TCTGGGACATGGCATCGACA-TGAGACAA
* *
20527613 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-AGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATG-AGAGCCAGTGTAAGACCAT
* * *
20527677 GTCTGGGACATGGCATCTACATGAGATAT
65 GTCTGGGACATGGCATCGACATGAGACAA
*
20527706 GAGCTAGTGTAAGACTGTGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
20527744 ACCTTAACCA
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
93 20 0.17
94 89 0.75
95 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGACATGAGACAA
Found at i:20529983 original size:40 final size:40
Alignment explanation
Indices: 20529946--20530210 Score: 349
Period size: 40 Copynumber: 6.7 Consensus size: 40
20529936 GCTACTCGTT
* *
20529946 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
20529986 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
20530026 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
20530066 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
20530106 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
20530145 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20530186 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20530211 CATCATTCAA
Statistics
Matches: 206, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 158 0.77
41 13 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20530209 original size:119 final size:121
Alignment explanation
Indices: 20529946--20530210 Score: 367
Period size: 119 Copynumber: 2.2 Consensus size: 121
20529936 GCTACTCGTT
*
20529946 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
20530010 GATTTAGTAACTCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTAGCA
* * *
20530066 CAAATGCCTTCGGGCCTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * ** * *
20530129 GAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAAC-TAGCA
20530186 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20530211 CATCATTCAA
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 69 0.54
120 56 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGACCTTAACCCGGATATAGTAACTAGCA
Found at i:20561814 original size:8 final size:8
Alignment explanation
Indices: 20561801--20561827 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20561791 TTTAAAATAT
20561801 TTATTTTA
1 TTATTTTA
20561809 TTATTTTA
1 TTATTTTA
20561817 TTATTTTA
1 TTATTTTA
20561825 TTA
1 TTA
20561828 CAAAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:20563040 original size:43 final size:42
Alignment explanation
Indices: 20562982--20563102 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 42
20562972 CTGAGATGAT
* *
20562982 ATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCT-TA-TATG
* *
20563025 ATTACGTTTAGGACCATGTCTGGGACATTGGCATCCTTATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCAT-CTTATATG
*
20563068 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATC
20563103 AATATGAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.01
43 65 0.94
44 2 0.03
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCTTATATG
Found at i:20563121 original size:43 final size:43
Alignment explanation
Indices: 20562977--20563143 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
20562967 GATTGCTGAG
* **
20562977 ATGATATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* * * * **
20563019 ATTGTGATTACGTTTAGGACCATGTCTGGGACATTGGCATCCTT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* *
20563063 AT-ATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCATCAAT
* * * * *
20563106 ATGAGATAACATGTAAAATCATATCTGGGATA-TGGCAT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCAT
20563144 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 7 0.07
43 91 0.90
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAAT
Found at i:20572778 original size:42 final size:42
Alignment explanation
Indices: 20572719--20572802 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
20572709 CAAAAACTGG
20572719 TTATGAAAATTTGAATAAGAATTTCCAGTATTCTCTCTTTCT
1 TTATGAAAATTTGAATAAGAATTTCCAGTATTCTCTCTTTCT
20572761 TTATGAAAATTTGAATAAGAATTTCCAGTATTCTCTCTTTCT
1 TTATGAAAATTTGAATAAGAATTTCCAGTATTCTCTCTTTCT
20572803 CTTTTCTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (42 bp):
TTATGAAAATTTGAATAAGAATTTCCAGTATTCTCTCTTTCT
Found at i:20584479 original size:15 final size:15
Alignment explanation
Indices: 20584434--20584541 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
20584424 CCAATATCTC
20584434 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20584449 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
20584464 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20584479 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
20584494 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
20584509 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
20584524 GATACCCATATCTTT
1 GATACCCATATCTTT
20584539 GAT
1 GAT
20584542 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:20584548 original size:30 final size:30
Alignment explanation
Indices: 20584424--20584547 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
20584414 TTTTATTATG
*
20584424 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
20584455 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
20584485 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
20584515 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
20584545 CCA
1 CCA
20584548 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:20589162 original size:30 final size:30
Alignment explanation
Indices: 20589116--20589239 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
20589106 TTTTATTATG
*
20589116 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
20589147 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
20589177 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
20589207 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
20589237 CCA
1 CCA
20589240 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:20589168 original size:15 final size:15
Alignment explanation
Indices: 20589126--20589233 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
20589116 CCAATATCTC
*
20589126 GATACCCATATCTTT
1 GATACCCATATATTT
**
20589141 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
20589156 GATACCCATATATTT
1 GATACCCATATATTT
**
20589171 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
20589186 GATACCCATATCTTT
1 GATACCCATATATTT
** *
20589201 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
20589216 GATACCCATATCTTT
1 GATACCCATATATTT
20589231 GAT
1 GAT
20589234 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 12 0.17
15 45 0.65
16 12 0.17
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:20596530 original size:34 final size:34
Alignment explanation
Indices: 20596490--20596560 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
20596480 AAAGCTAATC
*
20596490 CTAACCTTGTTTCATGCTTGTATAATATGCCAAG
1 CTAACCTTCTTTCATGCTTGTATAATATGCCAAG
20596524 CTAACCTTCTTTCATGCTTGTATAATATGCCAAG
1 CTAACCTTCTTTCATGCTTGTATAATATGCCAAG
20596558 CTA
1 CTA
20596561 TGTATTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (34 bp):
CTAACCTTCTTTCATGCTTGTATAATATGCCAAG
Found at i:20599149 original size:31 final size:31
Alignment explanation
Indices: 20599098--20599158 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
20599088 AGCTACTGAG
*
20599098 TTAAATAAAAAATTTTAAATAGTTCAATGAC
1 TTAAATAAAAAATTTCAAATAGTTCAATGAC
* *
20599129 TTAAATGAAAACTTTCAAATAGTTCAATGA
1 TTAAATAAAAAATTTCAAATAGTTCAATGA
20599159 TCAAATTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAAATAAAAAATTTCAAATAGTTCAATGAC
Found at i:20600415 original size:2 final size:2
Alignment explanation
Indices: 20600408--20600434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20600398 TAAGATTAAA
20600408 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20600435 AAAGAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20601010 original size:74 final size:74
Alignment explanation
Indices: 20600876--20601020 Score: 175
Period size: 74 Copynumber: 2.0 Consensus size: 74
20600866 TATTTATAAA
* * * *
20600876 ATTTATCATATGTATAAATCAAAATTTTAATTTTAATAAAATAATTTGATGAAATTAATTTATTT
1 ATTTATCATATGTATAAATCAAAATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATAT
20600941 GATAAAAAT
66 GATAAAAAT
* * * ** * *
