Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 56 of 362
Found at i:16792869 original size:34 final size:34
Alignment explanation
Indices: 16792812--16792907 Score: 133
Period size: 34 Copynumber: 2.8 Consensus size: 34
16792802 AATTCGATTA
*
16792812 TATATAT-TAATAGTGCCGAATTGAATTATTATTTG
1 TATATATGT-ATA-TGCTGAATTGAATTATTATTTG
*
16792847 TATATATGTATATGCTGAATTGAATTATTATTTT
1 TATATATGTATATGCTGAATTGAATTATTATTTG
16792881 TATATATGTATATG-TCGAATTGAATTA
1 TATATATGTATATGCT-GAATTGAATTA
16792908 AGCATGGGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
33 1 0.02
34 45 0.79
35 10 0.18
36 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (34 bp):
TATATATGTATATGCTGAATTGAATTATTATTTG
Found at i:16793091 original size:44 final size:43
Alignment explanation
Indices: 16793015--16793186 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
16793005 CATAGGATTC
* * *
16793015 CGATATGTGATTTCGTGTAAGACCATTTCTGGGACGTTGGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
* * **
16793058 CGATTTGTTATTTACGTGTAAGTTCATGTCTGGGACATCGGCAT
1 CGATATGTGATTT-CGTGTAAGACCATGTCTGGGACATCGGCAT
* * * * *
16793102 CG-TATATGAGTTCGTATAAGACCCTGTATGGGACAGT-GGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCAT
* * ** *
16793144 CGATATGTGATTACATGTAAGACCACATCTGGGACATTGGCAT
1 CGATATGTGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
16793187 TGGCGTTGTA
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 26 0.26
43 47 0.47
44 27 0.27
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
Found at i:16798288 original size:46 final size:45
Alignment explanation
Indices: 16798238--16798409 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
16798228 TGGTTGAGCA
16798238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
16798284 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
16798330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
16798376 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16798410 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:16798392 original size:92 final size:92
Alignment explanation
Indices: 16798235--16798404 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
16798225 GGATGGTTGA
* *
16798235 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16798300 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
16798327 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16798392 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16798405 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:16807304 original size:47 final size:47
Alignment explanation
Indices: 16807251--16807874 Score: 1032
Period size: 47 Copynumber: 13.3 Consensus size: 47
16807241 ACAAGATATG
16807251 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16807298 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16807345 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807392 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16807439 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807486 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807533 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
16807580 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807627 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16807674 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807721 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
16807768 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
16807815 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
16807862 TAAATGTGATAAG
1 TATATGTGATAAG
16807875 TCCCGAAGGG
Statistics
Matches: 534, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 534 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:16807633 original size:25 final size:25
Alignment explanation
Indices: 16807605--16807682 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
16807595 CTAATGGCCG
16807605 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
16807630 ATGTGAT-AAAGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
16807652 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
16807677 ATGTGA
1 ATGTGA
16807683 CAAGGCCTAA
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:16824823 original size:19 final size:19
Alignment explanation
Indices: 16824799--16824839 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
16824789 AAGAAAATCA
16824799 TATTCATCCAACTGTAGCT
1 TATTCATCCAACTGTAGCT
16824818 TATTCATCCAACTGTAGCT
1 TATTCATCCAACTGTAGCT
16824837 TAT
1 TAT
16824840 CACGCTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (19 bp):
TATTCATCCAACTGTAGCT
Found at i:16839994 original size:43 final size:43
Alignment explanation
Indices: 16839897--16839982 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
16839887 CGCCGCCTAC
16839897 AACACTATTTCTGACGACCCAAGCTTCTCCCTTTTGCGTTTGT
1 AACACTATTTCTGACGACCCAAGCTTCTCCCTTTTGCGTTTGT
*
16839940 AACACTATTTCTGATGACCCAAGCTTCTCCCTTTTGCGTTTGT
1 AACACTATTTCTGACGACCCAAGCTTCTCCCTTTTGCGTTTGT
16839983 TTACTCTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (43 bp):
AACACTATTTCTGACGACCCAAGCTTCTCCCTTTTGCGTTTGT
Found at i:16844460 original size:50 final size:49
Alignment explanation
Indices: 16844347--16844475 Score: 149
Period size: 50 Copynumber: 2.7 Consensus size: 49
16844337 GATAATGTCA
*
16844347 ATGCCATGTCCCAGACATGGTCATACACTG--GCTCATCTATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATCAAGTCG
* * **
16844394 ATGCCATGTCCGAGACATGGTCTTACACTGACTCTCA-CATATTCGTGAT-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATC-TA-TCAAG-TCG
*
16844444 ATGCCATGTCCCAGACATGGTCTTACATTGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC
16844476 AATTTTGTAG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
47 28 0.40
48 1 0.01
49 6 0.09
50 34 0.49
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACGCTCATCTATCAAGTCG
Found at i:16844636 original size:47 final size:46
Alignment explanation
Indices: 16844493--16844658 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
16844483 TAGCCATTGA
* * *
16844493 ATGTCCCAGACATGTCTTACACTGGCT-TAGATCTCGA-GGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCG--CTCAATGGCCGATGC
* *
16844539 ATGTCCCAGACAAGTCTTACACTAGCTCTCGTCTCAATAG-CGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCG-CTCAATGGCCGATG-C
*
16844586 ATGTCCCAGACATGGTCTTACACTTGCTCTCG-T-AATTTGGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCGCTCAA--TGGCCGATGC
*
16844633 ATGTCCCAAACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
16844659 ACACAATTAA
Statistics
Matches: 103, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.47
