Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 92 of 292
Found at i:28194509 original size:27 final size:26
Alignment explanation
Indices: 28194473--28194573 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
28194463 AGCATGGCTG
*
28194473 CCAGAACAGATATTGTGGCAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
28194499 CCAGATACAGATACTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
28194526 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
28194553 CCAGAAACAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
28194574 AAGACACTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.17
27 47 0.72
28 7 0.11
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:28195205 original size:27 final size:27
Alignment explanation
Indices: 28195162--28195500 Score: 421
Period size: 27 Copynumber: 12.6 Consensus size: 27
28195152 TACTGCACGA
* *
28195162 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
28195189 TGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
28195216 GGTATTTC-GATAATTCTACCCTATAGA
1 GGTATTTCAG-TAATTCTACCCTACAGG
**
28195243 GGTATTTCAGTAATTCTACCCTATTGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
28195270 GGCATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
28195297 GGTATTTCAGTAATTCTAACCTACATG
1 GGTATTTCAGTAATTCTACCCTACAGG
** *
28195324 GGTATTTTGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
28195351 TGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
28195378 GGTACTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
28195405 GGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
28195432 GGTATTTC-GATAATTCTACCTTATAGG
1 GGTATTTCAG-TAATTCTACCCTACAGG
*
28195459 GGTCTTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
28195486 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
28195501 TTATAATTGA
Statistics
Matches: 263, Mismatches: 45, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 259 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:28195230 original size:54 final size:54
Alignment explanation
Indices: 28195162--28195500 Score: 480
Period size: 54 Copynumber: 6.3 Consensus size: 54
28195152 TACTGCACGA
* * * * *
28195162 GGTATCTCGGTAATTCTACCCTACAGGTGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
* * * * **
28195216 GGTATTTCGATAATTCTACCCTATAGAGGTATTTCAGTAATTCTACCCTATTGG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
* * *
28195270 GGCATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTAACCTACATG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
* *
28195324 GGTATTTTGGTAATTCTACCTTACAGGTGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
* *
28195378 GGTACTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
* * *
28195432 GGTATTTCGATAATTCTACCTTATAGGGGTCTTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
*
28195486 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
28195501 TTATAATTGA
Statistics
Matches: 251, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 251 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
Found at i:28195604 original size:26 final size:26
Alignment explanation
Indices: 28195484--28195607 Score: 88
Period size: 27 Copynumber: 4.7 Consensus size: 26
28195474 CTACCCTACA
* * *
28195484 GGGGTATTTCAGTAATTTTATAATTG
1 GGGGTATTTTAGTAATTTTACAATCG
** *
28195510 ATGGTA-TTTCGATAATTTTACAAATCG
1 GGGGTATTTTAG-TAATTTTAC-AATCG
* * ** *
28195537 AGGATATTTGGGTAATTTTATAAATCG
1 GGGGTATTTTAGTAATTTTA-CAATCG
* * *
28195564 GGGGTACTTTGGTAATTTTACAATTG
1 GGGGTATTTTAGTAATTTTACAATCG
28195590 GGGGTATTTTAGTAATTT
1 GGGGTATTTTAGTAATTT
28195608 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 19, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
25 3 0.04
26 32 0.43
27 37 0.49
28 3 0.04
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.44
Consensus pattern (26 bp):
GGGGTATTTTAGTAATTTTACAATCG
Found at i:28202651 original size:47 final size:46
Alignment explanation
Indices: 28202585--28202707 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 46
28202575 TGTGAGCTAA
28202585 TGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CACATTAATGAGAGTCAG
* *
28202631 TGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAAATGAGTGTTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT--AATGAGAGTCAG
*
28202679 TGTAAGACGTGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
28202708 GTCGAGACGT
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
45 5 0.07
46 12 0.18
47 29 0.43
48 21 0.31
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCACATTAATGAGAGTCAG
Found at i:28211696 original size:47 final size:47
Alignment explanation
Indices: 28211642--28211879 Score: 325
Period size: 47 Copynumber: 5.1 Consensus size: 47
28211632 TTAGGATTTT
** * * *
28211642 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28211689 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
28211736 ATGTGATGAATGCGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
28211783 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
28211830 ATGTAATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
28211877 ATG
1 ATG
28211880 ATAAACGTGT
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 169 0.98
48 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28211717 original size:25 final size:25
Alignment explanation
Indices: 28211689--28211814 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 25
28211679 CGAATGGCAA
*
28211689 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
* *
28211714 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-CGAACAT-GCATAT
28211736 ATGTGATGAATGCGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
* *
28211761 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-CGAACAT-GCATAT
*
28211783 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
28211808 ATGTGAT
1 ATGTGAT
28211815 AAGGTAGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
22 17 0.22
23 18 0.23
24 18 0.23
25 24 0.31
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGCGAACATGCATAT
Found at i:28211742 original size:22 final size:22
Alignment explanation
Indices: 28211714--28211789 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
28211704 ACATGCATAT
28211714 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
28211736 ATGTGATGAATG-CGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
28211760 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
28211783 ATGTGAT
1 ATGTGAT
28211790 GAATGTGAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 16 0.37
23 9 0.21
24 9 0.21
25 9 0.21
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:28211937 original size:46 final size:48
Alignment explanation
Indices: 28211847--28211952 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 48
28211837 GAACGTGGAA
* * *
28211847 GTGTATATATGTGGTAAAGCCGAATGGCTAATGATAAACGTGTATGAGAT
1 GTGTATATA--TGGTAAAGCCAAATGGCTAATGATAAACATGTATAAGAT
* *
28211897 G-G-ATATATGGTAAAGCCAAATGGCTAATG-TGAGATATGTATAAGAT
1 GTGTATATATGGTAAAGCCAAATGGCTAATGAT-AAACATGTATAAGAT
28211943 GTGTATATAT
1 GTGTATATAT
28211953 ATATATTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
45 1 0.02
46 33 0.69
47 1 0.02
48 11 0.23
49 1 0.02
50 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
GTGTATATATGGTAAAGCCAAATGGCTAATGATAAACATGTATAAGAT
Found at i:28213808 original size:30 final size:30
Alignment explanation
Indices: 28213752--28213808 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
28213742 TTTCGAGCAT
* **
28213752 AGGGGTAAAATGGTCATTTTGTCAAAGTCA
1 AGGGGCAAAATGGTCATTTTACCAAAGTCA
28213782 AGGGGCAAAATGGTCATTTTACCAAAG
1 AGGGGCAAAATGGTCATTTTACCAAAG
28213809 ATGTGAAATA
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:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTACCAAAGTCA
Found at i:28214203 original size:46 final size:45
Alignment explanation
Indices: 28214147--28214320 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
28214137 TCACTTATAT
*
28214147 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTGA-GAC
* * *
28214193 GAGCCAGTGTAAGACCATGTCTAGGACATGTAATC-GTCATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGCCATTGAGAC
* * *
28214239 GAGTGCTAGCGTAAGACGTGTCTGGGACATGCATCAGCC-TTGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
28214285 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCA
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCA
28214321 ACTAAGCGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
45 6 0.06
46 56 0.53
47 30 0.28
48 14 0.13
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAC
Found at i:28220265 original size:38 final size:38
Alignment explanation
Indices: 28220225--28220704 Score: 290
Period size: 38 Copynumber: 11.6 Consensus size: 38
28220215 TGTATAATCA
* *
28220225 TGGCATATCCACTTAGCACCATGTTACATGATTAACCA
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCG
* *
28220263 TGGCATATCCACTTAGCACCACTTTAATGAATCAATATATGTAACCG
1 TGGCATATCCACTTAGCACCAC-GT--T--A-C-AT-GAT-TAACCG
* *
28220310 TGGAATATCCACTTAGCACCACGTTACATGTTTAACCG
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCG
*
28220348 CGGCATATCCACTTAGCACCACGTTACATGATTAACCG
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCG
* *
28220386 TGGCATATCCACTTAGCACCACTTTAATGAATCAATATATGTAACCG
1 TGGCATATCCACTTAGCACCAC-GT--T--A-C-AT-GAT-TAACCG
*
28220433 TGGCATATCCACTTAGCACCACGTTAATGAATCAATATATCTAACCG
1 TGGCATATCCACTTAGCACCACG-T--T--A-C-AT-GAT-TAACCG
* *
28220480 TGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTAATCG
1 TGGCATATCCACTTAGCACCACGTTACATG-------A--T-TAACCG
* *
28220528 TGGTATATCCACTTAGCACCACGTTACATGTTTAACCG
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCG
* *
28220566 TGGTATATCCACTTAGCACCACGTTAATGAATCAATATATCTAACCG
1 TGGCATATCCACTTAGCACCACG-T--T--A-C-AT-GAT-TAACCG
* *
28220613 TGGCATATCCACTTAGCA-CA----ATATG-TGTAATCG
1 TGGCATATCCACTTAGCACCACGTTACATGAT-TAACCG
* *
28220646 TGGTATATCCACTTAGCACCACGTTACACG-TATAACCG