20600950 ATTTATCATATTTATAAAT-AAGAATTTTGATTCTATTAAAAGGGTTTTATTAAATGAATTTATA
1 ATTTATCATATGTATAAATCAA-AATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATA
20601014 TGATAAA
65 TGATAAA
20601021 TAAGAAGTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 2 0.03
74 57 0.97
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (74 bp):
ATTTATCATATGTATAAATCAAAATTTTAATTCTAATAAAAGAATTTGATGAAATGAATTTATAT
GATAAAAAT
Found at i:20601772 original size:420 final size:420
Alignment explanation
Indices: 20600993--20601834 Score: 1675
Period size: 420 Copynumber: 2.0 Consensus size: 420
20600983 TATTAAAAGG
*
20600993 GTTTTATTAAATGAATTTATATGATAAATAAGAAGTTTTATTTTATATTTTATTTTACATTATAT
1 GTTTTATTAAATGAATTTATATAATAAATAAGAAGTTTTATTTTATATTTTATTTTACATTATAT
20601058 ATAAATTATTATGTTTCCATTAAGGAAAAAGTTAAAAAGAAAAAAAAATATTGCTTTAGCTTTGA
66 ATAAATTATTATGTTTCCATTAAGGAAAAAGTTAAAAAGAAAAAAAAATATTGCTTTAGCTTTGA
20601123 GTAACATCTTTTAATTATTTATATAACAAGTAATTTTATATTCAAGGGTGAATGGAAGAGGTAGG
131 GTAACATCTTTTAATTATTTATATAACAAGTAATTTTATATTCAAGGGTGAATGGAAGAGGTAGG
20601188 CAACACTATTGGCCTCCCCTAAAAATGAAGAATTTTGTTTCAAGACTCCTTAAAACTTTTAAATT
196 CAACACTATTGGCCTCCCCTAAAAATGAAGAATTTTGTTTCAAGACTCCTTAAAACTTTTAAATT
20601253 TATAAGTTAATATATAGTACAATTATAGTTTAGACATATAAAAATAATAAAATTCTAATTTAGTT
261 TATAAGTTAATATATAGTACAATTATAGTTTAGACATATAAAAATAATAAAATTCTAATTTAGTT
20601318 CTTTTAAAAACTTTAAAAATATAAGTCAATTATAATAGTCCAATTTTTAATGTTGTCGAAAATGA
326 CTTTTAAAAACTTTAAAAATATAAGTCAATTATAATAGTCCAATTTTTAATGTTGTCGAAAATGA
20601383 TGGGTTTGGAACCCCGTTTCCATAGTCCGA
391 TGGGTTTGGAACCCCGTTTCCATAGTCCGA
20601413 GTTTTATTAAATGAATTTATATAATAAATAAGAAGTTTTATTTTATATTTTATTTTACATTATAT
1 GTTTTATTAAATGAATTTATATAATAAATAAGAAGTTTTATTTTATATTTTATTTTACATTATAT
20601478 ATAAATTATTATGTTTCCATTAAGGAAAAAGTTAAAAAGAAAAAAAAATATTGCTTTAGCTTTGA
66 ATAAATTATTATGTTTCCATTAAGGAAAAAGTTAAAAAGAAAAAAAAATATTGCTTTAGCTTTGA
20601543 GTAACATCTTTTAATTATTTATATAACAAGTAATTTTATATTCAAGGGTGAATGGAAGAGGTAGG
131 GTAACATCTTTTAATTATTTATATAACAAGTAATTTTATATTCAAGGGTGAATGGAAGAGGTAGG
20601608 CAACACTATTGGCCTCCCCTAAAAATGAAGAATTTTGTTTCAAGACTCCTTAAAACTTTTAAATT
196 CAACACTATTGGCCTCCCCTAAAAATGAAGAATTTTGTTTCAAGACTCCTTAAAACTTTTAAATT
20601673 TATAAGTTAATATATAGTACAATTATAGTTTAGACATATAAAAATAATAAAATTCTAATTTAGTT
261 TATAAGTTAATATATAGTACAATTATAGTTTAGACATATAAAAATAATAAAATTCTAATTTAGTT
20601738 CTTTTAAAAACTTTAAAAATATAAGTCAATTATAATAGTCCAATTTTTAATGTTGTCGAAAATGA
326 CTTTTAAAAACTTTAAAAATATAAGTCAATTATAATAGTCCAATTTTTAATGTTGTCGAAAATGA
20601803 TGGGTTTGGAACCCCGTTTCCATAGTCCGA
391 TGGGTTTGGAACCCCGTTTCCATAGTCCGA
20601833 GT
1 GT
20601835 CTGTAAAGAT
Statistics
Matches: 421, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
420 421 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (420 bp):
GTTTTATTAAATGAATTTATATAATAAATAAGAAGTTTTATTTTATATTTTATTTTACATTATAT
ATAAATTATTATGTTTCCATTAAGGAAAAAGTTAAAAAGAAAAAAAAATATTGCTTTAGCTTTGA
GTAACATCTTTTAATTATTTATATAACAAGTAATTTTATATTCAAGGGTGAATGGAAGAGGTAGG
CAACACTATTGGCCTCCCCTAAAAATGAAGAATTTTGTTTCAAGACTCCTTAAAACTTTTAAATT
TATAAGTTAATATATAGTACAATTATAGTTTAGACATATAAAAATAATAAAATTCTAATTTAGTT
CTTTTAAAAACTTTAAAAATATAAGTCAATTATAATAGTCCAATTTTTAATGTTGTCGAAAATGA
TGGGTTTGGAACCCCGTTTCCATAGTCCGA
Found at i:20602087 original size:16 final size:15
Alignment explanation
Indices: 20602059--20602111 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
20602049 TTTATTAATT
*
20602059 TTAATTAAATTTAAG
1 TTAATTAAATTTAAA
20602074 TTAATTAAAGTTTAAA
1 TTAATTAAA-TTTAAA
*
20602090 TTAATT-AATTTAGA
1 TTAATTAAATTTAAA
20602104 TTAATTAA
1 TTAATTAA
20602112 GTTAATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 11 0.32
15 12 0.35
16 11 0.32
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TTAATTAAATTTAAA
Found at i:20602193 original size:4 final size:4
Alignment explanation
Indices: 20602184--20602223 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
20602174 CCATTTAGCT
20602184 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
20602224 CCTAACAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:20613681 original size:4 final size:4
Alignment explanation
Indices: 20613674--20613704 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
20613664 TTATGGGCCC
*
20613674 TATT TATT TACT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
20613705 ATCTTCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:20640427 original size:44 final size:44
Alignment explanation
Indices: 20640358--20640528 Score: 159
Period size: 44 Copynumber: 3.9 Consensus size: 44
20640348 ATGAATTTTG
* *
20640358 GCAAATCTCATCTTCTTGAAGTTGCAGTGAAGCAGATTAAAGTC
1 GCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAGTC
* * *
20640402 GCAAATCTTATCTTCCTGAAATTGCAGTGAAGCTGATTGAAGTC
1 GCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAGTC
* * * * * * * * *
20640446 ACTAACCTTATCTCCCTGAAGTTGCAGTGGAA-TAGGTCGAAAATA
1 GCAAATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGAT-TAAAGTC
20640491 GCAAATCTTAT-TTCCCTGAAGTTGCAGTGGAA-CAGATT
1 GCAAATCTTATCTT-CCTGAAGTTGCAGT-GAAGCAGATT
20640529 GAAGCTATAA
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
44 65 0.65
45 35 0.35
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
GCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTAAAGTC
Found at i:20640748 original size:45 final size:45
Alignment explanation
Indices: 20640358--20640765 Score: 236
Period size: 45 Copynumber: 8.9 Consensus size: 45
20640348 ATGAATTTTG
* * * * * *
20640358 GCAAATCTCATCTTCTTGAAGTTGCAGTGAAGCAGATTAAAG-TC
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
20640402 GCAAATCTTATCTTCCTGAAATTGCAGTGAAGCTGATTGAAG-TCA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A
* * ** * * *
20640447 -CTAACCTTATCTCCCTGAAGTTGCAGTGGAATAGGTCGAAAATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *
20640491 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
* * * * * * * ** *
20640540 TTACAGACCTTATTTCTCTGAAGTTGTAGTAGAATAGA-TCAA-A-A
1 --GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
20640584 -CAAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
*** * * * *
20640628 TTGAATCTTGTCTCCTTGAAATTACAGTGGAGCAGATTGAAGATGGAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT---A
* * * *
20640676 TTTACAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA
1 ---GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *
20640724 GCAAATCTTATCTCCCTGAAGTTGCAGTGGGGTAGATTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
20640766 CTACGAATCC
Statistics
Matches: 277, Mismatches: 68, Indels: 37
0.73 0.18 0.10
Matches are distributed among these distances:
41 24 0.09
42 3 0.01
43 1 0.00
44 71 0.26
45 106 0.38
47 3 0.01
48 2 0.01
49 1 0.00
50 3 0.01
51 63 0.23
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:20640752 original size:96 final size:96
Alignment explanation
Indices: 20640583--20640765 Score: 240
Period size: 96 Copynumber: 1.9 Consensus size: 96
20640573 ATAGATCAAA
* * *** * *
20640583 ACAAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATATTGAATCTTGTCTCCTTGAA
1 ACAAGTCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
20640648 ATTACAGTGGAGCAGATTGAAGATGGAATTT
66 ATTACAGTGGAGCAGATTGAAGATGGAATTT
* **
20640679 ACAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTGAA
1 ACAAGTCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
* * * *
20640744 GTTGCAGTGGGGTAGATTGAAG
66 ATTACAGTGGAGCAGATTGAAG
20640766 CTACGAATCC
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (96 bp):
ACAAGTCTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
ATTACAGTGGAGCAGATTGAAGATGGAATTT
Found at i:20640784 original size:96 final size:96
Alignment explanation
Indices: 20640583--20640805 Score: 232
Period size: 96 Copynumber: 2.3 Consensus size: 96
20640573 ATAGATCAAA
* * * *** * *
20640583 ACAAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATATTGAATCTTGTCTCCTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
* *
20640648 ATTACAGTGGAGCAGATTGAAGATGGAATTT
66 ATTACAGTGGAGCAGATTGAAGATCGAATTC
* * **
20640679 ACAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
* * * * *
20640744 GTTGCAGTGGGGTAGATTGAAGCTACGAA-TC
66 ATTACAGTGGAGCAGATTGAAGAT-CGAATTC
* * *
20640775 CCAAATCTTATTTCCCTGAAGTTACAGTGGA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGA
20640806 ATAGATCAAA
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
96 101 0.97