47 31 0.30
48 22 0.21
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCGCTCAATGGCCGATGC
Found at i:16845379 original size:13 final size:13
Alignment explanation
Indices: 16845361--16845385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16845351 TCTAAAATGC
16845361 AAAAATCATCAAG
1 AAAAATCATCAAG
16845374 AAAAATCATCAA
1 AAAAATCATCAA
16845386 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:16847869 original size:42 final size:42
Alignment explanation
Indices: 16847823--16847958 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
16847813 GCAATCATGT
* *
16847823 TGGCACGTAAGTGCATCATCGGATGTACTGAATAAAATATAC
1 TGGCACATAAGTGCATCATCGGATATACTGAATAAAATATAC
* * * * * *
16847865 TGGCACTTAAGTACATCATTGGATATACTGAATTAATTATAT
1 TGGCACATAAGTGCATCATCGGATATACTGAATAAAATATAC
* * * * **
16847907 TGACACATAAGTGCATCATCAGATAAACCGAAGCAAATATAC
1 TGGCACATAAGTGCATCATCGGATATACTGAATAAAATATAC
*
16847949 TGGCATATAA
1 TGGCACATAA
16847959 ATAGGGTAAC
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGCACATAAGTGCATCATCGGATATACTGAATAAAATATAC
Found at i:16847920 original size:84 final size:84
Alignment explanation
Indices: 16847794--16847953 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
16847784 ACGCATAATG
* * * * ** * *
16847794 CATCATTGGATAAACTAAAGCAATCATGTTGGCACGTAAGTGCATCATCGGATGTACTGAATAAA
1 CATCATTGGATAAACTAAAGCAATCATATTGACACATAAGTGCATCATCAGATAAACCGAAGAAA
16847859 ATATACTGGCACTTAAGTA
66 ATATACTGGCACTTAAGTA
* * ** * *
16847878 CATCATTGGATATACTGAATTAATTATATTGACACATAAGTGCATCATCAGATAAACCGAAGCAA
1 CATCATTGGATAAACTAAAGCAATCATATTGACACATAAGTGCATCATCAGATAAACCGAAGAAA
16847943 ATATACTGGCA
66 ATATACTGGCA
16847954 TATAAATAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (84 bp):
CATCATTGGATAAACTAAAGCAATCATATTGACACATAAGTGCATCATCAGATAAACCGAAGAAA
ATATACTGGCACTTAAGTA
Found at i:16848912 original size:22 final size:22
Alignment explanation
Indices: 16848886--16848927 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16848876 TTAAAACAAT
*
16848886 ATATAAAATAAATATTTTAAAA
1 ATATAAAATAAATAATTTAAAA
* *
16848908 ATATATAATAATTAATTTAA
1 ATATAAAATAAATAATTTAA
16848928 GTTTTATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAAATAAATAATTTAAAA
Found at i:16848944 original size:6 final size:6
Alignment explanation
Indices: 16848907--16848976 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
16848897 ATATTTTAAA
* *
16848907 AATATAT AATAATT AAT-TT AAGT-TT TATATT AATATT AATATT AA-ATA
1 AATAT-T AAT-ATT AATATT AA-TATT AATATT AATATT AATATT AATATT
16848955 AATATT ATTATATT AATATT AA
1 AATATT A--ATATT AATATT AA
16848977 ATAAAGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
5 9 0.17
6 29 0.55
7 7 0.13
8 8 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:16857016 original size:40 final size:40
Alignment explanation
Indices: 16856972--16857083 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
16856962 CAGGGGAATG
*
16856972 AATGTGCTGTCAAGTGCACCGAAGTGTATTCAGGGGCACA
1 AATGTGCTGTCAAGCGCACCGAAGTGTATTCAGGGGCACA
* * * * ** * *
16857012 AATGTGCTGCCAGGGGTACTAAAGTGCATTTAGGGGCACA
1 AATGTGCTGTCAAGCGCACCGAAGTGTATTCAGGGGCACA
* *
16857052 AAAGTGCTATC-AGCGACACCGAAGTGTATTCA
1 AATGTGCTGTCAAGCG-CACCGAAGTGTATTCA
16857084 AAGACACCGA
Statistics
Matches: 53, Mismatches: 18, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
AATGTGCTGTCAAGCGCACCGAAGTGTATTCAGGGGCACA
Found at i:16863781 original size:37 final size:37
Alignment explanation
Indices: 16863732--16863804 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
16863722 CTAGGAAAAC
* *
16863732 TTAGTTAGTTCACGGAGTGATAGGATTTTTTTATGTG
1 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGTG
16863769 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGT
1 TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGT
16863805 AGAAATGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (37 bp):
TTAGTTAGTTCACGGAGCGATAGGATTGTTTTATGTG
Found at i:16865907 original size:23 final size:24
Alignment explanation
Indices: 16865862--16865908 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
16865852 CCTATTTTTG
* *
16865862 TTTCTTTTTTGCAGATTTTTTCTAT
1 TTTCTTTTTT-CAGAATTATTCTAT
16865887 TTTCTTTTTT-AGAATTATTCTA
1 TTTCTTTTTTCAGAATTATTCTA
16865909 AGGTTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTCTTTTTTCAGAATTATTCTAT
Found at i:16866018 original size:6 final size:6
Alignment explanation
Indices: 16866009--16866043 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
16865999 TGTTTATTTA
* *
16866009 ATTAAT ATTAAT ATGAAT ACTAAT ATTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
16866044 CATAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (6 bp):
ATTAAT
Found at i:16866108 original size:22 final size:23
Alignment explanation
Indices: 16866054--16866108 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
16866044 CATAAAATTT
16866054 AATTTTATTATTATATTTTTTTGA
1 AATTTT-TTATTATATTTTTTTGA
* *
16866078 AAATATTTATGTAT-TTTTTTTG-
1 AATTTTTTAT-TATATTTTTTTGA
16866100 AATTTTTTA
1 AATTTTTTA
16866109 GAATTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
AATTTTTTATTATATTTTTTTGA
Found at i:16866385 original size:13 final size:13
Alignment explanation
Indices: 16866369--16866396 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16866359 ACTATGTAAC
16866369 TTCGTTTGTGATT
1 TTCGTTTGTGATT
16866382 TTCGTTTGTGATT
1 TTCGTTTGTGATT
16866395 TT
1 TT
16866397 AACGAGAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.64
Consensus pattern (13 bp):
TTCGTTTGTGATT
Found at i:16867061 original size:13 final size:13
Alignment explanation
Indices: 16867043--16867067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16867033 CAAAATACAC
16867043 ACTTAATATTTAT
1 ACTTAATATTTAT
16867056 ACTTAATATTTA
1 ACTTAATATTTA
16867068 ATATTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ACTTAATATTTAT
Found at i:16867172 original size:14 final size:14
Alignment explanation
Indices: 16867142--16867200 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
16867132 TATTTAAGGT
* *
16867142 TTTAAGATCTAATG
1 TTTAAGATTTAAAG
*
16867156 TTTAATATTTAAAG
1 TTTAAGATTTAAAG
* *
16867170 TTTAAGGTTTAAGG
1 TTTAAGATTTAAAG
*
16867184 TTTAGGATTTAAAG
1 TTTAAGATTTAAAG
16867198 TTT
1 TTT
16867201 TTGTGTAGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (14 bp):
TTTAAGATTTAAAG
Found at i:16867186 original size:28 final size:28
Alignment explanation
Indices: 16867132--16867200 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
16867122 TTAAACTTAG
* *
16867132 TATTTAAGGTTTTAAGATCTAATGTTTAA