1 TGGCATATCCACTTAGCACCACGTTACATGAT-TAACCG
*
28220684 TGGTATATCCACTTAGCACCA
1 TGGCATATCCACTTAGCACCA
28220705 TGTTTTTCCA
Statistics
Matches: 364, Mismatches: 36, Indels: 84
0.75 0.07 0.17
Matches are distributed among these distances:
33 23 0.06
34 2 0.01
35 2 0.01
37 1 0.00
38 141 0.39
39 5 0.01
40 4 0.01
41 5 0.01
42 2 0.01
43 3 0.01
44 5 0.01
45 6 0.02
46 10 0.03
47 121 0.33
48 34 0.09
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (38 bp):
TGGCATATCCACTTAGCACCACGTTACATGATTAACCG
Found at i:28220318 original size:47 final size:45
Alignment explanation
Indices: 28220255--28220631 Score: 382
Period size: 47 Copynumber: 8.6 Consensus size: 45
28220245 ATGTTACATG
*
28220255 ATTAACCATGGCATATCCACTTAGCACCACTTTAATGAATCAATAT
1 ATTAACCGTGGCATATCCACTTAGCACCAC-TTAATGAATCAATAT
* * *
28220301 ATGTAACCGTGGAATATCCACTTAGCACCACGT--T--A-C-ATGT
1 AT-TAACCGTGGCATATCCACTTAGCACCACTTAATGAATCAATAT
* * *
28220341 -TTAACCGCGGCATATCCACTTAGCACCACGT--T--A-C-AT-G
1 ATTAACCGTGGCATATCCACTTAGCACCACTTAATGAATCAATAT
28220378 ATTAACCGTGGCATATCCACTTAGCACCACTTTAATGAATCAATAT
1 ATTAACCGTGGCATATCCACTTAGCACCAC-TTAATGAATCAATAT
28220424 ATGTAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATAT
1 AT-TAACCGTGGCATATCCACTTAGCACCAC-TTAATGAATCAATAT
*
28220471 ATCTAACCGTGGCATATCCACTTAGCACCACATTACATGTATCAATAT
1 AT-TAACCGTGGCATATCCACTTAGCACCAC-TTA-ATGAATCAATAT
* * * * *
28220519 GTGTAATCGTGGTATATCCACTTAGCACCACGT--T--A-C-ATGT
1 AT-TAACCGTGGCATATCCACTTAGCACCACTTAATGAATCAATAT
*
28220559 -TTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATAT
1 ATTAACCGTGGCATATCCACTTAGCACCAC-TTAATGAATCAATAT
28220604 ATCTAACCGTGGCATATCCACTTAGCAC
1 AT-TAACCGTGGCATATCCACTTAGCAC
28220632 AATATGTGTA
Statistics
Matches: 286, Mismatches: 24, Indels: 41
0.81 0.07 0.12
Matches are distributed among these distances:
38 88 0.31
39 4 0.01
40 6 0.02
41 4 0.01
42 2 0.01
43 2 0.01
44 4 0.01
45 5 0.02
46 6 0.02
47 127 0.44
48 38 0.13
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (45 bp):
ATTAACCGTGGCATATCCACTTAGCACCACTTAATGAATCAATAT
Found at i:28220338 original size:85 final size:83
Alignment explanation
Indices: 28220225--28220509 Score: 314
Period size: 85 Copynumber: 3.4 Consensus size: 83
28220215 TGTATAATCA
* *
28220225 TGGCATATCCACTTAGCACCATGTTACATGATTAACCATGGCATATCCACTTAGCACCACTTTAA
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCGTGGCATATCCACTTAGCACCAC-TTAA
28220290 TGAATCAATATATGTAACCG
65 TGAATCAATATAT-TAACCG
* * * *
28220310 TGGAATATCCACTTAGCACCACGTTACATGTTTAACCGCGGCATATCCACTTAGCACCACGT--T
1 TGGCATATCCACTTAGCACCACGTTACATGATTAACCGTGGCATATCCACTTAGCACCACTTAAT
*
28220373 --A-C-AT-GATTAACCG
66 GAATCAATATATTAACCG
* *
28220386 TGGCATATCCACTTAGCACCACTTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCA
1 TGGCATATCCACTTAGCACCAC-GT--T--A-C-AT-GAT-TAACCGTGGCATATCCACTTAGCA
28220451 CCACGTTAATGAATCAATATATCTAACCG
57 CCAC-TTAATGAATCAATATAT-TAACCG
*
28220480 TGGCATATCCACTTAGCACCACATTACATG
1 TGGCATATCCACTTAGCACCACGTTACATG
28220510 TATCAATATG
Statistics
Matches: 166, Mismatches: 16, Indels: 35
0.76 0.07 0.16
Matches are distributed among these distances:
76 27 0.16
77 3 0.02
78 2 0.01
79 2 0.01
80 1 0.01
81 1 0.01
82 2 0.01
83 2 0.01
84 2 0.01
85 82 0.49
86 1 0.01
87 2 0.01
88 2 0.01
89 1 0.01
90 1 0.01
91 2 0.01
92 2 0.01
93 3 0.02
94 28 0.17
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (83 bp):
TGGCATATCCACTTAGCACCACGTTACATGATTAACCGTGGCATATCCACTTAGCACCACTTAAT
GAATCAATATATTAACCG
Found at i:28220374 original size:123 final size:123
Alignment explanation
Indices: 28220226--28220458 Score: 439
Period size: 123 Copynumber: 1.9 Consensus size: 123
28220216 GTATAATCAT
*
28220226 GGCATATCCACTTAGCACCATGTTACATGATTAACCATGGCATATCCACTTAGCACCACTTTAAT
1 GGCATATCCACTTAGCACCACGTTACATGATTAACCATGGCATATCCACTTAGCACCACTTTAAT
28220291 GAATCAATATATGTAACCGTGGAATATCCACTTAGCACCACGTTACATGTTTAACCGC
66 GAATCAATATATGTAACCGTGGAATATCCACTTAGCACCACGTTACATGTTTAACCGC
*
28220349 GGCATATCCACTTAGCACCACGTTACATGATTAACCGTGGCATATCCACTTAGCACCACTTTAAT
1 GGCATATCCACTTAGCACCACGTTACATGATTAACCATGGCATATCCACTTAGCACCACTTTAAT
*
28220414 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
66 GAATCAATATATGTAACCGTGGAATATCCACTTAGCACCACGTTA
28220459 ATGAATCAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 107 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (123 bp):
GGCATATCCACTTAGCACCACGTTACATGATTAACCATGGCATATCCACTTAGCACCACTTTAAT
GAATCAATATATGTAACCGTGGAATATCCACTTAGCACCACGTTACATGTTTAACCGC
Found at i:28220636 original size:33 final size:33
Alignment explanation
Indices: 28220598--28220664 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
28220588 GTTAATGAAT
28220598 CAATATATCTAACCGTGGCATATCCACTTAGCA
1 CAATATATCTAACCGTGGCATATCCACTTAGCA
* * * *
28220631 CAATATGTGTAATCGTGGTATATCCACTTAGCA
1 CAATATATCTAACCGTGGCATATCCACTTAGCA
28220664 C
1 C
28220665 CACGTTACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (33 bp):
CAATATATCTAACCGTGGCATATCCACTTAGCA
Found at i:28222175 original size:43 final size:42
Alignment explanation
Indices: 28222114--28222195 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
28222104 AGTTACACGT
* * *
28222114 GGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCAATATCCCAGACAG
*
28222157 GGTCTTACACG-ATATCAAATACGATGCCAATTTCCCAGA
1 GGTCTTACACGTA-ATCAAATACGATGCCAATATCCCAGA
28222196 AATGGTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 16 0.47
43 18 0.53
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:28222207 original size:42 final size:43
Alignment explanation
Indices: 28222127--28222207 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 43
28222117 CTTACATGTA
* * * *
28222127 ATCAAATATTGATGCCACTATCCCAGACAGGGTCTTACACGAT
1 ATCAAATATCGATGCCAATATCCCAGAAAGGGTATTACACGAT
* *
28222170 ATCAAATA-CGATGCCAATTTCCCAGAAATGGTATTACA
1 ATCAAATATCGATGCCAATATCCCAGAAAGGGTATTACA
28222208 AGAAAATCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.75
43 8 0.25
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (43 bp):
ATCAAATATCGATGCCAATATCCCAGAAAGGGTATTACACGAT
Found at i:28225351 original size:51 final size:51
Alignment explanation
Indices: 28225291--28225390 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
28225281 CCTAACCATC
28225291 TGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
1 TGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
28225342 TGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
28225391 TACGACCTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (51 bp):
TGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
Found at i:28228873 original size:40 final size:40
Alignment explanation
Indices: 28228747--28228875 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
28228737 ATGCTGGAAA
* *
28228747 TTATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
28228786 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
28228826 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
28228866 TTATATCCGG
1 TTATATCCGG
28228876 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.24
40 57 0.76
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:28242632 original size:40 final size:39
Alignment explanation
Indices: 28242575--28242759 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
28242565 ATTAAATGAT
* * *
28242575 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
28242615 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
28242655 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
28242695 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
28242735 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
28242760 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:28242711 original size:80 final size:80
Alignment explanation
Indices: 28242574--28242780 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
28242564 AATTAAATGA
* * ** * *
28242574 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
28242639 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
28242652 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
28242717 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
28242734 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
28242781 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:28242765 original size:40 final size:39
Alignment explanation
Indices: 28242573--28242780 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
28242563 CAATTAAATG
* * ** *
28242573 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
28242613 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
28242653 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
28242693 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
28242733 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
28242773 ATATCCGG
1 ATATCCGG
28242781 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:28250609 original size:40 final size:39
Alignment explanation
Indices: 28250552--28250736 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
28250542 ATTAAATGAT
* * *
28250552 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
28250592 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
28250632 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
28250672 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
28250712 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
28250737 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:28250688 original size:80 final size:80
Alignment explanation
Indices: 28250551--28250757 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
28250541 AATTAAATGA
* * ** * *
28250551 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
28250616 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
28250629 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
28250694 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
28250711 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