97 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (96 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAA
ATTACAGTGGAGCAGATTGAAGATCGAATTC
Found at i:20642684 original size:4 final size:4
Alignment explanation
Indices: 20642677--20642707 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
20642667 TTATGAGCCC
*
20642677 TATT TATT TACT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
20642708 ATCTTCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:20648135 original size:26 final size:26
Alignment explanation
Indices: 20648105--20648155 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
20648095 AAATTCCCAT
20648105 CATGGAACATTTACCTAACCCATTAC
1 CATGGAACATTTACCTAACCCATTAC
20648131 CATGGAACATTTACCTAACCCATTA
1 CATGGAACATTTACCTAACCCATTA
20648156 TCAATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.27
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAC
Found at i:20649581 original size:16 final size:16
Alignment explanation
Indices: 20649560--20649605 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
20649550 CGAAATGCCG
20649560 GCTTTTCGGCATTTTA
1 GCTTTTCGGCATTTTA
20649576 GCTTTTCGGCATTTCTA
1 GCTTTTCGGCATTT-TA
20649593 -CTTTTCGGC-TTTT
1 GCTTTTCGGCATTTT
20649606 GCCGATCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.03
15 3 0.10
16 23 0.79
17 2 0.07
ACGTcount: A:0.09, C:0.22, G:0.17, T:0.52
Consensus pattern (16 bp):
GCTTTTCGGCATTTTA
Found at i:20654545 original size:23 final size:24
Alignment explanation
Indices: 20654503--20654580 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 24
20654493 AAGCTCCTCC
*
20654503 TGAGCTGATAGACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
* *
20654528 TGAGCT-AAAATAGTAAGCTCTAA
1 TGAGCTGAAAACAGTAAGCTCTAT
* *
20654551 CGAGCTGAGAACAGTAAGCTC-AT
1 TGAGCTGAAAACAGTAAGCTCTAT
20654574 ATGAGCT
1 -TGAGCT
20654581 TATATATCGG
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 19 0.44
24 18 0.42
25 6 0.14
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:20654579 original size:24 final size:23
Alignment explanation
Indices: 20654503--20654580 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
20654493 AAGCTCCTCC
*
20654503 TGAGCTGATAGACAGTAAGCTCTA
1 TGAGCTGA-AAACAGTAAGCTCTA
*
20654527 TTGAGCT-AAAATAGTAAGCTCTAA
1 -TGAGCTGAAAACAGTAAGCTCT-A
* *
20654551 CGAGCTGAGAACAGTAAGCTCATA
1 TGAGCTGAAAACAGTAAGCTC-TA
20654575 TGAGCT
1 TGAGCT
20654581 TATATATCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
23 17 0.39
24 20 0.45
25 7 0.16
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (23 bp):
TGAGCTGAAAACAGTAAGCTCTA
Found at i:20661222 original size:65 final size:66
Alignment explanation
Indices: 20661100--20661222 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 66
20661090 CTAAACTTAT
* * * * * *
20661100 AGGGTATACTGACTTATGCAACATGGCCAAGTCACACGCCCGTGTGCTAGGCTGTGTGCCAATTA
1 AGGGTATACTGACTTATACAACATAGCCAAGTCACACACCCGTGTGATAGACCGTGTGCCAATTA
20661165 G
66 G
* *
20661166 AGGGTATACTGACTTGTACCACATAGCC-AGTCACACACCCGTGT-ATGAGACCGTGTG
1 AGGGTATACTGACTTATACAACATAGCCAAGTCACACACCCGTGTGAT-AGACCGTGTG
20661223 GAGCATATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
64 1 0.02
65 23 0.48
66 24 0.50
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (66 bp):
AGGGTATACTGACTTATACAACATAGCCAAGTCACACACCCGTGTGATAGACCGTGTGCCAATTA
G
Found at i:20662322 original size:26 final size:23
Alignment explanation
Indices: 20662224--20662329 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 23
20662214 AGCTCCTCCT
* * *
20662224 GAGCTGATGGACAATAAGCTCTATT
1 GAGCTGA-GAACAGTAAGCTCTA-C
*
20662249 GAGTTGA-AACAGTAAGCTCTGAC
1 GAGCTGAGAACAGTAAGCTCT-AC
20662272 GAGCTGAGAACAGTAAGCTCTTAC
1 GAGCTGAGAACAGTAAGCTC-TAC
* *
20662296 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGAGA-A-CAGTAAGCTC-TAC
20662322 GAGCTGAG
1 GAGCTGAG
20662330 GTGAGTTCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
23 17 0.25
24 23 0.34
25 8 0.12
26 19 0.28
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (23 bp):
GAGCTGAGAACAGTAAGCTCTAC
Found at i:20670126 original size:3 final size:3
Alignment explanation
Indices: 20670118--20670148 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20670108 GGTGTTGGTA
20670118 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20670149 TGGTCCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20681440 original size:44 final size:42
Alignment explanation
Indices: 20681293--20681448 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
20681283 TCGTACAATA
* * *
20681293 CCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATTGATG
1 CCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGATG
* * *
20681336 CC-ACTGTCCCAGATAG-GGTCTTACATG-AAATCAAATACGATA
1 CCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAAT-CGATG
* *
20681378 CCATCGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGATG
*
20681422 CCAACGTCCCAGATGTGGTCTTACACG
1 CCAACGTCCCAGACGTGGTCTTACACG
20681449 AAAACACATA
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 3 0.03
42 25 0.27
43 32 0.35
44 31 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCGATG
Found at i:20681442 original size:86 final size:85
Alignment explanation
Indices: 20681290--20681451 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 85
20681280 AGCTCGTACA
* * *
20681290 ATACCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGATAGGGT
1 ATACCAATGTCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
*
20681355 CTTACATGAAATCAAATACG
66 CTTACACGAAATCAAATACG
*
20681375 ATACC-ATCGTCCCAAACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAT-
1 ATACCAAT-GTCCCAAACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGATA
20681436 GTGGTCTTACACGAAA
62 G-GGTCTTACACGAAA
20681452 ACACATATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
84 2 0.03
85 27 0.40
86 34 0.51
87 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATACCAATGTCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
CTTACACGAAATCAAATACG
Found at i:20686714 original size:4 final size:4
Alignment explanation
Indices: 20686705--20686751 Score: 58
Period size: 4 Copynumber: 10.8 Consensus size: 4
20686695 AGTCTTAAAT
20686705 TTTA TTTA TTTA TTATA TATTA TTTA TTTA TTTTA TTTA TTATA TTT
1 TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA -TTTA TTTA TT-TA TTT
20686752 TTTTGTGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 24 0.62
5 14 0.36
6 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:20686729 original size:18 final size:17
Alignment explanation
Indices: 20686705--20686751 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
20686695 AGTCTTAAAT
20686705 TTTATTTATTTATTATA
1 TTTATTTATTTATTATA
*
20686722 TATTATTTATTTATTTTA
1 T-TTATTTATTTATTATA
20686740 TTTATTATATTT
1 TTTATT-TATTT
20686752 TTTTGTGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTATTATA
Found at i:20696391 original size:5 final size:5
Alignment explanation
Indices: 20696381--20696452 Score: 78
Period size: 5 Copynumber: 14.0 Consensus size: 5
20696371 AAACTAAATT
20696381 AATAA AATAAA AATAA AAT-A AATAA AAT-A AATAAA AATAAA TAATAA
1 AATAA AAT-AA AATAA AATAA AATAA AATAA AAT-AA AAT-AA -AATAA
20696428 AACT-A AATAA AATAA AATAA AATAA
1 AA-TAA AATAA AATAA AATAA AATAA
20696453 TATCTTCTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
4 9 0.15
5 33 0.55
6 15 0.25
7 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:20696391 original size:19 final size:19
Alignment explanation
Indices: 20696369--20696449 Score: 87
Period size: 20 Copynumber: 4.3 Consensus size: 19
20696359 AAAAATAGGC
*
20696369 TAAAACTAAATTAATAAAA
1 TAAAACTAAATAAATAAAA
*
20696388 TAAAAATAAAATAAATAAAA
1 TAAAACT-AAATAAATAAAA
*
20696408 TAAATA-AAAATAAAT--AA
1 TAAA-ACTAAATAAATAAAA
20696425 TAAAACTAAATAAAATAAAA
1 TAAAACTAAAT-AAATAAAA
20696445 TAAAA
1 TAAAA
20696450 TAATATCTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.02
17 10 0.19
18 4 0.08
19 14 0.27
20 22 0.42
21 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAACTAAATAAATAAAA
Found at i:20696450 original size:28 final size:28
Alignment explanation
Indices: 20696369--20696454 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
20696359 AAAAATAGGC
*
20696369 TAAAACTAAAT-TAATAAAAT-AAA-AA
1 TAAAACTAAATAAAATAAAATAAAATAA
*
20696394 TAAAA-TAAATAAAATAAATAAAAATAAATAA
1 TAAAACTAAATAAAAT--A-AAATA-AAATAA
20696425 TAAAACTAAATAAAATAAAATAAAATAA