1 TATTTAAAG-TTTAAGATCTAAGGTTTAA
* * *
16867161 TATTTAAAGTTTAAGGTTTAAGGTTTAG
1 TATTTAAAGTTTAAGATCTAAGGTTTAA
*
16867189 GATTTAAAGTTT
1 TATTTAAAGTTT
16867201 TTGTGTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (28 bp):
TATTTAAAGTTTAAGATCTAAGGTTTAA
Found at i:16867187 original size:21 final size:22
Alignment explanation
Indices: 16867134--16867187 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
16867124 AAACTTAGTA
* *
16867134 TTTAAGGTTTTAAGATCTAATG
1 TTTAAGGTTTAAAGATCTAAGG
** *
16867156 TTTAATATTTAAAG-TTTAAGG
1 TTTAAGGTTTAAAGATCTAAGG
16867177 TTTAAGGTTTA
1 TTTAAGGTTTA
16867188 GGATTTAAAG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTAAAGATCTAAGG
Found at i:16880112 original size:23 final size:23
Alignment explanation
Indices: 16880082--16880130 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
16880072 GTCGGCGAAG
16880082 ATGGCTTGAATTATTGAAAAATT
1 ATGGCTTGAATTATTGAAAAATT
16880105 ATGGCTTGAATTATTGAAAAATT
1 ATGGCTTGAATTATTGAAAAATT
16880128 ATG
1 ATG
16880131 ATCTAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGGCTTGAATTATTGAAAAATT
Found at i:16881224 original size:15 final size:15
Alignment explanation
Indices: 16881204--16881253 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
16881194 AATTTGGCTA
16881204 ATCATAACAACATCT
1 ATCATAACAACATCT
16881219 ATCATAA-AA-A-CT
1 ATCATAACAACATCT
*
16881231 AATCGTAACAACATCT
1 -ATCATAACAACATCT
16881247 ATCATAA
1 ATCATAA
16881254 AAACTAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 7 0.24
14 4 0.14
15 14 0.48
16 2 0.07
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (15 bp):
ATCATAACAACATCT
Found at i:16881233 original size:28 final size:28
Alignment explanation
Indices: 16881201--16881260 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
16881191 ATAAATTTGG
16881201 CTAATCATAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
*
16881229 CTAATCGTAACAACATCTATCATAAAAA
1 CTAATCATAACAACATCTATCATAAAAA
16881257 CTAA
1 CTAA
16881261 GTCCCTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.25
Consensus pattern (28 bp):
CTAATCATAACAACATCTATCATAAAAA
Found at i:16883219 original size:31 final size:30
Alignment explanation
Indices: 16883167--16883225 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
16883157 TAATTCATAA
*
16883167 TTTAGAAAAATGATTGTTTTGCCCTTAGAC
1 TTTACAAAAATGATTGTTTTGCCCTTAGAC
*
16883197 TTTACAAAAATTATTGATTTTGCCCTTAG
1 TTTACAAAAATGATTG-TTTTGCCCTTAG
16883226 GCTCGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTACAAAAATGATTGTTTTGCCCTTAGAC
Found at i:16883340 original size:12 final size:12
Alignment explanation
Indices: 16883323--16883356 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
16883313 ATTTCATACA
16883323 TTTACAACTTAT
1 TTTACAACTTAT
16883335 TTTACAACTTAT
1 TTTACAACTTAT
16883347 TTTACAACTT
1 TTTACAACTT
16883357 TACAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTACAACTTAT
Found at i:16891802 original size:19 final size:19
Alignment explanation
Indices: 16891780--16891823 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16891770 TCTCAAAATT
16891780 ATATATAAACTTTAATTTA
1 ATATATAAACTTTAATTTA
*
16891799 ATATATAAATTTTAATTTA
1 ATATATAAACTTTAATTTA
*
16891818 GTATAT
1 ATATAT
16891824 TTATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATATAAACTTTAATTTA
Found at i:16896015 original size:67 final size:68
Alignment explanation
Indices: 16895927--16896093 Score: 166
Period size: 67 Copynumber: 2.5 Consensus size: 68
16895917 AACGAGCTCT
* * * *
16895927 ATATGCTGCCATAACTGAGCTATGGTCTTACAC-CATACAT-CCC-CTGTTTACTATCTCAG-TG
1 ATATGCTGCCAT-AGTAAGCTATGGTCTTACACACA-AAATACCCTATGTTTACTATC-CAGATG
16895988 AACTCC
63 AACTCC
* * *
16895994 ATATGCTGCCATAGTAAAGCTATGGT-TT-CACACAAAATACCCTATGTTTACTGTCCCGATGGA
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAA
*
16896057 CTCT
65 CTCC
*
16896061 ATATGCTGCCATAGTCAAGCTATGGTCGTACAC
1 ATATGCTGCCATAGT-AAGCTATGGTCTTACAC
16896094 TCTAAACCTC
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
65 6 0.07
66 11 0.13
67 62 0.75
68 1 0.01
69 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (68 bp):
ATATGCTGCCATAGTAAGCTATGGTCTTACACACAAAATACCCTATGTTTACTATCCAGATGAAC
TCC
Found at i:16898485 original size:40 final size:40
Alignment explanation
Indices: 16898416--16898621 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
16898406 AACCCAAGTA
* * *
16898416 CCTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16898455 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
16898495 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16898535 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16898575 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16898615 CCTTCGG
1 CCTTCGG
16898622 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 12 0.08
40 143 0.92
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:16901308 original size:40 final size:40
Alignment explanation
Indices: 16901236--16901632 Score: 318
Period size: 41 Copynumber: 9.8 Consensus size: 40
16901226 AGTGGCGTTT
* **
16901236 TTAGCGGCGTTTTAT-CAAAAAACGCCGC-AAAAATTGTA-CA
1 TTAGCGGCGTTTT-TGC-TAAAACGCCGCTAAAAACAG-AGCA
*
16901276 TTAGCGGCGTTTTTGCTAAAACGCTGCTAAAAACAGAGCA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACAGAGCA
* *
16901316 ATAGCGGCGTTTTTGGTAAAAACGCCGCTAAAAACAGAGCA
1 TTAGCGGCGTTTTTGCT-AAAACGCCGCTAAAAACAGAGCA
* * ** * * * *
16901357 ATGGCGGCGTTTTCCCAAAAATGCCACT-AAAACAGAACA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACAGAGCA
* * * *
16901396 ATAGCGGCG-TTTTACAAAAAACACCGCTAAAAACCAGAGCA
1 TTAGCGGCGTTTTTGC-TAAAACGCCGCTAAAAA-CAGAGCA
* *
16901437 ATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAA-CAGAGCA
* ** * *
16901478 ATAGCGGCGTTTTCCCAAAAACACCGCTAAAAACAGAGCA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACAGAGCA
* * * ** *
16901518 ATAGTGGCATTTTACCAAAAACGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAA-CAGAGCA
* * *
16901559 ATAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAA-CAGAGCA
* * * * *
16901600 ATAGTGGCATTTATGGTCAAAACGCCGCTAAAA
1 TTAGCGGCGTTTTTGCT-AAAACGCCGCTAAAA
16901633 GTCATATAAC
Statistics
Matches: 301, Mismatches: 46, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.01
39 38 0.13
40 86 0.29
41 155 0.51
42 18 0.06
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGTTTTTGCTAAAACGCCGCTAAAAACAGAGCA
Found at i:16901350 original size:41 final size:42
Alignment explanation
Indices: 16901277--16901632 Score: 394
Period size: 41 Copynumber: 8.8 Consensus size: 42
16901267 AATTGTACAT
*