28250758 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:28250742 original size:40 final size:39
Alignment explanation
Indices: 28250550--28250757 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
28250540 CAATTAAATG
* * ** *
28250550 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
28250590 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
28250630 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
28250670 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
28250710 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
28250750 ATATCCGG
1 ATATCCGG
28250758 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:28257746 original size:39 final size:39
Alignment explanation
Indices: 28257691--28257890 Score: 183
Period size: 39 Copynumber: 5.1 Consensus size: 39
28257681 GATATTCAGT
**
28257691 GAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTGCTG
* *
28257730 GAATTATATTCAGACTTAAAGTCCGCAGGCTATGTGCTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTGCTG
* * *
28257769 GAATTATAACCGGACTTAATGTCCGCAGGCTACGTGCTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTGCTG
* * * * * *
28257808 GAAATATGTCTGGGC-TAAAGTCCCACAGGCT-TCGAGCTG
1 GAATTATATCCGGACTTAAAGT-CCGCAGGCTAT-GTGCTG
* ** *
28257847 GTATTATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTG
1 GAATTATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTG
28257885 GTAATT
1 G-AATT
28257891 GGTTTCAAGT
Statistics
Matches: 130, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
38 15 0.12
39 115 0.88
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTGCTG
Found at i:28272767 original size:39 final size:39
Alignment explanation
Indices: 28272709--28272930 Score: 282
Period size: 39 Copynumber: 5.6 Consensus size: 39
28272699 AATGTTCGAG
* *
28272709 TGATATCCGGGCTATGCCCGAAGGCAATTGTGTGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
28272748 TGATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
28272787 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
28272826 TGATATCCGGGCTAAGCCCGAAGGAAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
28272865 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
28272905 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
28272931 GTTTGAACGA
Statistics
Matches: 159, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 122 0.77
40 37 0.23
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:28277467 original size:29 final size:29
Alignment explanation
Indices: 28277434--28277512 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
28277424 CCTTGACACT
* *
28277434 AATTCTCAGTGAACAAGTTCTTCATCGTG
1 AATTCTCAATGAACAAGTTCTTCATCGCG
*
28277463 AATTCTCAATGAACAAGTTCTTCCTCGCG
1 AATTCTCAATGAACAAGTTCTTCATCGCG
* * *
28277492 AACTCTCAACGAACAAATTCT
1 AATTCTCAATGAACAAGTTCT
28277513 CCACCTCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (29 bp):
AATTCTCAATGAACAAGTTCTTCATCGCG
Found at i:28278398 original size:87 final size:87
Alignment explanation
Indices: 28278247--28278409 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
28278237 TTTGAAATGG
* *
28278247 GTTGCTAAAGGAGTACTAACAGGCTTAGCACTCTGCATATTGATCCTATAAAAAAATTTCTCAAT
1 GTTGCTAAAGGAGTACTAACAGGCTTAGCACTCTGCATATTGAACCTACAAAAAAATTTCTCAAT
28278312 GTACCCCTTCTGACTTAGATGT
66 GTACCCCTTCTGACTTAGATGT
* * *
28278334 GTTGTTAAAGGAGTACTAACAGGCTTAGCACTCTGCATATTGAACCTACAAAGAACTTTCTCAAT
1 GTTGCTAAAGGAGTACTAACAGGCTTAGCACTCTGCATATTGAACCTACAAAAAAATTTCTCAAT
28278399 GTACCCCTTCT
66 GTACCCCTTCT
28278410 CTCTTAGGTA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (87 bp):
GTTGCTAAAGGAGTACTAACAGGCTTAGCACTCTGCATATTGAACCTACAAAAAAATTTCTCAAT
GTACCCCTTCTGACTTAGATGT
Found at i:28283195 original size:54 final size:54
Alignment explanation
Indices: 28283115--28283263 Score: 163
Period size: 55 Copynumber: 2.7 Consensus size: 54
28283105 GTTTAAGGAT
* * * *
28283115 ACCAAGTAAGACCATGCCAAGGCATGGGATTGGTAAGTTTTACAAGGCAAGGAA
1 ACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAAGAA
* * * ** * *
28283169 ATCATGTAAGACCATGTCAAGACATGGCATTGGTAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGTCAAGGCATGGCATTGGT-AAGTTTTACAAGGCAAAGAA
* * *
28283224 CCCATGTTAGACCATGTCAAGGCATGGCAATGGTAAGTTT
1 ACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTT
28283264 AAAGTGGAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
54 32 0.43
55 43 0.57
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
ACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAAGAA
Found at i:28288848 original size:40 final size:40
Alignment explanation
Indices: 28288803--28288990 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
28288793 ATAACCACAA
* * *
28288803 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
28288843 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
28288883 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
28288923 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTC
* *
28288963 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
28288991 GTATCATTCA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:28288888 original size:80 final size:79
Alignment explanation
Indices: 28288783--28288994 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 79
28288773 TCTTCGGAAT
* *
28288783 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
28288847 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
28288862 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
28288927 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
28288942 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
28288995 CATTCAATTA
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
79 5 0.04
80 115 0.95
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:28298042 original size:46 final size:45
Alignment explanation
Indices: 28297989--28298164 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
28297979 TATTTGGGCA
28297989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
28298035 TCCGAACTCGTTGAGTTGAGGCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
28298082 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
28298128 CCCGAGCTCGTTGAGTTGAGTCGGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28298165 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 66 0.63
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:28298144 original size:93 final size:93
Alignment explanation
Indices: 28297985--28298156 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
28297975 AGGATATTTG
* * *
28297985 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
28298050 TTGAGGCCGAGTTCGAGAGATGTAACTA
66 TTGAGGCCGAGTTCGAGAGATGTAACTA
*
28298078 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGA
* *
28298142 GTTGAGTCGGAGTTC
65 GTTGAGGCCGAGTTC
28298157 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGGCCGAGTTCGAGAGATGTAACTA
Found at i:28302912 original size:59 final size:58
Alignment explanation
Indices: 28302816--28302947 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
28302806 AAAATTGTAC
28302816 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
28302874 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
28302933 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
28302948 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:28302936 original size:88 final size:89
Alignment explanation
Indices: 28302786--28302947 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
28302776 GACAAGATTG
* * *
28302786 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
28302851 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
28302875 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
28302939 AAGTGTGCG
66 AAGTGTGCG
28302948 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:28302959 original size:29 final size:29
Alignment explanation
Indices: 28302816--28302947 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
28302806 AAAATTGTAC
*
28302816 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
28302845 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
28302874 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
28302904 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
28302933 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
28302948 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:28310892 original size:29 final size:29
Alignment explanation
Indices: 28310850--28310922 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
28310840 AAAATTGTAC
28310850 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
28310879 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
28310908 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
28310923 GATTCACTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:28312701 original size:43 final size:42
Alignment explanation
Indices: 28312642--28312736 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
28312632 TCCTAGACGT
* * *
28312642 GGTCTTACATGTAATCAAACATCGATGCCACTATCCCAAACAG
1 GGTCTTACACGGAATCAAACA-CGATGCCAATATCCCAAACAG
* * * * * *
28312685 GGTCTTACACGGAATCAGATACGATGCCAATGTCTCAAATAT
1 GGTCTTACACGGAATCAAACACGATGCCAATATCCCAAACAG
28312727 GGTCTTACAC
1 GGTCTTACAC
28312737 AAAAAATAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.60
43 17 0.40
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGGAATCAAACACGATGCCAATATCCCAAACAG
Found at i:28312878 original size:11 final size:11
Alignment explanation
Indices: 28312862--28312899 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
28312852 TTTTCAGACA
28312862 TCGGAACTTTG
1 TCGGAACTTTG
28312873 TCGGAACTTTG
1 TCGGAACTTTG
* *
28312884 TCGGTACTTTC
1 TCGGAACTTTG
28312895 TCGGA
1 TCGGA
28312900 TAACATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (11 bp):
TCGGAACTTTG
Found at i:28314850 original size:40 final size:39
Alignment explanation
Indices: 28314723--28314852 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
28314713 ATGCTGGAAA
* *
28314723 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