1 TAAAACTAAATAAAATAAAATAAAATAA
20696453 TA
1 TA
20696455 TCTTCTATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
24 5 0.10
25 8 0.16
27 1 0.02
28 11 0.22
29 4 0.08
30 4 0.08
31 7 0.14
32 10 0.20
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (28 bp):
TAAAACTAAATAAAATAAAATAAAATAA
Found at i:20699868 original size:39 final size:39
Alignment explanation
Indices: 20699810--20699888 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
20699800 ACTGTTGCTT
*
20699810 AGGAAGACAGCTTGTAGTGAAATTATGATTATGTGGTAA
1 AGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAA
20699849 AGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAA
1 AGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAA
20699888 A
1 A
20699889 CATTGACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (39 bp):
AGGAAGACAGCTTGCAGTGAAATTATGATTATGTGGTAA
Found at i:20708355 original size:38 final size:38
Alignment explanation
Indices: 20708207--20708366 Score: 180
Period size: 38 Copynumber: 4.2 Consensus size: 38
20708197 ATGATATTTG
* ** *
20708207 TATCCGGCTTAAAGACCGCAGGCTATA-TGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TAGTGCTGGTATTA
*
20708245 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATT-
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-ATTA
* *
20708283 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
* * **
20708321 TATCTGGGTTAAATCCCGCAGGCCTAGTATTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
*
20708359 TATTCGGG
1 TATCCGGG
20708367 CCTTTGAGCC
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
37 4 0.04
38 97 0.93
39 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
Found at i:20708409 original size:45 final size:45
Alignment explanation
Indices: 20708359--20708483 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
20708349 ATTGGTATTA
*
20708359 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
20708404 TATTCGGGCTTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
20708449 TATTCGGG-CTTTCGAGCCTGGCAGGCTATAATGCC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
20708484 AATGAAATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.04
45 69 0.96
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:20708501 original size:45 final size:45
Alignment explanation
Indices: 20708362--20708526 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 45
20708352 GGTATTATAT
* ** * * *
20708362 TCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGACACTAT
1 TCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCAATGAAATACTAA
* * ** * *
20708407 TCGGGCTTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATACTAT
1 TCGGGCTTTCGAGCCTAGCAGGCTATAATGCCAATGAAATACTAA
*
20708452 TCGGGCTTTCGAGCCTGGCAGGCTATAATGCCAATGAAATGA-TAA
1 TCGGGCTTTCGAGCCTAGCAGGCTATAATGCCAATGAAAT-ACTAA
* * *
20708497 TCGGGC-CTCGATCCTAGCAGGCGA-AATGCC
1 TCGGGCTTTCGAGCCTAGCAGGCTATAATGCC
20708527 GGTGATTTGA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 6 0.06
44 18 0.17
45 79 0.76
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (45 bp):
TCGGGCTTTCGAGCCTAGCAGGCTATAATGCCAATGAAATACTAA
Found at i:20713492 original size:43 final size:44
Alignment explanation
Indices: 20713421--20713555 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
20713411 TATCGAAATG
* *
20713421 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
20713465 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
20713508 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
20713553 TGA
1 TGA
20713556 AATGTTATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.46
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:20713537 original size:45 final size:43
Alignment explanation
Indices: 20713438--20713555 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
20713428 CGGGCTTCGG
*
20713438 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
20713481 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
20713526 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
20713556 AATGTTATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 32 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:20713868 original size:38 final size:38
Alignment explanation
Indices: 20713825--20714060 Score: 323
Period size: 38 Copynumber: 6.2 Consensus size: 38
20713815 ATGATATTTG
* ** *
20713825 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
*
20713863 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
20713901 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
20713939 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
20713977 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * ** *
20714015 TATCCGGGTTAAATCCCACAGGCCTAATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
20714053 TATTCGGG
1 TATCCGGG
20714061 CCTTTGAGCC
Statistics
Matches: 182, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
37 1 0.01
38 179 0.98
39 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:20714104 original size:45 final size:45
Alignment explanation
Indices: 20714053--20714176 Score: 187
Period size: 45 Copynumber: 2.8 Consensus size: 45
20714043 GCTGGTATTA
*
20714053 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
20714098 TATTCGGGCCTTTGGGCCTAGTAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
20714143 TATTCGGG-CTTTCAAGCCTAGCAGGCTATAATGC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGC
20714177 TGATGAAATG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 4 0.06
45 67 0.94
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:20715593 original size:30 final size:30
Alignment explanation
Indices: 20715538--20715594 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
20715528 ACCTCAGGGG
* *
20715538 ACATACGGCTGTGAAACATGACCGTGTGTC
1 ACATACGGCTGAGAAACACGACCGTGTGTC
* *
20715568 ACATACGGCTGAGACACACGTCCGTGT
1 ACATACGGCTGAGAAACACGACCGTGT
20715595 CTCTGCCCGT
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:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (30 bp):
ACATACGGCTGAGAAACACGACCGTGTGTC
Found at i:20719926 original size:286 final size:286
Alignment explanation
Indices: 20719414--20719986 Score: 1146
Period size: 286 Copynumber: 2.0 Consensus size: 286
20719404 TCGTAAACAT
20719414 TAAATTAATAATAAAATAATTATTTTGACTTTAGATTTGTGGTCCTGAAACCACTGTTTCAATTT
1 TAAATTAATAATAAAATAATTATTTTGACTTTAGATTTGTGGTCCTGAAACCACTGTTTCAATTT
20719479 GACTAAAAATGGGCTATTACAACTCTCTCCCCTTAGGGATTTTCGTCCCCGAAAAACTTACCAAC
66 GACTAAAAATGGGCTATTACAACTCTCTCCCCTTAGGGATTTTCGTCCCCGAAAAACTTACCAAC
20719544 AAAGAGGTTAGGGTTTTGTTTTCTCATAGCCTCATTGTAACACCTCTAACCTGTATCCATAGTCA
131 AAAGAGGTTAGGGTTTTGTTTTCTCATAGCCTCATTGTAACACCTCTAACCTGTATCCATAGTCA
20719609 AAATAGGGTTACGAGGCATTACCGATCCATCACAACATAAATCATACATATATGCATTCATAATC
196 AAATAGGGTTACGAGGCATTACCGATCCATCACAACATAAATCATACATATATGCATTCATAATC
20719674 AAAATTCATTCAACACATTCACATTG
261 AAAATTCATTCAACACATTCACATTG
20719700 TAAATTAATAATAAAATAATTATTTTGACTTTAGATTTGTGGTCCTGAAACCACTGTTTCAATTT
1 TAAATTAATAATAAAATAATTATTTTGACTTTAGATTTGTGGTCCTGAAACCACTGTTTCAATTT
20719765 GACTAAAAATGGGCTATTACAACTCTCTCCCCTTAGGGATTTTCGTCCCCGAAAAACTTACCAAC
66 GACTAAAAATGGGCTATTACAACTCTCTCCCCTTAGGGATTTTCGTCCCCGAAAAACTTACCAAC
20719830 AAAGAGGTTAGGGTTTTGTTTTCTCATAGCCTCATTGTAACACCTCTAACCTGTATCCATAGTCA
131 AAAGAGGTTAGGGTTTTGTTTTCTCATAGCCTCATTGTAACACCTCTAACCTGTATCCATAGTCA
20719895 AAATAGGGTTACGAGGCATTACCGATCCATCACAACATAAATCATACATATATGCATTCATAATC
196 AAATAGGGTTACGAGGCATTACCGATCCATCACAACATAAATCATACATATATGCATTCATAATC
20719960 AAAATTCATTCAACACATTCACATTG
261 AAAATTCATTCAACACATTCACATTG
20719986 T
1 T
20719987 CCCTTATAAG
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
286 287 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (286 bp):
TAAATTAATAATAAAATAATTATTTTGACTTTAGATTTGTGGTCCTGAAACCACTGTTTCAATTT
GACTAAAAATGGGCTATTACAACTCTCTCCCCTTAGGGATTTTCGTCCCCGAAAAACTTACCAAC
AAAGAGGTTAGGGTTTTGTTTTCTCATAGCCTCATTGTAACACCTCTAACCTGTATCCATAGTCA
AAATAGGGTTACGAGGCATTACCGATCCATCACAACATAAATCATACATATATGCATTCATAATC
AAAATTCATTCAACACATTCACATTG
Found at i:20733383 original size:29 final size:28
Alignment explanation
Indices: 20733335--20733389 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
20733325 TCTCTAAAGT
*
20733335 ACTGATATCATGGCCTGAAGCCAAATCA
1 ACTGATATCATGGCCCGAAGCCAAATCA
*
20733363 ACTGATATGCTTGGCCCGAAGCCAAAT
1 ACTGATAT-CATGGCCCGAAGCCAAAT