16901277 TAGCGGCGTTTTTGCT-AAAACGCTGCTAAAAA-CAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
*
16901317 TAGCGGCGTTTTTGGTAAAAACGCCGCTAAAAA-CAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* * * * * *
16901358 TGGCGGCG-TTTTCCCAAAAATGCCACT-AAAA-CAGAACAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* * *
16901397 TAGCGGCG-TTTTACAAAAAACACCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
*
16901438 TAGCGGCGTTTTTGGT-AAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* * *
16901479 TAGCGGCG-TTTTCCCAAAAACACCGCTAAAAA-CAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* * * *
16901519 TAGTGGC-ATTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* *
16901560 TAGCGGCGTTTTTGGT-AAAATGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
* * * * *
16901601 TAGTGGCATTTATGGTCAAAACGCCGCTAAAA
1 TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAA
16901633 GTCATATAAC
Statistics
Matches: 270, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.12
40 73 0.27
41 143 0.53
42 22 0.08
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (42 bp):
TAGCGGCGTTTTTGCTAAAAACGCCGCTAAAAACCAGAGCAA
Found at i:16901387 original size:81 final size:82
Alignment explanation
Indices: 16901277--16901603 Score: 378
Period size: 81 Copynumber: 4.0 Consensus size: 82
16901267 AATTGTACAT
** * * * *
16901277 TAGCGGCGTTTTTGCTAAAACGCTGCTAAAAA-CAGAGCAATAGCGGCGTTTTTGGTAAAAACGC
1 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCG-TTTTGCTAAAAACAC
16901341 CGCTAAAAA-CAGAGCAA
65 CGCTAAAAACCAGAGCAA
* * * * * * *
16901358 TGGCGGCGTTTTCCCAAAAATGCCACT-AAAA-CAGAACAATAGCGGCGTTTTACAAAAAACACC
1 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTGCTAAAAACACC
16901421 GCTAAAAACCAGAGCAA
66 GCTAAAAACCAGAGCAA
**** * *
16901438 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTCCCAAAAACACC
1 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTGCTAAAAACACC
16901503 GCTAAAAA-CAGAGCAA
66 GCTAAAAACCAGAGCAA
* * * **
16901519 TAGTGGCATTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGT-AAAATGC
1 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCG-TTTTGCTAAAAACAC
16901583 CGCTAAAAACCAGAGCAA
65 CGCTAAAAACCAGAGCAA
16901601 TAG
1 TAG
16901604 TGGCATTTAT
Statistics
Matches: 208, Mismatches: 33, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
79 20 0.10
80 47 0.23
81 89 0.43
82 52 0.25
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (82 bp):
TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTGCTAAAAACACC
GCTAAAAACCAGAGCAA
Found at i:16901575 original size:122 final size:121
Alignment explanation
Indices: 16901293--16901603 Score: 491
Period size: 122 Copynumber: 2.6 Consensus size: 121
16901283 CGTTTTTGCT
*
16901293 AAAACGCTGCTAAAAA-CAGAGCAATAGCGGCGTTTTTGGTAAAAACGCCGCTAAAAA-CAGAGC
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGT-AAAACGCCGCTAAAAACCAGAGC
* ** *
16901356 AATGGCGGCGTTTTCCCAAAAATGCCACTAAAACAGAACAATAGCGGCGTTTTACAA
65 AATAGCGGCGTTTTCCCAAAAACACCACTAAAACAGAACAATAGCGGCATTTTACAA
*
16901413 AAAACACCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
* * * *
16901478 ATAGCGGCGTTTTCCCAAAAACACCGCTAAAAACAGAGCAATAGTGGCATTTTACCA
66 ATAGCGGCGTTTTCCCAAAAACACCACT-AAAACAGAACAATAGCGGCATTTTACAA
*
16901535 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
16901600 ATAG
66 ATAG
16901604 TGGCATTTAT
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
120 30 0.17
121 55 0.31
122 91 0.52
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (121 bp):
AAAACGCCGCTAAAAACCAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
ATAGCGGCGTTTTCCCAAAAACACCACTAAAACAGAACAATAGCGGCATTTTACAA
Found at i:16901690 original size:37 final size:37
Alignment explanation
Indices: 16901651--16901732 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
16901641 ACCCCTAAAA
* * **
16901651 CCCTAAACCCCCCAAAATCATAAACACTAATTTATAAC
1 CCCTAAA-CCCCAAAAACCATAAACACTAAACTATAAC
*
16901689 CCCTAAACCCTAAAAACCATAAACACTAAACTATAAC
1 CCCTAAACCCCAAAAACCATAAACACTAAACTATAAC
16901726 CCCTAAA
1 CCCTAAA
16901733 ACCTTAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 32 0.82
38 7 0.18
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (37 bp):
CCCTAAACCCCAAAAACCATAAACACTAAACTATAAC
Found at i:16901750 original size:37 final size:37
Alignment explanation
Indices: 16901672--16901750 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
16901662 CCAAAATCAT
** * *
16901672 AAACACTAATTTATAACCCCTAAACCCTAAAAACCAT
1 AAACACTAAACTATAACCCCTAAAACCTAAAAACCAA
* *
16901709 AAACACTAAACTATAACCCCTAAAACCTTAAACCCAA
1 AAACACTAAACTATAACCCCTAAAACCTAAAAACCAA
16901746 AAACA
1 AAACA
16901751 TCATACGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (37 bp):
AAACACTAAACTATAACCCCTAAAACCTAAAAACCAA
Found at i:16901864 original size:7 final size:7
Alignment explanation
Indices: 16901852--16901908 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
16901842 TTTATTTTGG
16901852 GGTTTAA
1 GGTTTAA
16901859 GGTTTAA
1 GGTTTAA
**
16901866 TATTTAA
1 GGTTTAA
* *
16901873 GGTCTAT
1 GGTTTAA
*
16901880 GGTTTAG
1 GGTTTAA
*
16901887 GGTTTTAT
1 GG-TTTAA
16901895 GGTTTAA
1 GGTTTAA
16901902 GGTTTAA
1 GGTTTAA
16901909 TGGCCATGGG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:16901897 original size:15 final size:15
Alignment explanation
Indices: 16901852--16901911 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
16901842 TTTATTTTGG
*
16901852 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
* *
16901867 -ATTTAAGG-TCTAT
1 GGTTTAAGGTTTTAT
*
16901880 GGTTTAGGGTTTTAT
1 GGTTTAAGGTTTTAT
*
16901895 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
16901910 GG
1 GG
16901912 CCATGGGTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 19 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GGTTTAAGGTTTTAT
Found at i:16902356 original size:14 final size:13
Alignment explanation
Indices: 16902339--16902377 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
16902329 AAGGGACATA
16902339 GGTTAAGGGTTAGG
1 GGTT-AGGGTTAGG
16902353 GGTTAGAGGTTAGG
1 GGTTAG-GGTTAGG
16902367 GGTTTAGGGTT
1 GG-TTAGGGTT
16902378 TAAGATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 17 0.74
15 4 0.17
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (13 bp):
GGTTAGGGTTAGG
Found at i:16902923 original size:3 final size:3
Alignment explanation
Indices: 16902915--16902943 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16902905 CATTTTAGTA
16902915 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16902944 AAGAGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16904789 original size:3 final size:3