28314763 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
28314803 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
28314843 TTATATCCGG
1 TTATATCCGG
28314853 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:28316225 original size:278 final size:278
Alignment explanation
Indices: 28315728--28316264 Score: 1047
Period size: 278 Copynumber: 1.9 Consensus size: 278
28315718 GTTACATGTC
*
28315728 GATAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCTAG
1 GATAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAG
28315793 AAAGAATCAGGAGTCATGCCTTATATGTACAGATTCCATTTTAAGTATAGTTTCATTAGAAACAA
66 AAAGAATCAGGAGTCATGCCTTATATGTACAGATTCCATTTTAAGTATAGTTTCATTAGAAACAA
28315858 ACGGCACCAGTATTAAATCCCTGTACAGAGAGATATTCAAGTTGTAACGCGCAAAGGTCAGAGCA
131 ACGGCACCAGTATTAAATCCCTGTACAGAGAGATATTCAAGTTGTAACGCGCAAAGGTCAGAGCA
28315923 GTCGATCTCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTT
196 GTCGATCTCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTT
28315988 ACTAATAAACCTTGATGA
261 ACTAATAAACCTTGATGA
28316006 GATAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAG
1 GATAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAG
* *
28316071 AAAGAATCAGGAGTCATGCCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAA
66 AAAGAATCAGGAGTCATGCCTTATATGTACAGATTCCATTTTAAGTATAGTTTCATTAGAAACAA
28316136 ACGGCACCAGTATTAAATCCCTGTACAGAGAGATATTCAAGTTGTAACGCGCAAAGGTCAGAGCA
131 ACGGCACCAGTATTAAATCCCTGTACAGAGAGATATTCAAGTTGTAACGCGCAAAGGTCAGAGCA
28316201 GTCGATCTCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATT
196 GTCGATCTCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATT
28316265 CTAGAAATAA
Statistics
Matches: 256, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 256 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (278 bp):
GATAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAG
AAAGAATCAGGAGTCATGCCTTATATGTACAGATTCCATTTTAAGTATAGTTTCATTAGAAACAA
ACGGCACCAGTATTAAATCCCTGTACAGAGAGATATTCAAGTTGTAACGCGCAAAGGTCAGAGCA
GTCGATCTCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTT
ACTAATAAACCTTGATGA
Found at i:28323146 original size:40 final size:39
Alignment explanation
Indices: 28323019--28323148 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
28323009 ATGCTGGAAA
* *
28323019 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
28323059 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
28323099 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
28323139 TTATATCCGG
1 TTATATCCGG
28323149 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:28326256 original size:25 final size:25
Alignment explanation
Indices: 28326227--28326280 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
28326217 TAAACAGTAT
* *
28326227 GCTCATACTAGCTGAATATAGGTAA
1 GCTCATACAAGCTAAATATAGGTAA
* * *
28326252 GCTCATGCAAGTTAAATATCGGTAA
1 GCTCATACAAGCTAAATATAGGTAA
28326277 GCTC
1 GCTC
28326281 TCTTGAGCTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (25 bp):
GCTCATACAAGCTAAATATAGGTAA
Found at i:28330179 original size:42 final size:42
Alignment explanation
Indices: 28330120--28330223 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
28330110 ATGACAATAG
*
28330120 CCCAGCTATGGTCTTACACAAAATCTCATATCAATCCCATAT
1 CCCAGATATGGTCTTACACAAAATCTCATATCAATCCCATAT
* * * ** *
28330162 CCCAGATATGTTCTTACACGAAGTCTCATATTGATGCCATAT
1 CCCAGATATGGTCTTACACAAAATCTCATATCAATCCCATAT
28330204 CCCAGATATGGTCTTACACA
1 CCCAGATATGGTCTTACACA
28330224 TAGCCTCGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.30
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACAAAATCTCATATCAATCCCATAT
Found at i:28336875 original size:42 final size:42
Alignment explanation
Indices: 28336829--28336919 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
28336819 AACTATGGTC
*
28336829 TTACACAAAATCTCATATCGATGCCATATCCTAGATATGGCT
1 TTACACAAAATCTCATATCGATGCCATATCCTACATATGGCT
** * * * * *
28336871 TTACATGAAGTCTCATTTTGATGGCATATCCTACATATGGTT
1 TTACACAAAATCTCATATCGATGCCATATCCTACATATGGCT
28336913 TTACACA
1 TTACACA
28336920 TAGCCTTGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (42 bp):
TTACACAAAATCTCATATCGATGCCATATCCTACATATGGCT
Found at i:28341341 original size:15 final size:16
Alignment explanation
Indices: 28341323--28341352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28341313 AATTGTTTTA
28341323 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
28341338 TTACATAATTTCACT
1 TTACATAATTTCACT
28341353 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:28341768 original size:50 final size:50
Alignment explanation
Indices: 28341563--28341786 Score: 184
Period size: 50 Copynumber: 4.5 Consensus size: 50
28341553 TCTAGTAGCA
* * * *
28341563 TAGTAGCCTACACTTAGTACTACAGATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAGCTATCTGGTACACG
* * * **
28341612 TAGTAGCCTGCGCTTAGTACTACACACGTGACCTAAGC-ATCTAATACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCT-AGCTATCTGGTACACG
* * * * ** * * ** *
28341662 TAGTAACCTACATTTAGTACTACAGACGTGATCGAAGTTGTAGGGTACGA-A
1 TAGTAGCCTACACTTAGTACTACACACGCGA-CCTAGCTATCTGGTAC-ACG
* * *
28341713 TAGTAGCCTGCACTTAGTACTACACATGCGGCCTAGCTATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAGCTATCTGGTACACG
*
28341763 TAGTAGACTACACTTAGTACTACA
1 TAGTAGCCTACACTTAGTACTACA
28341787 AATGTGTTCT
Statistics
Matches: 131, Mismatches: 38, Indels: 11
0.73 0.21 0.06
Matches are distributed among these distances:
49 29 0.22
50 70 0.53
51 31 0.24
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTAGCTATCTGGTACACG
Found at i:28358913 original size:13 final size:14
Alignment explanation
Indices: 28358895--28358923 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
28358885 CGAGGGTCAA
28358895 TTACTAAAAT-TTT
1 TTACTAAAATATTT
28358908 TTACTAAAATATTT
1 TTACTAAAATATTT
28358922 TT
1 TT
28358924 CACTGGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
TTACTAAAATATTT
Found at i:28364428 original size:40 final size:40
Alignment explanation
Indices: 28364289--28364431 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 40
28364279 GCGACTCGCT
* * * *** * *
28364289 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* * *
28364329 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
* **
28364369 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TAGCA
28364410 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
28364432 AGACATCATT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 70 0.83
41 11 0.13
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTAGCA
Found at i:28371522 original size:40 final size:40
Alignment explanation
Indices: 28371456--28371622 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
28371446 AAATTGAATG
* * *
28371456 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
28371495 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
28371535 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
28371575 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
28371615 ATATCCGG
1 ATATCCGG
28371623 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:28379508 original size:40 final size:40
Alignment explanation
Indices: 28379449--28379590 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
28379439 AAATTGAATG
* *
28379449 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
28379489 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
28379529 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
28379569 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
28379591 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:28379591 original size:40 final size:39
Alignment explanation
Indices: 28379488--28379616 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
28379478 TGCTGGAAAT
* * *
28379488 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
28379528 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
28379568 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
28379608 TATATCCGG
1 TATATCCGG
28379617 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:28382238 original size:40 final size:40
Alignment explanation
Indices: 28382172--28382338 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
28382162 AAATTGAATG
* * *
28382172 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
28382211 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
28382251 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
28382291 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
28382331 ATATCCGG
1 ATATCCGG
28382339 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:28390261 original size:40 final size:40
Alignment explanation
Indices: 28390176--28390326 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
28390166 AATTGAATGA
* * *
28390176 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
28390216 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
28390257 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
28390296 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
28390327 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:28390340 original size:40 final size:40
Alignment explanation
Indices: 28390212--28390342 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
28390202 TATGCTGGAA
* * *
28390212 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
28390252 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
28390292 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
28390332 ATTATATCCGG
1 ATTATATCCGG
28390343 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:28397273 original size:45 final size:45
Alignment explanation
Indices: 28397224--28397315 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
28397214 CTTACTCTTC
28397224 CTTTTATTCATGTATACCTAATGTATCTCGTCCCTTACTCAAGTA
1 CTTTTATTCATGTATACCTAATGTATCTCGTCCCTTACTCAAGTA
28397269 CTTTTATTCATGTATACCTAATGTATCTCGTCCCTTACTCAAGTA
1 CTTTTATTCATGTATACCTAATGTATCTCGTCCCTTACTCAAGTA
28397314 CT
1 CT