20733390 TGGTATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (28 bp):
ACTGATATCATGGCCCGAAGCCAAATCA
Found at i:20734985 original size:27 final size:27
Alignment explanation
Indices: 20734918--20734979 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
20734908 CGTGCTAAAA
*
20734918 AAATGGAAGCCTTTTTGGAAATATATG
1 AAATGGAAGCCTTTCTGGAAATATATG
*
20734945 AAATGGAAGCCTTTCTGGAAATCTATG
1 AAATGGAAGCCTTTCTGGAAATATATG
*
20734972 GAATGGAA
1 AAATGGAA
20734980 AACTTTGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTTTCTGGAAATATATG
Found at i:20735203 original size:27 final size:27
Alignment explanation
Indices: 20735173--20735246 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
20735163 GACTAGAAGG
* *
20735173 TATGGTAAACACTGAAGGAATAGTACA
1 TATGGAAAACACTGAAAGAATAGTACA
** ** *
20735200 TATGGCGAACTTTGAAAGAATAGTGCA
1 TATGGAAAACACTGAAAGAATAGTACA
*
20735227 TATGGAAAACACTGAGAGAA
1 TATGGAAAACACTGAAAGAA
20735247 ACGGTTCCAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (27 bp):
TATGGAAAACACTGAAAGAATAGTACA
Found at i:20736945 original size:45 final size:47
Alignment explanation
Indices: 20736733--20737003 Score: 170
Period size: 46 Copynumber: 5.8 Consensus size: 47
20736723 TCATTTGTGT
* *
20736733 GAGCTAGTGTAAGA-CATGTCTCGGACATGCATGGGC-CATGTTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACA-G-TATGTA
* * * * *
20736779 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAG-ACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA--CAGTATGTA
* * * * * * **
20736827 GTGCTAGTGTCAGA-CATGTCTGGGACATGCATCAGCCTCGGGACATA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCACAGTATGTA
* * * *
20736874 -AGCTAGTATAAGA-TATGTCTGTGACATGTATCGGCTACGAG-ATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-AC-AGTATGTA
*
20736919 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTTATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCACAG-TATGT-A
20736967 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGG
20737004 TACTTTACCC
Statistics
Matches: 173, Mismatches: 33, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
44 10 0.06
45 18 0.10
46 59 0.34
47 30 0.17
48 21 0.12
49 1 0.01
50 33 0.19
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAGTATGTA
Found at i:20743862 original size:35 final size:35
Alignment explanation
Indices: 20743823--20743894 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
20743813 TATGGAAGAA
20743823 AATGAGTCTTGGTTGTCTTATAAACAACTTTTGTG
1 AATGAGTCTTGGTTGTCTTATAAACAACTTTTGTG
20743858 AATGAGTCTTGGTTGTCTTATAAACAACTTTTGTG
1 AATGAGTCTTGGTTGTCTTATAAACAACTTTTGTG
20743893 AA
1 AA
20743895 AGCTGTTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (35 bp):
AATGAGTCTTGGTTGTCTTATAAACAACTTTTGTG
Found at i:20744111 original size:30 final size:30
Alignment explanation
Indices: 20744055--20744111 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20744045 TTTTGGGGTA
* **
20744055 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTCACCAAAGTC
20744085 TAGGGGCAAAATGGTCATTTCACCAAA
1 TAGGGGCAAAATGGTCATTTCACCAAA
20744112 AATATGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTCACCAAAGTC
Found at i:20744676 original size:45 final size:48
Alignment explanation
Indices: 20744456--20744769 Score: 142
Period size: 46 Copynumber: 6.6 Consensus size: 48
20744446 TGTATGAGCT
* * * *
20744456 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACGTATGTGAGAGTC
* * * * *
20744502 AGTGTAAGACCATATTTGGGACATGGCATTGG--CAT-TGAGACGAGTGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATGTGA-GAGT-C
* * * * * *
20744549 GAGTGTAAGA-CATGTTTGGGACAT-GCATCAG--CCT-TGGGACATAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATGTG--A-GAGTC
* * * *
20744596 AGTATAAGA-CATGTCTGGGACAT-GCATCAGCTACG-A-G-GTGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGTACGTATGTGAGAGTC
*
20744640 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGATTATGTGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACG--TATGTGAGAGTC
* * * * *
20744690 AGTGTAAGACCGTGTCTGGGACATGGCATCGGCCT-CG-AAGATAATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--TACGTATG-TGAGAGTC
* *
20744739 AGTGTAAGACCATGTCTAGGATATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
20744770 ACACTTTACC
Statistics
Matches: 210, Mismatches: 37, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
44 10 0.05
45 25 0.12
46 53 0.25
47 28 0.13
48 22 0.10
49 34 0.16
50 35 0.17
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGTATGTGAGAGTC
Found at i:20747780 original size:11 final size:10
Alignment explanation
Indices: 20747764--20747815 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
20747754 AAAAATCTAC
20747764 TTTATTATTGT
1 TTTATT-TTGT
*
20747775 TTTATTTTTTT
1 TTTA-TTTTGT
20747786 TTCTATTTTGT
1 TT-TATTTTGT
*
20747797 TATTATTTTAT
1 T-TTATTTTGT
20747808 TTTATTTT
1 TTTATTTT
20747816 CACTATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 7 0.20
11 23 0.66
12 5 0.14
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTATTTTGT
Found at i:20747800 original size:28 final size:30
Alignment explanation
Indices: 20747759--20747825 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
20747749 GCAACAAAAA
* * *
20747759 TCTACTTTATTATTGTTTTATTTT-TTTT-
1 TCTATTTTGTTATTATTTTATTTTATTTTC
20747787 TCTATTTTGTTATTATTTTATTTTATTTTC
1 TCTATTTTGTTATTATTTTATTTTATTTTC
*
20747817 ACTATTTTG
1 TCTATTTTG
20747826 CTACCATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 21 0.64
29 4 0.12
30 8 0.24
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.72
Consensus pattern (30 bp):
TCTATTTTGTTATTATTTTATTTTATTTTC
Found at i:20766133 original size:67 final size:67
Alignment explanation
Indices: 20766023--20766448 Score: 339
Period size: 67 Copynumber: 6.4 Consensus size: 67
20766013 GCTGTAATGA
* * * *
20766023 GGTATGATGTGTAAGACCATATCTCAACTATGGA-AACATAGAGAGTTTGCCAGAACATTAAACA
1 GGTATGATGTGTAAGACCATAGCTCAGCTAT-GACAACATAGAGAGTCTGCCAGGACATTAAACA
20766087 TAG
65 TAG
* * * * * **
20766090 GGTATGATGCGTAAAACCATAGCTCATCTATGACAACAAAGAGAATCTGTTAGGACATTAAACAT
1 GGTATGATGTGTAAGACCATAGCTCAGCTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
20766155 -G
66 AG
* * * ** *
20766156 AGGTATGATGTGTAAGACGATAGCTCGGCTATGGCAACATAGAGAGTCCACCAGGACATCAAACA
1 -GGTATGATGTGTAAGACCATAGCTCAGCTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
*
20766221 TAA
65 TAG
* * ** * * * * *
20766224 AGTATGATGTGTAAAACCATATTTCGGCGATGACAATATAGAGAGTCCGTCAGGACATTAAACAT
1 GGTATGATGTGTAAGACCATAGCTCAGCTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
20766289 -G
66 AG
* * * * *
20766290 CGATATGATGTGTAAGACTATAGCT-AGGCTATGACAACATACAGTGTCTGCGAAGG-CATTAAA
1 -GGTATGATGTGTAAGACCATAGCTCA-GCTATGACAACATAGAGAGTCTGC-CAGGACATTAAA
20766353 CATAG
63 CATAG
* ** * * * *
20766358 GGTATGATGTGTAAGAACATTTCT-TGACTATGTA-AACGTGGAGAGTCCT-CCATGACATTAAA
1 GGTATGATGTGTAAGACCATAGCTCAG-CTATG-ACAACATAGAGAGT-CTGCCAGGACATTAAA
20766420 CAT-G
63 CATAG
* *
20766424 AGGTATGATGTGTAAAACTATAGCT
1 -GGTATGATGTGTAAGACCATAGCT
20766449 TGGCTATAGT
Statistics
Matches: 280, Mismatches: 67, Indels: 24
0.75 0.18 0.06
Matches are distributed among these distances:
66 7 0.03
67 266 0.95
68 7 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (67 bp):
GGTATGATGTGTAAGACCATAGCTCAGCTATGACAACATAGAGAGTCTGCCAGGACATTAAACAT
AG
Found at i:20766354 original size:134 final size:134
Alignment explanation
Indices: 20766019--20766455 Score: 404
Period size: 134 Copynumber: 3.3 Consensus size: 134
20766009 ATGGGCTGTA
* * * * *** * *
20766019 ATGAGGTATGATGTGTAAGACCATATCTCA-ACTATGGA-AACATAGAGAGTTTGCCAGAACATT
1 ATGAGGTATGATGTGTAAGACTATAGCT-AGGCTAT-GACAACATACAGAGTCCACAAGGACATT
* ** * * * *
20766082 AAACATAGGGTATGATGCGTAAAACCATAGCTC-ATCTATGACAACAAAGAGAATCTGTTAGGAC
64 AAACATAGGGTATGATGTGTAAAACCATATTTCGA-CTATGACAACATAGAGAGTCCGTCAGGAC
20766146 ATTAAAC
128 ATTAAAC
* * * * * *
20766153 ATGAGGTATGATGTGTAAGACGATAGCTCGGCTATGGCAACATAGAGAGTCCACCAGGACATCAA
1 ATGAGGTATGATGTGTAAGACTATAGCTAGGCTATGACAACATACAGAGTCCACAAGGACATTAA
** * * *
20766218 ACATAAAGTATGATGTGTAAAACCATATTTCGGCGATGACAATATAGAGAGTCCGTCAGGACATT
66 ACATAGGGTATGATGTGTAAAACCATATTTCGACTATGACAACATAGAGAGTCCGTCAGGACATT
20766283 AAAC
131 AAAC
* * * **
20766287 ATGCGATATGATGTGTAAGACTATAGCTAGGCTATGACAACATACAGTGTCTGCGAAGG-CATTA
1 ATGAGGTATGATGTGTAAGACTATAGCTAGGCTATGACAACATACAGAGTCCAC-AAGGACATTA
* * * *