Alignment explanation
Indices: 16904781--16904805 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16904771 AGCAACTGCA
16904781 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
16904806 GAGCTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:16908325 original size:19 final size:19
Alignment explanation
Indices: 16908302--16908348 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16908292 ATTTAATCTA
*
16908302 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
16908320 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
16908340 ATTTTTATT
1 ATTTTTATT
16908349 TTAGTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:16908342 original size:6 final size:6
Alignment explanation
Indices: 16908302--16908386 Score: 66
Period size: 6 Copynumber: 13.7 Consensus size: 6
16908292 ATTTAATCTA
* *
16908302 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT A-TTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
* * *
16908351 AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTA ATTT
1 A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT ATTT
16908387 GATAATGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
5 9 0.14
6 34 0.54
7 20 0.32
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:16908350 original size:31 final size:31
Alignment explanation
Indices: 16908298--16908382 Score: 154
Period size: 31 Copynumber: 2.7 Consensus size: 31
16908288 TTATATTTAA
16908298 TCTA-ATTTTTATTATTTATTTTAGTTTTGAT
1 TCTATATTTTTATT-TTTATTTTAGTTTTGAT
16908329 TCTATATTTTTATTTTTATTTTAGTTTTGAT
1 TCTATATTTTTATTTTTATTTTAGTTTTGAT
16908360 TCTATATTTTTATTTTTATTTTA
1 TCTATATTTTTATTTTTATTTTA
16908383 ATTTGATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 44 0.83
32 9 0.17
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.71
Consensus pattern (31 bp):
TCTATATTTTTATTTTTATTTTAGTTTTGAT
Found at i:16908369 original size:19 final size:19
Alignment explanation
Indices: 16908314--16908369 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
16908304 TTTTATTATT
16908314 TATTTTAGTTTTGATTCTA
1 TATTTTAGTTTTGATTCTA
*
16908333 TA---T--TTTT-ATT-TT
1 TATTTTAGTTTTGATTCTA
16908345 TATTTTAGTTTTGATTCTA
1 TATTTTAGTTTTGATTCTA
16908364 TATTTT
1 TATTTT
16908370 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 4 0.14
15 1 0.04
16 1 0.04
17 4 0.14
18 3 0.11
19 9 0.32
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (19 bp):
TATTTTAGTTTTGATTCTA
Found at i:16908579 original size:43 final size:43
Alignment explanation
Indices: 16908518--16908619 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
16908508 TTTTAATTTT
*
16908518 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGCC
1 ATGACCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGCC
* *
16908561 ATGACCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGCC
1 ATGACCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGCC
16908604 ATGACCTTTAGCGGCG
1 ATGACCTTTAGCGGCG
16908620 CCATCTATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGCC
Found at i:16914139 original size:40 final size:40
Alignment explanation
Indices: 16914070--16914275 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
16914060 AACCCAAGTA
* * *
16914070 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16914109 TCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
16914149 CCTTTGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16914189 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16914229 CCTTCGGGATTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16914269 CCTTCGG
1 CCTTCGG
16914276 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 11 0.07
40 145 0.93
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:16914496 original size:53 final size:53
Alignment explanation
Indices: 16914416--16914521 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
16914406 CACATACAAA
*
16914416 GGGCATGATTTTGATTTTCTTTATAACATGATCTCTATACGCATTCGGCTGCC
1 GGGCATGATTTTGATTTGCTTTATAACATGATCTCTATACGCATTCGGCTGCC
16914469 GGGCATGATTTTGATTTGCTTTATAACATGATCTCTATACGCATTCGGCTGCC
1 GGGCATGATTTTGATTTGCTTTATAACATGATCTCTATACGCATTCGGCTGCC
16914522 CGTCATAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (53 bp):
GGGCATGATTTTGATTTGCTTTATAACATGATCTCTATACGCATTCGGCTGCC
Found at i:16919156 original size:13 final size:13
Alignment explanation
Indices: 16919138--16919206 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
16919128 TATTTCCATT
*
16919138 TAACCAATTCATA
1 TAACCATTTCATA
*
16919151 TAACCATTTCGTA
1 TAACCATTTCATA
16919164 T-ACCATTTTTCCATA
1 TAACCA--TTT-CATA
* *
16919179 TAATCAATTCATA
1 TAACCATTTCATA
16919192 TAACCATTTCATA
1 TAACCATTTCATA
16919205 TA
1 TA
16919207 TCATTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
12 4 0.09
13 29 0.64
14 5 0.11
15 4 0.09
16 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (13 bp):
TAACCATTTCATA
Found at i:16919241 original size:41 final size:41
Alignment explanation
Indices: 16919130--16919235 Score: 140
Period size: 41 Copynumber: 2.6 Consensus size: 41
16919120 CAAATATCTA
* *
16919130 TTTCCATTTAACCAATTCATATAACCATTTCGTATACCATT
1 TTTCCATATAACCAATTCATATAACCATTTCATATACCATT
* *
16919171 TTTCCATATAATCAATTCATATAACCATTTCATATATCATTT
1 TTTCCATATAACCAATTCATATAACCATTTCATATACCA-TT
** *
16919213 TTTTTATGTAACCAATTCATATA
1 TTTCCATATAACCAATTCATATA
16919236 TCATTTTTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 35 0.62
42 21 0.38
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (41 bp):
TTTCCATATAACCAATTCATATAACCATTTCATATACCATT
Found at i:16919703 original size:16 final size:16
Alignment explanation
Indices: 16919682--16919715 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16919672 AATTTATTCA
16919682 TAACATA-AATAATAAT
1 TAACATATAAT-ATAAT
16919698 TAACATATAATATAAT
1 TAACATATAATATAAT
16919714 TA
1 TA
16919716 CTTAAGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TAACATATAATATAAT
Found at i:16924010 original size:30 final size:30
Alignment explanation
Indices: 16923952--16924011 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
16923942 TTCCTGAGCC
* *
16923952 TAGGGGCAAAAGTGTAATTATGTAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
16923982 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
16924012 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:16925653 original size:43 final size:43
Alignment explanation
Indices: 16925573--16925759 Score: 245
Period size: 43 Copynumber: 4.4 Consensus size: 43
16925563 ATATCATTTT
* * *
16925573 ACCGGCATTACGCCTGCTAGGCACGAAGGCCCAAATACACATC