28397316 ATCCATAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (45 bp):
CTTTTATTCATGTATACCTAATGTATCTCGTCCCTTACTCAAGTA
Found at i:28404567 original size:47 final size:47
Alignment explanation
Indices: 28404514--28405090 Score: 956
Period size: 47 Copynumber: 12.3 Consensus size: 47
28404504 ATAAGATATG
* * *
28404514 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404561 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404608 TATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404655 TATAAGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404702 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
28404749 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404796 TATATGTGATAAGGCCGAATGACCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
28404843 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
28404890 TATATGTGATACGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
28404937 TATATGTGATACGGCCGAATGGCCAATGTGACGAATCTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* * *
28404984 TATATGTGATACGGTCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* * * *
28405031 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
28405078 TAAATATGATAAG
1 TATATGTGATAAG
28405091 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 29, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 501 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
Found at i:28408178 original size:43 final size:43
Alignment explanation
Indices: 28408110--28408278 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
28408100 ATAGCTCGTA
* * * *
28408110 CAATGCC-ATATCCTAGATATGGTCTTACATGTTATCACCTAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACCTAT
* * * * * ** *
28408152 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACCTAT
*
28408195 CAATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACAAC-A-
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC--CTAT
*
28408238 CAATGCTAATGTCCCAGACATGGTCTTACATGTAATCACCT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACCT
28408279 CTCGATAACC
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 93 0.92
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACCTAT
Found at i:28408275 original size:86 final size:85
Alignment explanation
Indices: 28408109--28408267 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
28408099 AATAGCTCGT
* * * * *
28408109 ACAATGCCATATCCTAGATATGGTCTTACATGTTATCACCTATCGATGCCACTGTCCCAGACAGG
1 ACAATGCCATATCCCAGAAATGGTCTTACATGTAATCACCTATCAATGCCAATGTCCCAGACAGG
28408174 GTCTTACACGAAATCATATA
66 GTCTTACACGAAATCATATA
* *
28408194 ACAATGCCAATGTCCCAGAAATGGTCTTACATGTAATCACAAC-A-CAATGCTAATGTCCCAGAC
1 ACAATGCC-ATATCCCAGAAATGGTCTTACATGTAATCAC--CTATCAATGCCAATGTCCCAGAC
*
28408257 ATGGTCTTACA
63 AGGGTCTTACA
28408268 TGTAATCACC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 8 0.13
86 53 0.84
87 1 0.02
88 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (85 bp):
ACAATGCCATATCCCAGAAATGGTCTTACATGTAATCACCTATCAATGCCAATGTCCCAGACAGG
GTCTTACACGAAATCATATA
Found at i:28410267 original size:43 final size:42
Alignment explanation
Indices: 28410112--28410270 Score: 101
Period size: 43 Copynumber: 3.7 Consensus size: 42
28410102 TAGGATTTCG
* * * *
28410112 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTCTAT-TTTACG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGA-TT-T-TGATTACA
* * * * ** * *
28410156 TATAAGACCATGTCTGGGACATCAGCATCG-TATCTGATTTCA
1 TGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTTGATTACA
* *
28410198 TGTAAGACC-CTATCTAGGATAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTAGGA-CGTTGGCATCGAT-TTTGATTACA
28410241 TGTAAGACCACGTCTAGGACGTTGGCATCG
1 TGTAAGACCACGTCTAGGACGTTGGCATCG
28410271 TATATGTCCT
Statistics
Matches: 85, Mismatches: 23, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.29
43 34 0.40
44 25 0.29
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATTTTGATTACA
Found at i:28420260 original size:28 final size:27
Alignment explanation
Indices: 28420228--28420327 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 27
28420218 GAATATATGA
28420228 ACTATGTGTGCGAGATTAGTAACTGAGC
1 ACTATGTGTGCGAGATTAGTAAC-GAGC
**
28420256 ACTATGTGCACGAGATCGGGT-GTAA-G-GC
1 ACTATGTGTGCGAGAT----TAGTAACGAGC
* *
28420284 ACTATGTGTGCGAAATTATTAACCGAGC
1 ACTATGTGTGCGAGATTAGTAA-CGAGC
28420312 ACTATGTGTGCGAGAT
1 ACTATGTGTGCGAGAT
28420328 CGGGTGTAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
24 1 0.02
25 3 0.05
27 1 0.02
28 46 0.81
29 1 0.02
31 4 0.07
32 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (27 bp):
ACTATGTGTGCGAGATTAGTAACGAGC
Found at i:28420341 original size:28 final size:28
Alignment explanation
Indices: 28420254--28420349 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
28420244 TAGTAACTGA
**
28420254 GCACTATGTGCACGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAGATCGGGTGTAAG
* **
28420282 GCACTATGTGTGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGCGAGATCGGGTGTAA--G
28420309 AGCACTATGTGTGCGAGATCGGGTGTAAG
1 -GCACTATGTGTGCGAGATCGGGTGTAAG
*
28420338 GCACTGTGTGTG
1 GCACTATGTGTG
28420350 TGCAAAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 43 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGGTGTAAG
Found at i:28420361 original size:58 final size:56
Alignment explanation
Indices: 28420228--28420349 Score: 190
Period size: 56 Copynumber: 2.2 Consensus size: 56
28420218 GAATATATGA
* * *
28420228 ACTATGTGTGCGAGATTAGTAACTGAGCACTATGTGCACGAGATCGGGTGTAAGGC
1 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGCACGAGATCGGGTGTAAGGC
**
28420284 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCGAGATCGGGTGTAAGGC
1 ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGCACGAGATCGGGTGTAAGGC
*
28420340 ACTGTGTGTG
1 ACTATGTGTG
28420350 TGCAAAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (56 bp):
ACTATGTGTGCGAAATTATTAACCGAGCACTATGTGCACGAGATCGGGTGTAAGGC
Found at i:28423253 original size:312 final size:310
Alignment explanation
Indices: 28422686--28423286 Score: 1112
Period size: 312 Copynumber: 1.9 Consensus size: 310
28422676 TCAGATTTTC
28422686 GGCACAAATTAAAGAAGAATAGTAGAAGAAGGAATTGGCTAATCCAAAGGGTAAATCAACAGAGA
1 GGCACAAATTAAAGAAGAATAGTAGAAGAAGGAATTGGCTAATCCAAAGGGTAAATCAACAGAGA
* *
28422751 TCTGAGGAGAGAAAGAATGGCAAAAGAATCAGCTAGCAAAAATGGAAAAGCCAATCGGCACTAAA
66 TCTGAGGAGAGAAAGAATGGCAAAAGAATCAGCCAGCAAAAATAGAAAAGCCAATCGGCACTAAA
*
28422816 AAAATGAAGAATTTGGCATTAGCCTAGGACCCCTAAACTCAGCACATATTTATAGCCTCTAGCCA
131 AAAATGAAGAATTTGGCATTAGCCTAGGACCCCTAAACTCAACACATATTTATAGCCTCTAGCCA
* *
28422881 AATTGCCTGACCCTCAATTCTCGTTCGGCTCCATCACTTCCCCCTTCTCATCTCCTCATTTTTCT
196 AATTGCCTGACCCTCAATTCCCGCTCGGCTCCATCACTTCCCCCTTCTCATCTCCTCATTTTTCT
*
28422946 CCCTGATAACTCCCCAATCTATTTCCTAATATGGTGAATAAGGTTTATTT
261 CCCTGATAACTCCCCAACCTATTTCCTAATATGGTGAATAAGGTTTATTT
28422996 GGCACAAATTAAAGAAGAATAGTAGAAGAAGGAATTGGCTAATCCAAAGGGTAAATCAACAGAGA
1 GGCACAAATTAAAGAAGAATAGTAGAAGAAGGAATTGGCTAATCCAAAGGGTAAATCAACAGAGA
*
28423061 TCTGAGGAGAGAAAGAATGGCAAAAGAATCAGCCAGCAAAGATAGAAAAGCCAATCGGCACTAAA
66 TCTGAGGAGAGAAAGAATGGCAAAAGAATCAGCCAGCAAAAATAGAAAAGCCAATCGGCACT--A
*
28423126 AAAAAATGAGGAATTTGGCATTAGCCTAGGACCCCTAAACTCAACACATATTTATAGCCTCTAGC
129 AAAAAATGAAGAATTTGGCATTAGCCTAGGACCCCTAAACTCAACACATATTTATAGCCTCTAGC
28423191 CAAATTGCCTGACCCTCAATTCCCGCTCGGCTCCATCACTTCCCCCTTCTCATCTCCTCATTTTT
194 CAAATTGCCTGACCCTCAATTCCCGCTCGGCTCCATCACTTCCCCCTTCTCATCTCCTCATTTTT
28423256 CTCCCTGATAACTCCCCAACCTATTTCCTAA
259 CTCCCTGATAACTCCCCAACCTATTTCCTAA
28423287 ATTTTATCTT
Statistics
Matches: 281, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
310 124 0.44
312 157 0.56
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (310 bp):
GGCACAAATTAAAGAAGAATAGTAGAAGAAGGAATTGGCTAATCCAAAGGGTAAATCAACAGAGA
TCTGAGGAGAGAAAGAATGGCAAAAGAATCAGCCAGCAAAAATAGAAAAGCCAATCGGCACTAAA
AAAATGAAGAATTTGGCATTAGCCTAGGACCCCTAAACTCAACACATATTTATAGCCTCTAGCCA
AATTGCCTGACCCTCAATTCCCGCTCGGCTCCATCACTTCCCCCTTCTCATCTCCTCATTTTTCT
CCCTGATAACTCCCCAACCTATTTCCTAATATGGTGAATAAGGTTTATTT
Found at i:28426223 original size:40 final size:39
Alignment explanation
Indices: 28426178--28426385 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
28426168 CGGAATACAA
*
28426178 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
28426218 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
28426258 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
28426298 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
28426338 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
28426378 CCGGATAT
1 CCGGATAT
28426386 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:28426318 original size:80 final size:80
Alignment explanation
Indices: 28426178--28426385 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
28426168 CGGAATACAA
* * *
28426178 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
28426243 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
28426258 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
28426322 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
28426338 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
28426386 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:28434233 original size:40 final size:39
Alignment explanation
Indices: 28434188--28434395 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
28434178 CGGAATACAA
*
28434188 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
28434228 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
28434268 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
28434308 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
28434348 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
28434388 CCGGATAT
1 CCGGATAT
28434396 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:28434328 original size:80 final size:80
Alignment explanation
Indices: 28434188--28434395 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