20766351 AACATAGGGTATGATGTGTAAGAA-CAT-TTCTTGACTATGTA-AACGTGGAGAGTCC-TCCATG
65 AACATAGGGTATGATGTGTAA-AACCATATT-TCGACTATG-ACAACATAGAGAGTCCGT-CAGG
20766412 ACATTAAAC
126 ACATTAAAC
* *
20766421 ATGAGGTATGATGTGTAAAACTATAGCTTGGCTAT
1 ATGAGGTATGATGTGTAAGACTATAGCTAGGCTAT
20766456 AGTAGCATAC
Statistics
Matches: 249, Mismatches: 46, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
133 4 0.02
134 239 0.96
135 6 0.02
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (134 bp):
ATGAGGTATGATGTGTAAGACTATAGCTAGGCTATGACAACATACAGAGTCCACAAGGACATTAA
ACATAGGGTATGATGTGTAAAACCATATTTCGACTATGACAACATAGAGAGTCCGTCAGGACATT
AAAC
Found at i:20766581 original size:54 final size:54
Alignment explanation
Indices: 20766474--20766581 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
20766464 ACGGAGTCTG
* * * * *
20766474 TTGGGATAATAAATACAAGGTAGTCTGCCGTGATAATAAAAGTGGGGTTGTCCA
1 TTGGGACAATAAAAACAAGGTAGTCTGCCATGATAATAAAAGTGGGATAGTCCA
* * **
20766528 TTGGGACAATAAAAACAAGGTAGTTTTCCATGATGGTAAACA-TGGGATAGTCCA
1 TTGGGACAATAAAAACAAGGTAGTCTGCCATGATAATAAA-AGTGGGATAGTCCA
20766582 CCCAAATAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (54 bp):
TTGGGACAATAAAAACAAGGTAGTCTGCCATGATAATAAAAGTGGGATAGTCCA
Found at i:20768480 original size:28 final size:27
Alignment explanation
Indices: 20768440--20768548 Score: 141
Period size: 28 Copynumber: 4.0 Consensus size: 27
20768430 TAAATTGTAC
20768440 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTAT-T
*
20768468 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTAT-T
*
20768496 AGCACTAAGTGTGCGAG-TTCGACTATT
1 AGCACTAAGTGTGCGAGCTT-GATTATT
*
20768523 AAGCACTAAGTGTGCGGGCTT-ATTAT
1 -AGCACTAAGTGTGCGAGCTTGATTAT
20768549 ACATTCTCTA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
27 7 0.10
28 64 0.88
29 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTTGATTATT
Found at i:20768509 original size:56 final size:57
Alignment explanation
Indices: 20768412--20768538 Score: 170
Period size: 56 Copynumber: 2.2 Consensus size: 57
20768402 CATGAGATTG
* * *
20768412 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGCTT-GATTATGT-A
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTCGACTAT-TAA
* *
20768469 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTCGACTATTAA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTCGACTATTAA
20768525 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
20768539 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
55 3 0.05
56 42 0.67
57 18 0.29
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTCGACTATTAA
Found at i:20772439 original size:15 final size:16
Alignment explanation
Indices: 20772411--20772440 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20772401 GTTGGACTAA
20772411 ATTGAATATGAGTTAT
1 ATTGAATATGAGTTAT
20772427 ATTGAAT-TGAGTTA
1 ATTGAATATGAGTTA
20772441 AATTCATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (16 bp):
ATTGAATATGAGTTAT
Found at i:20774033 original size:15 final size:15
Alignment explanation
Indices: 20774015--20774044 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20774005 TCAGCCTTGT
20774015 GTGAAACATGGCCAG
1 GTGAAACATGGCCAG
*
20774030 GTGACACATGGCCAG
1 GTGAAACATGGCCAG
20774045 ATGACACGGC
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:0.30, C:0.23, G:0.33, T:0.13
Consensus pattern (15 bp):
GTGAAACATGGCCAG
Found at i:20774049 original size:15 final size:15
Alignment explanation
Indices: 20774020--20774051 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20774010 CTTGTGTGAA
*
20774020 ACATGGCCAGGTGAC
1 ACATGGCCAGATGAC
20774035 ACATGGCCAGATGAC
1 ACATGGCCAGATGAC
20774050 AC
1 AC
20774052 GGCAAGTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.12
Consensus pattern (15 bp):
ACATGGCCAGATGAC
Found at i:20786238 original size:40 final size:40
Alignment explanation
Indices: 20786179--20786311 Score: 180
Period size: 40 Copynumber: 3.4 Consensus size: 40
20786169 TAACTTGCAA
* *
20786179 GGGACTTAGCCTGGTTATAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
* *
20786219 GGGACTTAGCCCGGATATAGTAACTCGCACAACTACCTTC
1 GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
* * *
20786259 GGG-CTTAGCCCGGA-ATTAGTCACTAGTACAAATGCCTTC
1 GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTC
20786298 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
20786312 GTATCAATCC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.39
40 49 0.60
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
Found at i:20794572 original size:23 final size:23
Alignment explanation
Indices: 20794546--20794597 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
20794536 GCCATATCTC
20794546 ACATGTCACCCAATACTTTGCAA
1 ACATGTCACCCAATACTTTGCAA
20794569 ACATGTCACCCAATACTTTGCAA
1 ACATGTCACCCAATACTTTGCAA
20794592 ACATGT
1 ACATGT
20794598 TGCATGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.27
Consensus pattern (23 bp):
ACATGTCACCCAATACTTTGCAA
Found at i:20802872 original size:21 final size:21
Alignment explanation
Indices: 20802846--20802911 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
20802836 GGAAAAAAAT
20802846 CAGCCATTCTTCACCCTCATC
1 CAGCCATTCTTCACCCTCATC
* * **
20802867 CAGCCAAAT-TT--CTCAAAT-
1 CAGCC-ATTCTTCACCCTCATC
20802885 CAGCCATTCTTCACCCTCATC
1 CAGCCATTCTTCACCCTCATC
20802906 CAGCCA
1 CAGCCA
20802912 AATTTCTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
17 2 0.06
18 7 0.22
19 4 0.12
20 4 0.12
21 13 0.41
22 2 0.06
ACGTcount: A:0.26, C:0.42, G:0.06, T:0.26
Consensus pattern (21 bp):
CAGCCATTCTTCACCCTCATC
Found at i:20802896 original size:39 final size:39
Alignment explanation
Indices: 20802842--20802921 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
20802832 TGAAGGAAAA
20802842 AAATCAGCCATTCTTCACCCTCATCCAGCCAAATTTCTC
1 AAATCAGCCATTCTTCACCCTCATCCAGCCAAATTTCTC
20802881 AAATCAGCCATTCTTCACCCTCATCCAGCCAAATTTCTC
1 AAATCAGCCATTCTTCACCCTCATCCAGCCAAATTTCTC
20802920 AA
1 AA
20802922 GCCCTCCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.38, G:0.05, T:0.28
Consensus pattern (39 bp):
AAATCAGCCATTCTTCACCCTCATCCAGCCAAATTTCTC
Found at i:20814892 original size:24 final size:24
Alignment explanation
Indices: 20814842--20814893 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
20814832 CTCCAAATAA
* * *
20814842 TTTTCCCCAAATCCCTAAGTTAGT
1 TTTTCCCCAAATCACTAACTTAAT
* *
20814866 TTTTCCCCAATTCATTAACTTAAT
1 TTTTCCCCAAATCACTAACTTAAT
20814890 TTTT
1 TTTT
20814894 TTCTTTCCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (24 bp):
TTTTCCCCAAATCACTAACTTAAT
Found at i:20816300 original size:28 final size:30
Alignment explanation
Indices: 20816258--20816314 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
20816248 AAGCTTATCT
* *
20816258 TTTATTTAAACATTTGA-TTTT-ACTCAAA
1 TTTAATTAAAAATTTGAGTTTTGACTCAAA
*
20816286 TTTAATTAAAAATTTTAGTTTTGACTCAA
1 TTTAATTAAAAATTTGAGTTTTGACTCAA
20816315 TTAAGGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
29 4 0.17
30 6 0.25
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (30 bp):
TTTAATTAAAAATTTGAGTTTTGACTCAAA
Found at i:20816453 original size:29 final size:28
Alignment explanation
Indices: 20816412--20816475 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
20816402 TATAATTTTA
*
20816412 TATTCTTTAGAAAGATT-AAATCAAAATTT
1 TATTATTTAGAAAG-TTAAAAT-AAAATTT
* *
20816441 TATTATTTTGAAAGTTCAAAATGAAATTT
1 TATTATTTAGAAAGTT-AAAATAAAATTT
20816470 TATTAT
1 TATTAT
20816476 GTATTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (28 bp):
TATTATTTAGAAAGTTAAAATAAAATTT
Found at i:20817153 original size:29 final size:29
Alignment explanation
Indices: 20817111--20817168 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20817101 TATTGTCATT
20817111 TAGATTTGAAGTTTGTTGTTGGATTTGAA
1 TAGATTTGAAGTTTGTTGTTGGATTTGAA
20817140 TAGATTTGAAGTTTGTTGTTGGATTTGAA
1 TAGATTTGAAGTTTGTTGTTGGATTTGAA
20817169 GTTACAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (29 bp):
TAGATTTGAAGTTTGTTGTTGGATTTGAA
Found at i:20820641 original size:196 final size:195
Alignment explanation
Indices: 20820308--20820693 Score: 718
Period size: 196 Copynumber: 2.0 Consensus size: 195
20820298 ATAGCAACAA
20820308 GCTATCTCATCAAACTCTTCCTAGCGTTTTCTGGCCTTAACTTGAGTGGTCGAGGGCACTTAGTA
1 GCTATCTCATCAAACTCTTCCTAGCGTTTTCTGGCCTTAACTTGAGTGGTCGAGGGCACTTAGTA
*
20820373 TCAAGAACAATTTTAAGTTTCTCACAACATAAGACAATTATCAATTTCCTTTTCCATTCATTACA