1 ACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
** * *
16925616 ACTAGCA-TGAAGCCTACTAGGCCCGAAGGCCCGAATACACATC
1 ACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACATC
16925659 ACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
1 ACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
* *
16925702 ACCGGCACTAAGCCTGCTAGGCACGAAGGCTCGAATATA-AT-
1 ACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
* *
16925743 ACCAGCACTAGGCCTGC
1 ACCGGCACTAAGCCTGC
16925760 AGGATTTATC
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
41 15 0.12
42 3 0.02
43 109 0.85
44 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.14
Consensus pattern (43 bp):
ACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATC
Found at i:16932025 original size:13 final size:13
Alignment explanation
Indices: 16932007--16932033 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16931997 TAGAAAGAAA
16932007 TATCATCTTATTT
1 TATCATCTTATTT
16932020 TATCATCTTATTT
1 TATCATCTTATTT
16932033 T
1 T
16932034 CCAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TATCATCTTATTT
Found at i:16936154 original size:5 final size:5
Alignment explanation
Indices: 16936144--16936176 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
16936134 AAAACTCATA
16936144 AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
16936177 CTAGTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:16937276 original size:39 final size:39
Alignment explanation
Indices: 16937232--16937309 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
16937222 TTATTTATAA
16937232 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
1 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
16937271 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
1 ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
16937310 CTTCTTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (39 bp):
ATCACTTATTCTAGGACTTCTACCATAAATATTCTTCTT
Found at i:16938858 original size:28 final size:28
Alignment explanation
Indices: 16938816--16938887 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
16938806 CAATATCAAC
** *
16938816 AAGGGTATCCACCAAAAGTATGATTAGT
1 AAGGGTATCTGCCAAAAGTATGATCAGT
*
16938844 AAGGGTATCTGCCAAAAGTGTGATCAGT
1 AAGGGTATCTGCCAAAAGTATGATCAGT
16938872 AAGTGGTATCTGCCAA
1 AAG-GGTATCTGCCAA
16938888 GAATAGTGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 27 0.69
29 12 0.31
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (28 bp):
AAGGGTATCTGCCAAAAGTATGATCAGT
Found at i:16948200 original size:56 final size:56
Alignment explanation
Indices: 16948114--16948243 Score: 197
Period size: 56 Copynumber: 2.3 Consensus size: 56
16948104 TCTTACATGT
* *
16948114 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTAGCACACATATATCAG
* * *
16948170 AATCACATATCGATGCCACTGTCCTAGACAGGGTCTTACTAGGACACATATATCAG
1 AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTAGCACACATATATCAG
* *
16948226 AATCAGATATTGATGCCA
1 AATCACATATCGATGCCA
16948244 TAGTCTTACT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCACTATCCCAGACAGGGTCTTACTAGCACACATATATCAG
Found at i:16954855 original size:47 final size:47
Alignment explanation
Indices: 16954802--16954993 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
16954792 TTTAGGATTA
* * *
16954802 AATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
16954849 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
16954896 AATGTGATGAATGTGAACATGCATTTATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
16954943 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
16954990 AATG
1 AATG
16954994 CGAAATGTGT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:16955103 original size:46 final size:46
Alignment explanation
Indices: 16954967--16955103 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
16954957 GAACATGTAT
* *
16954967 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
16955013 ATATGAGGTAAAGCCGAATGACTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
16955059 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
16955104 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:16955297 original size:37 final size:37
Alignment explanation
Indices: 16955247--16955317 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
16955237 GGAAATATAT
*
16955247 TCCGGGTAAGACCCGATGACTAC-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACAG-GTGGAGATTATG
*
16955284 TCCGGGTAAGACCCGATAACTTCAGGTGGAGATT
1 TCCGGGTAAGACCCGATAACTACAGGTGGAGATT
16955318 TCATCTGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACAGGTGGAGATTATG
Found at i:16960376 original size:7 final size:6
Alignment explanation
Indices: 16960341--16960375 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
16960331 AAATTGCTAA
16960341 AAAATT AAAATT AAAATT AAAATT AAAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT -AAAATT AAAA
16960376 AGTAGTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:16964461 original size:13 final size:13
Alignment explanation
Indices: 16964443--16964475 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16964433 GGTTGTTTAT
16964443 TAAACTAATTAAC
1 TAAACTAATTAAC
16964456 TAAACTAATTAAC
1 TAAACTAATTAAC
16964469 T-AACTAA
1 TAAACTAA
16964476 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:16977950 original size:26 final size:26
Alignment explanation
Indices: 16977921--16977972 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16977911 ACACTTACAT
16977921 AGGCCAGATATGCCTCACATCCTTTC
1 AGGCCAGATATGCCTCACATCCTTTC
16977947 AGGCCAGATATGCCTCACATCCTTTC
1 AGGCCAGATATGCCTCACATCCTTTC
16977973 CAGACCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (26 bp):
AGGCCAGATATGCCTCACATCCTTTC
Found at i:17007051 original size:35 final size:35
Alignment explanation
Indices: 17007012--17007093 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
17007002 GCTAGTCTCT
*
17007012 CCAAAACACACCGATACTTATAAGAGCTAATCCAA
1 CCAAAACACACCGATACTCATAAGAGCTAATCCAA
* * *
17007047 CCAAAACACACAGATGCTCATAAGAGCTAGTCCAA
1 CCAAAACACACCGATACTCATAAGAGCTAATCCAA
**
17007082 CTGAAACACACC
1 CCAAAACACACC
17007094 AAACGAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (35 bp):
CCAAAACACACCGATACTCATAAGAGCTAATCCAA
Found at i:17031958 original size:46 final size:46
Alignment explanation
Indices: 17031891--17032013 Score: 219
Period size: 46 Copynumber: 2.7 Consensus size: 46
17031881 GGCATCGAAA
17031891 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
* * *
17031937 CTCGTTGAGTTGCGTCTGAGTTCACTTATGGTTGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