28434178 CGGAATACAA
* * *
28434188 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
28434253 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
28434268 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
28434332 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
28434348 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
28434396 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:28439078 original size:34 final size:33
Alignment explanation
Indices: 28439035--28439102 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
28439025 ACTGTCACTA
* *
28439035 TAATGGGCTAAGGCCC-AGACTGATATTGATACTG
1 TAATGGGCTAAGACCCTA-ACTGACATTGA-ACTG
28439069 TAATGGGCTAAGACCCTAACTGACATTGAACTG
1 TAATGGGCTAAGACCCTAACTGACATTGAACTG
28439102 T
1 T
28439103 TACTGAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 5 0.16
34 25 0.81
35 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (33 bp):
TAATGGGCTAAGACCCTAACTGACATTGAACTG
Found at i:28442387 original size:93 final size:93
Alignment explanation
Indices: 28442228--28442398 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
28442218 GGGATATTTG
* ***
28442228 GGCATCCGAACTCATTGAGTTGAGTCCCAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCCAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAG
28442293 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
* * * **
28442321 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACACCCGAGGTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCCAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAG
*
28442386 TTGAGTCTGAGTT
66 TTGAGTCCGAGTT
28442399 CACTTATGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCCAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:28447310 original size:46 final size:46
Alignment explanation
Indices: 28447257--28447432 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
28447247 CATTTGGGCA
*
28447257 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
28447303 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
28447350 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
28447396 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28447433 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:28447412 original size:93 final size:93
Alignment explanation
Indices: 28447253--28447424 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
28447243 TGGACATTTG
* * *
28447253 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
28447318 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
28447346 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
28447411 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
28447425 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:28450370 original size:15 final size:15
Alignment explanation
Indices: 28450335--28450411 Score: 92
Period size: 14 Copynumber: 5.4 Consensus size: 15
28450325 GTATCTTGGG
*
28450335 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
28450350 -TTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
28450364 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
28450378 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
28450393 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
28450406 TTTCTT
1 TTTCTT
28450412 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.15
14 25 0.45
15 20 0.36
16 2 0.04
ACGTcount: A:0.10, C:0.17, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:28450377 original size:29 final size:29
Alignment explanation
Indices: 28450326--28450411 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
28450316 CATAGTATCG
* * *
28450326 TATCTTGGGTTTCTTTATCCTGGATTCTT
1 TATCTTGGATTTCTTTATTCTGGTTTCTT
*
28450355 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTT
28450384 TATCTTGGATTTCTTTATTC-GGTTTCTT
1 TATCTTGGATTTCTTTATTCTGGTTTCTT
28450412 GTTATCTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.16
29 41 0.82
30 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.15, T:0.58
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTT
Found at i:28456703 original size:40 final size:40
Alignment explanation
Indices: 28456658--28456787 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
28456648 CGGAATACAA
28456658 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
28456698 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
28456738 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
28456778 CCGGATATAA
1 CCGGATATAA
28456788 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:28456802 original size:40 final size:40
Alignment explanation
Indices: 28456658--28456821 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
28456648 CGGAATACAA
* **
28456658 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
28456698 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
28456738 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
28456778 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
28456818 CCGG
1 CCGG
28456822 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:28473022 original size:47 final size:47
Alignment explanation
Indices: 28472970--28473142 Score: 199
Period size: 47 Copynumber: 3.7 Consensus size: 47
28472960 TGGATATTTG
* *
28472970 GGCATCTGAACTCGTTGAGTTGAGTCCTAGTTCGTGATATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGATATGTAACTA
* ** * * * *
28473017 GGCATCCGAACTCATTGAGTTGAGTCTAAGTTCACT--TATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGATATGTA-ACTA
* * *
28473064 -ACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGATATGTAACTA
28473110 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
28473143 ACTTATGGAT
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 34 0.34
47 65 0.64
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGATATGTAACTA
Found at i:28473084 original size:46 final size:46
Alignment explanation
Indices: 28473021--28473196 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
28473011 TAACTAGGCA
**
28473021 TCCGAACTCATTGAGTTGAGTCTAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
28473067 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
28473112 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
28473160 -CTCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
28473197 GCGTATTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 58 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:28473142 original size:93 final size:93
Alignment explanation
Indices: 28472977--28473189 Score: 347
Period size: 93 Copynumber: 2.3 Consensus size: 93
28472967 TTGGGCATCT
* *
28472977 GAACTCGTTGAGTTGAGTCCTAGTTCGTGATATGTAACTAGGCATCCGAACTCATTGAGTTGAGT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGT
*
28473042 CTAAGTTCACTTATGGATGCGAACG-TCC
66 CCAAGTTCACTTATGGATGCGAACGCT-C
*
28473070 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGT
*
28473135 CCGAGTTCACTTATGGATGCGAACGCTC
66 CCAAGTTCACTTATGGATGCGAACGCTC
* *
28473163 GAGCTCATTGAGTTGAGTCCGAGTTCG
1 GAACTCGTTGAGTTGAGTCCGAGTTCG
28473190 CTTATGGGCG
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
93 111 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGT
CCAAGTTCACTTATGGATGCGAACGCTC
Found at i:28474731 original size:16 final size:16
Alignment explanation
Indices: 28474710--28474740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28474700 CAGCAAATCC
28474710 CGAAATACCAAAAAGT
1 CGAAATACCAAAAAGT
*
28474726 CGAAATGCCAAAAAG
1 CGAAATACCAAAAAG
28474741 CCAAAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.16, T:0.10
Consensus pattern (16 bp):
CGAAATACCAAAAAGT
Found at i:28475038 original size:28 final size:29
Alignment explanation
Indices: 28474974--28475039 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
28474964 GAAAGCGTGA
*
28474974 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
*
28475003 ATACGAATGTGATTTAGGCCT-ATGGGCC
1 ATATGAATGTGATTTAGGCCTAATGGGCC
28475031 ATATGAATG
1 ATATGAATG
28475040 AGAATGGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTAGGCCTAATGGGCC
Found at i:28479544 original size:29 final size:29
Alignment explanation
Indices: 28479499--28479641 Score: 198
Period size: 29 Copynumber: 5.0 Consensus size: 29
28479489 GCATGAATAT
28479499 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
28479528 GATTGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
28479557 AAATATGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
28479586 GAATGTAATTTGGGCCTAATAGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* **
28479615 GAATGAGA-TTGGGCCTGGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
28479642 TGCATGTATG
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 16 0.16
29 84 0.84
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:28483995 original size:29 final size:29
Alignment explanation
Indices: 28483938--28484094 Score: 248
Period size: 29 Copynumber: 5.5 Consensus size: 29
28483928 GAAAGCATGA
*
28483938 ATATGAATGTGATTT-GGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
28483966 ATATGAATGTGATTTGGGCCTAATGCGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
28483995 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
28484024 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
28484053 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
28484081 ATATGCATGT-ATTT
1 ATATGAATGTGATTT
28484095 AGACTTGTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.01
28 40 0.33
29 79 0.66
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:28509013 original size:41 final size:41
Alignment explanation
Indices: 28508839--28509023 Score: 164
Period size: 41 Copynumber: 4.5 Consensus size: 41
28508829 TCGGGGTTTA
28508839 AATCTGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAAT
1 AATC-GAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAAT
* * *
28508881 AA-CTGAACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCAT
1 AATC-GAGCTTGGTTTCGAAGGGCCTTT-GAGCCAGTGCTAAT
* * * * * *