66 TCAAGAACAATTTTAAGTTTCTCACAACATAAGACAATTATCAAGTTCCTTTTCCATTCATTACA
20820438 GTTGTTTCCGTTGAGTTTGTTTTCAGTGACTATGTTCAATAAGGGAGTTGGTGCCATTTTGTGTT
131 GTTGTTTCCGTTGAGTTTGTTTTCAGTGACTATGTTCAATAAGGGAGTTGGTGCCATTTTGTGTT
20820503 GCTATCTCATCAAACTCTTCCTAGCGTTTTCTGGCCTTAACTTGAGTGGTCGGAGGGCACTTAGT
1 GCTATCTCATCAAACTCTTCCTAGCGTTTTCTGGCCTTAACTTGAGTGGTC-GAGGGCACTTAGT
* * *
20820568 ATCAAGAACATTTTTAAGTTTCTCACAACTTAAGACAATTATCAAGTTCCTTTTCCATTCCTTAC
65 ATCAAGAACAATTTTAAGTTTCTCACAACATAAGACAATTATCAAGTTCCTTTTCCATTCATTAC
*
20820633 AGTTGTTTCTGTTGAGTTTGTTTTCAGTGACTATGTTCAATAAGGGAGTTGGTGCCATTTT
130 AGTTGTTTCCGTTGAGTTTGTTTTCAGTGACTATGTTCAATAAGGGAGTTGGTGCCATTTT
20820694 CATATTGAAA
Statistics
Matches: 185, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
195 51 0.28
196 134 0.72
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (195 bp):
GCTATCTCATCAAACTCTTCCTAGCGTTTTCTGGCCTTAACTTGAGTGGTCGAGGGCACTTAGTA
TCAAGAACAATTTTAAGTTTCTCACAACATAAGACAATTATCAAGTTCCTTTTCCATTCATTACA
GTTGTTTCCGTTGAGTTTGTTTTCAGTGACTATGTTCAATAAGGGAGTTGGTGCCATTTTGTGTT
Found at i:20826068 original size:54 final size:54
Alignment explanation
Indices: 20826010--20826116 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
20826000 CCTAAAACTC
* * *
20826010 TAAACCCCCAA-AAATCATAAACATTAATCTATAACCCCTAAAACACTAAACCCA
1 TAAA-CCCCAAGAAACCATAAACACTAAACTATAACCCCTAAAACACTAAACCCA
** * * *
20826064 TAAACCTTAAGAAACCTTAAACACTAAAGTATAACCCCTAAAACCCTAAACCC
1 TAAACCCCAAGAAACCATAAACACTAAACTATAACCCCTAAAACACTAAACCC
20826117 CAAAAAAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (54 bp):
TAAACCCCAAGAAACCATAAACACTAAACTATAACCCCTAAAACACTAAACCCA
Found at i:20826251 original size:7 final size:7
Alignment explanation
Indices: 20826241--20826288 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
20826231 GGGTTTAATA
20826241 TTTAAGG
1 TTTAAGG
20826248 TTTAAGG
1 TTTAAGG
* *
20826255 TCTATGG
1 TTTAAGG
*
20826262 TTTAGGG
1 TTTAAGG
*
20826269 TTTTATGG
1 -TTTAAGG
20826277 TTTAAGG
1 TTTAAGG
20826284 TTTAA
1 TTTAA
20826289 TGGCCATGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:20826277 original size:15 final size:15
Alignment explanation
Indices: 20826241--20826291 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
20826231 GGGTTTAATA
*
20826241 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
20826255 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
20826270 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
20826285 TTAATGG
1 TTTATGG
20826292 CCATGGGTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:20826594 original size:15 final size:16
Alignment explanation
Indices: 20826574--20826603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20826564 TAAGGGTTAA
20826574 GAGTTA-GGGGTTTAT
1 GAGTTATGGGGTTTAT
20826589 GAGTTATGGGGTTTA
1 GAGTTATGGGGTTTA
20826604 GGGTTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (16 bp):
GAGTTATGGGGTTTAT
Found at i:20826661 original size:7 final size:7
Alignment explanation
Indices: 20826649--20826686 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
20826639 AAGAGGACAT
20826649 GGGTTAG
1 GGGTTAG
*
20826656 GGGTTAA
1 GGGTTAG
20826663 GGGTTAG
1 GGGTTAG
20826670 GGGTTAG
1 GGGTTAG
20826677 GGGTTTAG
1 GGG-TTAG
20826685 GG
1 GG
20826687 TAATTAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:20826815 original size:17 final size:17
Alignment explanation
Indices: 20826789--20826832 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
20826779 AATCTATATA
* *
20826789 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
20826806 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
20826822 TTAAAAAATTT
1 TTAAAAAATTT
20826833 TCCAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:20826983 original size:15 final size:16
Alignment explanation
Indices: 20826963--20826994 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
20826953 TAAGTGATTG
20826963 TTTTTTAA-TTTATAT
1 TTTTTTAATTTTATAT
20826978 TTTTTTAATTTTATAT
1 TTTTTTAATTTTATAT
20826994 T
1 T
20826995 AAATAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTAATTTTATAT
Found at i:20827534 original size:115 final size:115
Alignment explanation
Indices: 20827120--20827551 Score: 519
Period size: 116 Copynumber: 3.7 Consensus size: 115
20827110 AAATGACACT
* * * * ** *
20827120 GTTTTATTGGATTTGTTAGTGGCGTTTT-GTGTAAAATGTTGCAATAGGTGCGTTTTTAGCGGCA
1 GTTTTGTTGGA-TTATTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTGCGTTTTTAGCGGCG
* * *
20827184 CTAGGGTATAAACGCCACTAATGGTGATTTCGTTTAAAACAAAACGGCGAA
65 CTAGGGTATAAACGCCACTAAAGGTGATTTCGTTTAAAACAAAACAGCGAC
** * *
20827235 GTTTTGTTGGATTATTAGTGGCGTTTTAGGAAAAAATCGCCGTAATTGGTGCGTTTTTAGCGGCG
1 GTTTTGTTGGATTATTAGTGGCGTTTTAGGGTAAAA-CGCCGCAATAGGTGCGTTTTTAGCGGCG
* *
20827300 CTAGGGTATAAACGCCACTAAAGGTGATTCCGGTTAAAACAAAA-AGGGCGAC
65 CTAGGGTATAAACGCCACTAAAGGTGATTTCGTTTAAAACAAAACA--GCGAC
* * * * * * *
20827352 GTTTTGTTGGATTATTAGTGGCATTTTAAGGTTAAATGCCGCAATATGTGCGTTTTTGGCGGTGC
1 GTTTTGTTGGATTATTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTGCGTTTTTAGCGGCGC
* **
20827417 TA-GGTCAAAAACGCTGCTAAAGGTGATTTCGTTTAAAACAAAACAGCGAC
66 TAGGGT-ATAAACGCCACTAAAGGTGATTTCGTTTAAAACAAAACAGCGAC
* * * *
20827467 GTTTTGTTGAATTATTAATGGCGTTTTGGGGTAAAACACCGCAATAGGTGCGTTTTTAGCGGCGC
1 GTTTTGTTGGATTATTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTGCGTTTTTAGCGGCGC
*
20827532 TAGGGTATAAACGCCGCTAA
66 TAGGGTATAAACGCCACTAA
20827552 TGTTAAATTA
Statistics
Matches: 265, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
114 15 0.06
115 91 0.34
116 123 0.46
117 36 0.14
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (115 bp):
GTTTTGTTGGATTATTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTGCGTTTTTAGCGGCGC
TAGGGTATAAACGCCACTAAAGGTGATTTCGTTTAAAACAAAACAGCGAC
Found at i:20830396 original size:52 final size:52
Alignment explanation
Indices: 20830337--20830515 Score: 331
Period size: 52 Copynumber: 3.4 Consensus size: 52
20830327 ATATAATAAT
20830337 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACGTAAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACGTAAC
* *
20830389 TTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACATAAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACGTAAC
*
20830441 TTACAAAACTCACATAATACATAAATATATATCATATCATAACTTACGTAAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACGTAAC
20830493 TTACAAAACTTACATAATACATA
1 TTACAAAACTTACATAATACATA
20830516 CCTTATATGA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (52 bp):
TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTACGTAAC
Found at i:20830439 original size:9 final size:9
Alignment explanation
Indices: 20830427--20830509 Score: 64
Period size: 9 Copynumber: 9.4 Consensus size: 9
20830417 ATATCATATA
20830427 ATAACTTAC
1 ATAACTTAC
20830436 ATAACTTAC
1 ATAACTTAC
* *
20830445 AAAACTCAC
1 ATAACTTAC
20830454 ATAA--TAC
1 ATAACTTAC
* *
20830461 ATAA-ATAT
1 ATAACTTAC
* *
20830469 ATATCATATC
1 ATAACTTA-C
20830479 ATAACTTAC
1 ATAACTTAC
*
20830488 GTAACTTAC
1 ATAACTTAC
*
20830497 AAAACTTAC
1 ATAACTTAC
20830506 ATAA
1 ATAA
20830510 TACATACCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
7 6 0.10
8 5 0.09
9 41 0.71
10 6 0.10
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:20830439 original size:61 final size:60
Alignment explanation
Indices: 20830337--20830590 Score: 220
Period size: 61 Copynumber: 4.5 Consensus size: 60
20830327 ATATAATAAT
*
20830337 TTACAAAACTTACATAATACATAAATATATATCATATCATAAC-T--T-ACGT----AAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTCATAACTTACAAAAC
*
20830389 TTACAAAACTTACATAATACATAAATATATATC--AT-AT-A----ATAACTTACATAAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTCATAACTTACAAAAC
* *
20830441 TTACAAAACTCACATAATACATAAATATATATCATATCATAACTTACGTAACTTACAAAAC
1 TTACAAAACTTACATAATACATAAATATATATCATATCATAACTT-CATAACTTACAAAAC
* * * * * *
20830502 TTACATAA--TACATACCTTATATGAATTTATATCATATCATAACTTGCATAACATACAAAAC
1 TTACAAAACTTACATA--ATACATAAATATATATCATATCATAACTT-CATAACTTACAAAAC
** * *
20830563 TTACTTACCTTACGTAATACATAAATAT
1 TTACAAAACTTACATAATACATAAATAT
20830591 GCACTTGAAA
Statistics
Matches: 163, Mismatches: 20, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
47 1 0.01
48 4 0.02
49 2 0.01
50 2 0.01
52 68 0.42
54 2 0.01
55 2 0.01
56 1 0.01
59 5 0.03
61 71 0.44
63 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (60 bp):