17031983 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17032014 GTGGGTTACA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG
Found at i:17044985 original size:94 final size:94
Alignment explanation
Indices: 17044824--17045019 Score: 349
Period size: 94 Copynumber: 2.1 Consensus size: 94
17044814 TGTGTGATCA
*
17044824 GTTCAAATGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
1 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
*
17044889 TTACCAGACTTGTCCATGAATTGACCCTT
66 TTACCAGACTTGTCCATGAATTCACCCTT
17044918 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTT-GAACGATTTGGTGACCCAATTG
1 GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCG-ACGATTTGGTGACCCAATTG
17044982 TTTACCAGACTTGTCCATGAATTCACCCTT
65 TTTACCAGACTTGTCCATGAATTCACCCTT
*
17045012 CTTCAATT
1 GTTCAATT
17045020 AGATCAAATC
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.01
94 97 0.99
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.39
Consensus pattern (94 bp):
GTTCAATTGCCTTTGTCGAATTGGGCTTGTTCTCCCTTGTTTCGACGATTTGGTGACCCAATTGT
TTACCAGACTTGTCCATGAATTCACCCTT
Found at i:17049105 original size:43 final size:42
Alignment explanation
Indices: 17048948--17049106 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 42
17048938 TATGTGTTAT
* *
17048948 CATGTAAGACCACGTCTGGGACGTTGGCATTGAT-TTGTGATTTA
1 CATGTAAGACCACATCTGGGACGTTGGCA-TCATATT-TGA-TTA
* ** * * *
17048992 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT-
1 CATGTAAGACCACATCTGGGACGTTGGCATCATATTTGATTA
*
17049033 C-TGTTTAAGACC-CTATCTAGGACAG-TGGCATCAATATTTGATTA
1 CATG--TAAGACCAC-ATCTGGGAC-GTTGGCATC-ATATTTGATTA
*
17049077 CATGTAAGACCACATCTGGGATGTTGGCAT
1 CATGTAAGACCACATCTGGGACGTTGGCAT
17049107 TATACGAGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 24 0.26
43 33 0.36
44 29 0.32
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCACATCTGGGACGTTGGCATCATATTTGATTA
Found at i:17054153 original size:43 final size:43
Alignment explanation
Indices: 17054040--17054160 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
17054030 TCTCATATTG
* * * * * *
17054040 ATGCCAATATCCCAGACATGGTCTTACTCGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTATTACACGTAATCACATAACA
17054083 ATGCCAATGTCCCAGACATGGTATTACACGTAATCACA-ACACA
1 ATGCCAATGTCCCAGACATGGTATTACACGTAATCACATA-ACA
*
17054126 ATGCCAATGTCCCAGACATGGCT-TTACATGTAATC
1 ATGCCAATGTCCCAGACATGG-TATTACACGTAATC
17054161 TCATCTCGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.97
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTATTACACGTAATCACATAACA
Found at i:17056146 original size:6 final size:6
Alignment explanation
Indices: 17056137--17056166 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
17056127 GTCGAGGACA
*
17056137 TGGTCA TGGTCG TGGTCG TGGTCG TGGTCG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
17056167 CAGTTAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.17, G:0.47, T:0.33
Consensus pattern (6 bp):
TGGTCG
Found at i:17059731 original size:40 final size:39
Alignment explanation
Indices: 17059673--17059758 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
17059663 TATATATATA
**
17059673 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* *
17059713 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
17059752 TAGCCGA
1 TAGCCGA
17059759 TAACTTGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:17063810 original size:45 final size:48
Alignment explanation
Indices: 17063706--17063830 Score: 157
Period size: 45 Copynumber: 2.6 Consensus size: 48
17063696 TCACAATACA
* * *
17063706 ATGCCAATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCGAGGCCG
1 ATGCC-ATATCCCAGACATGGTCTTACACTGAC-CAC-TATATCGAAGCCG
* *
17063757 ATGCCATATCCTAGACATGGTCTTACACTGA-CAC-ATATC-AAGCTG
1 ATGCCATATCCCAGACATGGTCTTACACTGACCACTATATCGAAGCCG
17063802 ATGCCATATCCCAGACATGGTCTTACACT
1 ATGCCATATCCCAGACATGGTCTTACACT
17063831 AGCTCACATG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 32 0.47
46 5 0.07
48 2 0.03
50 24 0.35
51 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATATCCCAGACATGGTCTTACACTGACCACTATATCGAAGCCG
Found at i:17071613 original size:27 final size:27
Alignment explanation
Indices: 17071576--17071780 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
17071566 TAAATTGTAC
17071576 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
17071603 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17071630 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17071656 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17071684 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17071712 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17071739 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17071766 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17071781 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17071715 original size:109 final size:108
Alignment explanation
Indices: 17071577--17071780 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
17071567 AAATTGTACA
* *
17071577 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
17071642 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
17071685 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
17071750 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
17071781 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:17079902 original size:22 final size:24
Alignment explanation
Indices: 17079856--17079910 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
17079846 GTCCTTCTTT
17079856 TTCCCTTCC-CTCTCTCTTCTATC
1 TTCCCTTCCTCTCTCTCTTCTATC
* *
17079879 TTTCCTTCCTCTCTCTC-T-TGTC
1 TTCCCTTCCTCTCTCTCTTCTATC
17079901 TTCCCTTCCT
1 TTCCCTTCCT
17079911 TCCTAGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 9 0.32
24 7 0.25
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (24 bp):
TTCCCTTCCTCTCTCTCTTCTATC
Found at i:17080585 original size:12 final size:11
Alignment explanation
Indices: 17080568--17080606 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
17080558 TTACTTAGAC
17080568 TTCTCTTCTGTT
1 TTCTCTTCT-TT
17080580 TTCTCTTCTTT
1 TTCTCTTCTTT
*
17080591 TGTCTCTTCTTC
1 T-TCTCTTCTTT
17080603 TTCT
1 TTCT
17080607 TACCTTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (11 bp):
TTCTCTTCTTT
Found at i:17081399 original size:18 final size:19
Alignment explanation
Indices: 17081360--17081404 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
17081350 CTCTCTTTGA
17081360 ACTC-CTCTTTTCTTCTTT
1 ACTCTCTCTTTTCTTCTTT
*
17081378 -CTCTCTCTTTT-TTTTTT
1 ACTCTCTCTTTTCTTCTTT
*
17081395 ACTCTTTCTT