28508921 AACCG-GACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGT-TT
1 AATCGAG-CTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAAT
* * *
28508961 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAG
1 AAT-CGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAAT
* *
28509003 AATCGGGCTTGATTTCGAAGG
1 AATCGAGCTTGGTTTCGAAGG
28509024 ATGTTTGTGC
Statistics
Matches: 116, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
40 36 0.31
41 74 0.64
42 6 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
AATCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAAT
Found at i:28512393 original size:47 final size:47
Alignment explanation
Indices: 28512334--28512463 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
28512324 GTGTAAATCA
* *
28512334 TACCTTAATTTGGCTACGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * * *
28512381 TACCTTAATTTGGTTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTAATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
28512428 TACCTTGATTTGGCT-CTGGACCATGGTATAGGTACT
1 TACCTTAATTTGGCTAC-GGGCCATGGTATAGGTACT
28512464 TATTGATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTAATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:28518105 original size:32 final size:32
Alignment explanation
Indices: 28518064--28518127 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
28518054 CCATGTTGGC
*
28518064 TTAGAATTATATGAAAAAGGGCTGCGAAGCTT
1 TTAGAATTATATGAAAAAGGGCTGCAAAGCTT
*
28518096 TTAGAATTATATGAAAAAGGGTTGCAAAGCTT
1 TTAGAATTATATGAAAAAGGGCTGCAAAGCTT
28518128 ACTTGGCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (32 bp):
TTAGAATTATATGAAAAAGGGCTGCAAAGCTT
Found at i:28525588 original size:26 final size:26
Alignment explanation
Indices: 28525557--28525716 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
28525547 TGAAATGCCC
*
28525557 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
28525583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
28525609 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
28525635 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
28525661 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
28525687 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
28525713 ATCA
1 ATCA
28525717 ATTTGTACCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:28529544 original size:39 final size:39
Alignment explanation
Indices: 28529501--28529591 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
28529491 TATTGTGTTA
* *
28529501 AAGCCCGAAGGCAATTGGGCGAGTTATGATATCCGGGCT
1 AAGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCT
* * *
28529540 AAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTT
1 AAGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCT
28529579 AAGTCCCGAAGGC
1 AAG-CCCGAAGGC
28529592 CTTTGTGCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 37 0.80
40 9 0.20
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (39 bp):
AAGCCCGAAGGCAATTGGGCAAATTATGATATCCGGGCT
Found at i:28536924 original size:39 final size:39
Alignment explanation
Indices: 28536877--28537059 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
28536867 AATGTTCGAG
28536877 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
28536916 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
28536955 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
28536994 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
28537034 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
28537060 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:28537746 original size:22 final size:22
Alignment explanation
Indices: 28537721--28537777 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
28537711 ATTGGAATGG
28537721 CTAAATATGA-TCATATGTGGAC
1 CTAAATATGACT-ATATGTGGAC
*
28537743 CTAAGTATGACTATATGTGGAC
1 CTAAATATGACTATATGTGGAC
* *
28537765 CTAAGTTTGACTA
1 CTAAATATGACTA
28537778 GACTAAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (22 bp):
CTAAATATGACTATATGTGGAC
Found at i:28540069 original size:12 final size:12
Alignment explanation
Indices: 28540052--28540082 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
28540042 AGTACTACCT
28540052 CGGCCTCGACCA
1 CGGCCTCGACCA
28540064 CGGCCTCGACCA
1 CGGCCTCGACCA
28540076 CGGCCTC
1 CGGCCTC
28540083 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:28543257 original size:26 final size:26
Alignment explanation
Indices: 28543228--28543387 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
28543218 TGAAATGCCC
* *
28543228 ATCATGGAACAATTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
28543254 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
28543280 ATCATGGAATATTCACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
28543306 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
28543332 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
28543358 A-CTATGGAACATTTACCTAACCCATT
1 ATC-ATGGAACATTTACCTAACCCATT
28543384 ATCA
1 ATCA
28543388 ATTTGTACCA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 117 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:28555034 original size:46 final size:46
Alignment explanation
Indices: 28554967--28555133 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
28554957 CAACCCGCCA
28554967 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
* *
28555013 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--TCC
* * *
28555059 ACT--CTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCC
1 A-TAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
28555105 ATAAGTGAACTCGGACTCAACTCAACGAG
1 ATAAGTGAACTCGGACTCAACTCAACGAG
28555134 TTCGGATGCC
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 86 0.83
47 3 0.03
48 4 0.04
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
Found at i:28555084 original size:92 final size:92
Alignment explanation
Indices: 28554973--28555143 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
28554963 GCCAATAAGT
*
28554973 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28555038 CGAGCTCGGATGCCTAGTTACACTCTC
66 CGAGCTCGGATGCCTAGTTACACTCTC
*
28555065 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28555130 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
28555144 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACACTCTC
Found at i:28559682 original size:40 final size:40
Alignment explanation
Indices: 28559637--28559766 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
28559627 CGGAATACAA
28559637 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
28559677 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
28559717 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
28559757 CCGGATATAA
1 CCGGATATAA
28559767 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:28559781 original size:40 final size:40
Alignment explanation
Indices: 28559637--28559804 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
28559627 CGGAATACAA
* **
28559637 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
28559677 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
28559717 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
28559757 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
28559797 CCGGATAT
1 CCGGATAT
28559805 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:28567698 original size:40 final size:40
Alignment explanation
Indices: 28567653--28567782 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
28567643 CGGAATACAA
28567653 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
28567693 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
28567733 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
28567773 CCGGATATAA
1 CCGGATATAA
28567783 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:28567797 original size:40 final size:40
Alignment explanation
Indices: 28567653--28567819 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
28567643 CGGAATACAA
* **
28567653 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
28567693 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
28567733 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
28567773 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
28567812 CCGGATAT
1 CCGGATAT
28567820 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:28572329 original size:40 final size:40
Alignment explanation
Indices: 28572255--28572781 Score: 869
Period size: 40 Copynumber: 13.2 Consensus size: 40
28572245 TTGAGAGTTG
* * * *
28572255 TATAGCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
28572295 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
28572335 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
28572375 TGTATCCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572415 TATATCCGGGCTAAAT-CCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
28572454 TGTATCCGGACTAAATCCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572494 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572534 TGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572574 TGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
28572614 TATATCCGGGCTAAATCCCGGAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572654 TGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572694 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
28572734 TGTATCCGGGCTAAAT-CCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
*
28572773 TGTATCCGG
1 TATATCCGG
28572782 CTGGGTCCTG
Statistics
Matches: 460, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 68 0.15
40 392 0.85
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
Found at i:28575594 original size:47 final size:47
Alignment explanation
Indices: 28575526--28575694 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
28575516 CCTGTATATA
*
28575526 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
28575573 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