TTACAAAACTTACATAATACATAAATATATATCATATCATAACTTCATAACTTACAAAAC
Found at i:20830545 original size:52 final size:52
Alignment explanation
Indices: 20830332--20830566 Score: 326
Period size: 52 Copynumber: 4.3 Consensus size: 52
20830322 ATATCATATA
*
20830332 ATAATTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTAC
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTAC
* *
20830384 GTAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTAC
*
20830436 ATAACTTACAAAACTCACATAATACATAAATATATATCATATCATAACTTAC
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTAC
* *
20830488 GTAACTTACAAAACTTACATAATACATACCTTATATGAATTTATATCATATCATAACTTGC
1 ATAACTTACAAAACTTACATAATACATA----A-AT--A--TATATCATATCATAACTTAC
*
20830549 ATAACATACAAAACTTAC
1 ATAACTTACAAAACTTAC
20830567 TTACCTTACG
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
52 124 0.76
56 1 0.01
57 2 0.01
59 1 0.01
61 35 0.21
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (52 bp):
ATAACTTACAAAACTTACATAATACATAAATATATATCATATCATAACTTAC
Found at i:20832381 original size:12 final size:12
Alignment explanation
Indices: 20832364--20832389 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20832354 AAGATCGAGG
20832364 GATGAATCTGAT
1 GATGAATCTGAT
20832376 GATGAATCTGAT
1 GATGAATCTGAT
20832388 GA
1 GA
20832390 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:20835721 original size:13 final size:13
Alignment explanation
Indices: 20835705--20835737 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
20835695 TTATAAATAT
*
20835705 TTATAATGTTTCA
1 TTATAATGTTTAA
20835718 TTATAATGTTTAA
1 TTATAATGTTTAA
20835731 TTATAAT
1 TTATAAT
20835738 TCATCGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (13 bp):
TTATAATGTTTAA
Found at i:20836151 original size:21 final size:21
Alignment explanation
Indices: 20836118--20836157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20836108 TAGAGCGGAT
*
20836118 GCAGAAGCGAGGGAGGCAGTG
1 GCAGAAGCAAGGGAGGCAGTG
*
20836139 GCAGCAGCAAGGGAGGCAG
1 GCAGAAGCAAGGGAGGCAG
20836158 AGCAGAGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.50, T:0.03
Consensus pattern (21 bp):
GCAGAAGCAAGGGAGGCAGTG
Found at i:20836593 original size:43 final size:43
Alignment explanation
Indices: 20836540--20836653 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 43
20836530 TAACAAAAAT
* * *
20836540 GCCGCAAAAAGTCATGACTTTTAGCGGCACTTTTATCACAAAC
1 GCCGCTAAAAGACATGACTTTTAGCGGCACTTTTACCACAAAC
** * * * *
20836583 GCCTTTAAAAGAAATAACTTTTAGAGGCACTTTTCCCACAAAC
1 GCCGCTAAAAGACATGACTTTTAGCGGCACTTTTACCACAAAC
*
20836626 GCCGCTAAAAGCCATGACTTTTAGCGGC
1 GCCGCTAAAAGACATGACTTTTAGCGGC
20836654 GTTTTTTCGG
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAAGACATGACTTTTAGCGGCACTTTTACCACAAAC
Found at i:20841010 original size:132 final size:131
Alignment explanation
Indices: 20840742--20841264 Score: 525
Period size: 132 Copynumber: 4.0 Consensus size: 131
20840732 AACCTTCATT
** ** * * * * *** *
20840742 GACCTAAGATTGCAACTAAAATTATTTGGGCTCGTTGACCTAAGATCACAACCCATACAGCTTGC
1 GACCTAAGATTGTGACTAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCGC
* * ** *
20840807 TGACCTAA-ATCGCAGCCAAAATTATTTGGTTTCACTGACCTAAGATCACAGGCCATACAACTAG
66 TGACCTAAGATCGCAGCCAAAA-TATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTAG
20840871 CC
130 CC
* ** * * * *
20840873 GACCTAAGATTGTGACTGAAATTATTTGGGTTCGCTGACGTAAGATCACGACCTATGTGGCTTGT
1 GACCTAAGATTGTGACTAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCGC
* *
20840938 TGACCTAAGATCGCATCCAAAATAATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTTG
66 TGACCTAAGATCGCAGCCAAAAT-ATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTAG
20841003 CC
130 CC
* *** * *
20841005 AACCTAAGA-TCACAGCCAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCA
1 GACCTAAGATTGTGA-CTAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCG
* * * *
20841069 CCGACCTAAAATTGCAGCCAAAATTTTTCGGGTTCG-TAGACCTAAGATCACAACCCATACAGCT
65 CTGACCTAAGATCGCAGCCAAAATATTT-GGGTTCGCT-GACCTAAGATCACAACCCATACAGCT
20841133 CA-CC
128 -AGCC
** * * *
20841137 GACCTAAGATCATGACTGAAATTATTCAGGTCCATTGACATAAGATCACGACCTATGTGGCTCGC
1 GACCTAAGATTGTGACTAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCG-
* * * * *
20841202 CT-ACCTAAGATTGCAACCAAAACTATTTGGGTTTGTTGACCTAAGATCACAACCCATATAGCT
65 CTGACCTAAGATCGCAGCCAAAA-TATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCT
20841265 CACTGACCTA
Statistics
Matches: 328, Mismatches: 54, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
131 68 0.21
132 253 0.77
133 7 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (131 bp):
GACCTAAGATTGTGACTAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCGC
TGACCTAAGATCGCAGCCAAAATATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTAGC
C
Found at i:20841143 original size:198 final size:197
Alignment explanation
Indices: 20840742--20841147 Score: 419
Period size: 198 Copynumber: 2.1 Consensus size: 197
20840732 AACCTTCATT
* * * *
20840742 GACCTAAGATTGCAACTAAAATTATTTGGGCTCGTTGACCTAAGATCACAACCCATACAGCTTGC
1 GACCTAAGATCGCAACCAAAATAATTTGGGCTCGCTGACCTAAGATCACAACCCATACAGCTTGC
** * * * *
20840807 TGACCTAAATCGCAGCCAAAATTATTTGGTTTCACTGACCTAAGATCACAGGCCATACAACTAGC
66 CAACCTAAATCACAGCCAAAATTATTAGGTTTCACTGACATAAGATCACAGACCATACAACTAGC
* * ** * * * *** **
20840872 CGACCTAAGATTGTGACTGAAATTATTTGGGTTCGCTGACGTAAGATCACGACCTATGTGGCTTG
131 CGACCTAAAATTGAGACCAAAATTATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTCA
**
20840937 TT
196 CC
* *
20840939 GACCTAAGATCGCATCCAAAATAATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTTGC
1 GACCTAAGATCGCAACCAAAATAATTTGGGCTCGCTGACCTAAGATCACAACCCATACAGCTTGC
** ****
20841004 CAACCTAAGATCACAGCCAAAATTATTCAGG-TTCGTTGACATAAGATCAC-GACCTATGTGGCT
66 CAACCTAA-ATCACAGCCAAAATTATT-AGGTTTCACTGACATAAGATCACAGACC-ATACAACT
20841067 CA-CCGACCTAAAATTGCAG-CCAAAATT-TTTCGGGTTCG-TAGACCTAAGATCACAACCCATA
128 -AGCCGACCTAAAATTG-AGACCAAAATTATTT-GGGTTCGCT-GACCTAAGATCACAACCCATA
20841128 CAGCTCACC
189 CAGCTCACC
20841137 GACCTAAGATC
1 GACCTAAGATC
20841148 ATGACTGAAA
Statistics
Matches: 170, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
197 72 0.42
198 94 0.55
199 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (197 bp):
GACCTAAGATCGCAACCAAAATAATTTGGGCTCGCTGACCTAAGATCACAACCCATACAGCTTGC
CAACCTAAATCACAGCCAAAATTATTAGGTTTCACTGACATAAGATCACAGACCATACAACTAGC
CGACCTAAAATTGAGACCAAAATTATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTCA
CC
Found at i:20841274 original size:66 final size:66
Alignment explanation
Indices: 20840741--20841275 Score: 380
Period size: 66 Copynumber: 8.1 Consensus size: 66
20840731 TAACCTTCAT
* * **
20840741 TGACCTAAGATTGCAACTAAAATTATTTGGGCTCGTTGACCTAAGATCACAACCCATACAGCTTG
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
20840806 C
66 C
* * * ** ** *
20840807 TGACCTAA-ATCGCAGCCAAAATTATTTGGTTTCACTGACCTAAGATCACAGGCCATACAACT-A
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
20840870 GC
66 -C
* ** ** * * * * *** **
20840872 CGACCTAAGATTGTGACTGAAATTATTTGGGTTCGCTGACGTAAGATCACGACCTATGTGGCTTG
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
*
20840937 T
66 C
* * * * **
20840938 TGACCTAAGATCGCATCCAAAATAATTTGGGTTCGCTGACCTAAGATCACAACCCATACAGCTTG
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
20841003 C
66 C
** ** * ** * * * ***
20841004 CAACCTAAGATCACAGCCAAAATTATTCAGGTTCGTTGACATAAGATCACGACCTATGTGGCTCA
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
20841069 C
66 C
* * * *
20841070 CGACCTAAAATTGCAGCCAAAATT-TTTCGGGTTCGTAGACCTAAGATCACAACCCATACAGCTC
1 TGACCTAAGATTGCAACCAAAATTATTT-GGGTTCGTTGACCTAAGATCACAACCCATACAGCTC
20841134 AC
65 AC
* ** ** * * * * * ***
20841136 CGACCTAAGA-T-CATGACTGAAATTATTCAGGTCCATTGACATAAGATCACGACCTATGTGGCT
1 TGACCTAAGATTGCA--ACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCT
*
20841199 CGCC
64 C-AC
* * *
20841203 T-ACCTAAGATTGCAACCAAAACTATTTGGGTTTGTTGACCTAAGATCACAACCCATATAGCTCA
1 TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
20841267 C
66 C
20841268 TGACCTAA
1 TGACCTAA
20841276 AATCGCGGCT
Statistics
Matches: 352, Mismatches: 106, Indels: 22
0.73 0.22 0.05
Matches are distributed among these distances:
64 2 0.01
65 57 0.16
66 287 0.82
67 4 0.01
68 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (66 bp):
TGACCTAAGATTGCAACCAAAATTATTTGGGTTCGTTGACCTAAGATCACAACCCATACAGCTCA
C
Done.