28575620 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
28575667 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
28575695 CGAAATGTGT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:28575604 original size:22 final size:22
Alignment explanation
Indices: 28575577--28575651 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
28575567 CATGCGTATG
28575577 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * * *
28575599 TGTGATGAATG-TGAATATGCGTATG
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
28575624 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
28575646 TGTGAT
1 TGTGAT
28575652 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:28575628 original size:25 final size:25
Alignment explanation
Indices: 28575552--28575629 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
28575542 GAATGGCCAA
*
28575552 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAATATGCGTATG
* * * * *
28575577 TGTGAT-AAGGCCGAAT-GGC-CA-A
1 TGTGATGAATG-TGAATATGCGTATG
28575599 TGTGATGAATGTGAATATGCGTATG
1 TGTGATGAATGTGAATATGCGTATG
28575624 TGTGAT
1 TGTGAT
28575630 AAGGCCGAAT
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 10 0.27
23 6 0.16
24 6 0.16
25 15 0.41
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.31
Consensus pattern (25 bp):
TGTGATGAATGTGAATATGCGTATG
Found at i:28575639 original size:25 final size:25
Alignment explanation
Indices: 28575568--28575639 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 25
28575558 GAATGTGAAC
28575568 ATGCGTATGTGTGATAAGGCCGAAT
1 ATGCGTATGTGTGATAAGGCCGAAT
* * * * *
28575593 -GGC-CA-ATGTGATGAATG-TGAAT
1 ATGCGTATGTGTGAT-AAGGCCGAAT
28575615 ATGCGTATGTGTGATAAGGCCGAAT
1 ATGCGTATGTGTGATAAGGCCGAAT
28575640 GGCCAATGTG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
22 10 0.31
23 6 0.19
24 6 0.19
25 10 0.31
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
ATGCGTATGTGTGATAAGGCCGAAT
Found at i:28575734 original size:46 final size:46
Alignment explanation
Indices: 28575668--28575757 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
28575658 GAACATGTAT
* * *
28575668 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
28575714 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
28575758 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:28575766 original size:2 final size:2
Alignment explanation
Indices: 28575759--28575785 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28575749 GTATGAGATG
28575759 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
28575786 TGTGGCCAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28577827 original size:42 final size:42
Alignment explanation
Indices: 28577780--28577860 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
28577770 TGATGATTCT
* * * * *
28577780 TGTAACACCCCTAACCTATATCCGTTGCCAAAATAGGGTACG
1 TGTAACACACCAAACCCATATCCATCGCCAAAATAGGGTACG
*
28577822 TGTAACACACCAAACCCATATCCATCGCCAAACTAGGGT
1 TGTAACACACCAAACCCATATCCATCGCCAAAATAGGGT
28577861 TAAGAGACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (42 bp):
TGTAACACACCAAACCCATATCCATCGCCAAAATAGGGTACG
Found at i:28579606 original size:68 final size:67
Alignment explanation
Indices: 28579534--28579683 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
28579524 CATCATGTGT
* * * *
28579534 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
28579596 ATGTAG
62 ATGTAG
** * *
28579602 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
28579667 AG
66 AG
28579669 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
28579684 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:28579639 original size:64 final size:64
Alignment explanation
Indices: 28579558--28579741 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
28579548 AGACATTATG
* *
28579558 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
28579622 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
28579687 AA
63 AA
* * * *
28579689 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
28579742 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:28584042 original size:68 final size:67
Alignment explanation
Indices: 28583970--28584119 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
28583960 CATCATGTGT
* * * *
28583970 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
28584032 ATGTAG
62 ATGTAG
** * *
28584038 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
28584103 AG
66 AG
28584105 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
28584120 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:28584075 original size:64 final size:64
Alignment explanation
Indices: 28583994--28584177 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
28583984 AGACATTATG
* *
28583994 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
28584058 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
28584123 AA
63 AA
* * * *
28584125 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
28584178 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:28600002 original size:186 final size:186
Alignment explanation
Indices: 28599681--28600052 Score: 638
Period size: 186 Copynumber: 2.0 Consensus size: 186
28599671 CCCGAGCTGC
* *
28599681 CTTCTTTGATATGATGGATGAATGGTTTGGGGATTATCTAAGAAATTGCCCCAATATACTAAGAC
1 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTAAGAAATTGCCCCAATATACTAAGAC
*
28599746 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACCGGTGAGAATCGAT
66 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGAT
28599811 AAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAATTCAGAGCTAAAGT
131 AAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAATTCAGAGCTAAAGT
* *
28599867 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTGAGAAATTGCCCTAATATACTAAGAC
1 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTAAGAAATTGCCCCAATATACTAAGAC
* * *
28599932 CTCCCCCGCCCTCTAACCAACTTGATGAGGATGTGCCACGAGGTATGGCACAGGTGAGAATC-AG
66 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGA-
* *
28599996 TAAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGTTGAGGAATTCATAGCTAAAGT
130 TAAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAATTCAGAGCTAAAGT
28600053 TGATGATGAT
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 1 0.01
186 174 0.99
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (186 bp):
CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTAAGAAATTGCCCCAATATACTAAGAC
CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGAT
AAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAATTCAGAGCTAAAGT
Found at i:28607764 original size:16 final size:16
Alignment explanation
Indices: 28607745--28607794 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
28607735 ATAATAATAA
28607745 CAAAACATAAAGAAAC
1 CAAAACATAAAGAAAC
*
28607761 CAAATA-AT-AA-TAA-
1 CAAA-ACATAAAGAAAC
28607774 CAAAACATAAAGAAAC
1 CAAAACATAAAGAAAC
28607790 CAAAA
1 CAAAA
28607795 AATCCCAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 1 0.04
13 6 0.22
14 4 0.15
15 4 0.15
16 11 0.41
17 1 0.04
ACGTcount: A:0.70, C:0.16, G:0.04, T:0.10
Consensus pattern (16 bp):
CAAAACATAAAGAAAC
Found at i:28607766 original size:29 final size:29
Alignment explanation
Indices: 28607734--28607793 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
28607724 ATCTCAGAAG
28607734 AATAATAATAACAAAACATAAAGAAACCA
1 AATAATAATAACAAAACATAAAGAAACCA
28607763 AATAATAATAACAAAACATAAAGAAACCA
1 AATAATAATAACAAAACATAAAGAAACCA
28607792 AA
1 AA
28607794 AAATCCCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (29 bp):
AATAATAATAACAAAACATAAAGAAACCA
Found at i:28609912 original size:18 final size:17
Alignment explanation
Indices: 28609885--28609922 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
28609875 ATGGAATTTG
28609885 AAATAAAATAGAAACAA
1 AAATAAAATAGAAACAA
*
28609902 AAATAAAAATAGAAATAA
1 AAAT-AAAATAGAAACAA
28609920 AAA
1 AAA
28609923 AAAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (17 bp):
AAATAAAATAGAAACAA
Found at i:28617420 original size:24 final size:24
Alignment explanation
Indices: 28617388--28617448 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
28617378 AAAATCCAAT
* * *
28617388 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
28617412 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
28617436 GCACTATGTGTGC
1 GCACTATGTGTGC
28617449 AAATTCAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:28623135 original size:40 final size:40
Alignment explanation
Indices: 28623032--28623199 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
28623022 GAATTTAGCT
* * * * * *
28623032 GGATATAACCACAAGCACAATTGCTTTCGGCTCTTAACCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* *** *
28623072 GGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* *
28623112 GGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* * * *
28623152 GGATTTGATC-ACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GGATAT-AACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
*
28623192 GGGTATAA
1 GGATATAA
28623200 TTCAAATGCT
Statistics
Matches: 101, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:28630498 original size:40 final size:40
Alignment explanation
Indices: 28630449--28630616 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
28630439 TCTTCGGAAT
* * *
28630449 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
28630488 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
28630528 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
28630568 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
28630608 TTAGCCCGG
1 TTAGCCCGG
28630617 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:28643532 original size:13 final size:14
Alignment explanation
Indices: 28643509--28643537 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
28643499 TGGAAAATGG
28643509 ATTAGAAAATATTT
1 ATTAGAAAATATTT
28643523 ATTA-AAAATATTT
1 ATTAGAAAATATTT
28643536 AT
1 AT
28643538 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Done.