1 ACTCTCTCTT
17081405 CTTTAGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (19 bp):
ACTCTCTCTTTTCTTCTTT
Found at i:17081535 original size:13 final size:14
Alignment explanation
Indices: 17081519--17081547 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17081509 AAACTCTCTT
17081519 CTCCTCTT-TTTTC
1 CTCCTCTTCTTTTC
17081532 CTCCTCTTCTTTTC
1 CTCCTCTTCTTTTC
17081546 CT
1 CT
17081548 TTCACTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTCCTCTTCTTTTC
Found at i:17081673 original size:17 final size:16
Alignment explanation
Indices: 17081640--17081685 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
17081630 CTCCTTTCCT
17081640 CCTTTTTCTTCTCCTCC
1 CCTTTTT-TTCTCCTCC
* *
17081657 TCTATTTTTTCTTCTCC
1 CCT-TTTTTTCTCCTCC
17081674 CCTTTTTTTCTC
1 CCTTTTTTTCTC
17081686 TCTGTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.33
17 12 0.50
18 4 0.17
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (16 bp):
CCTTTTTTTCTCCTCC
Found at i:17081719 original size:21 final size:18
Alignment explanation
Indices: 17081692--17081737 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
17081682 TCTCTCTGTT
*
17081692 TTTTTTCCTCGCTCTTCTCC
1 TTTTTTCCTC-C-CCTCTCC
17081712 TTTCTTTCCTCCCCTCTCC
1 TTT-TTTCCTCCCCTCTCC
17081731 TTTTTTC
1 TTTTTTC
17081738 ACAATCCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 9 0.38
20 4 0.17
21 7 0.29
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTTCCTCCCCTCTCC
Found at i:17083412 original size:27 final size:27
Alignment explanation
Indices: 17083375--17083579 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
17083365 TAAATTGTAC
17083375 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
17083402 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
17083429 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17083455 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
17083483 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
17083511 AGCACTAAGTGTGCGATTTGA-TTTCGT
1 AGCACTAAGTGTGCGATTTGACTAT-GT
* * *
17083538 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17083565 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17083580 GACTCAATAT
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 126 0.82
28 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17088946 original size:28 final size:28
Alignment explanation
Indices: 17088878--17088977 Score: 92
Period size: 28 Copynumber: 3.6 Consensus size: 28
17088868 TCGATGTCTC
* * * * * *
17088878 GCACACTATGTACCATACTCGATACCTA
1 GCACACTAAGTGCCATCCTGGATACTTT
* * * **
17088906 GCACGCTAAGTGCTATTCTGGATGTTTT
1 GCACACTAAGTGCCATCCTGGATACTTT
*
17088934 GCACACTAAGTGCCATCCTTGATACTTT
1 GCACACTAAGTGCCATCCTGGATACTTT
17088962 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
17088978 TTATATATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (28 bp):
GCACACTAAGTGCCATCCTGGATACTTT
Found at i:17089047 original size:40 final size:39
Alignment explanation
Indices: 17088989--17089071 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
17088979 TATATATATA
**
17088989 TAGCCGAAGCTATCTCAAATTGCACACCAACTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAACTGCCA-TTT
* * * *
17089029 TAGCCGAAGTTATTTCAAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAACTGCCATTT
17089068 TAGC
1 TAGC
17089072 TGATAAGTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 7 0.19
40 30 0.81
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAACTGCCATTT
Found at i:17094347 original size:13 final size:13
Alignment explanation
Indices: 17094329--17094362 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
17094319 GGGTCGTGAA
17094329 GGTCGGAGGATTC
1 GGTCGGAGGATTC
17094342 GGTCGGAGGATTC
1 GGTCGGAGGATTC
17094355 GGTCGGAG
1 GGTCGGAG
17094363 CAAGATCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.50, T:0.21
Consensus pattern (13 bp):
GGTCGGAGGATTC
Found at i:17098225 original size:9 final size:9
Alignment explanation
Indices: 17098211--17098259 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
17098201 AATTTCTAAT
17098211 AATTTTTTA
1 AATTTTTTA
17098220 AATTTTTTAA
1 AATTTTTT-A
*
17098230 AATTTTTAA
1 AATTTTTTA
*
17098239 AATTTTTTT
1 AATTTTTTA
17098248 AA-TTTTTA
1 AATTTTTTA
17098256 AATT
1 AATT
17098260 ATCCATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
9 19 0.56
10 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATTTTTTA
Found at i:17101604 original size:19 final size:19
Alignment explanation
Indices: 17101580--17101628 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
17101570 AATATATATA
17101580 TTTGAATTTTAAAAACTAT
1 TTTGAATTTTAAAAACTAT
* * *
17101599 TTTGAAAATTTGAAAATTAT
1 TTTG-AATTTTAAAAACTAT
17101619 TTTGAATTTT
1 TTTGAATTTT
17101629 TTTTTTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTGAATTTTAAAAACTAT
Found at i:17101768 original size:19 final size:19
Alignment explanation
Indices: 17101745--17101787 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
17101735 TGAATTGTGA
17101745 AATTCAACTTGAATTGAAT
1 AATTCAACTTGAATTGAAT
* * * *
17101764 TATTCGAGTTGACTTGAAT
1 AATTCAACTTGAATTGAAT
17101783 AATTC
1 AATTC
17101788 GAATAACTCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (19 bp):
AATTCAACTTGAATTGAAT
Found at i:17101788 original size:19 final size:19
Alignment explanation
Indices: 17101753--17101789 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17101743 GAAATTCAAC
*
17101753 TTGAATTGAATTATTCGAG
1 TTGAATTGAATAATTCGAG
*
17101772 TTGACTTGAATAATTCGA
1 TTGAATTGAATAATTCGA
17101790 ATAACTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (19 bp):
TTGAATTGAATAATTCGAG
Found at i:17107654 original size:19 final size:20
Alignment explanation
Indices: 17107630--17107667 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17107620 GGTACCACCA
17107630 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
17107649 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
17107668 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:17108010 original size:93 final size:93
Alignment explanation
Indices: 17107897--17108067 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
17107887 GCCCCTAAGT
* * *
17107897 GAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17107962 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
17107990 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17108055 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17108068 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17108064 original size:46 final size:46
Alignment explanation
Indices: 17107892--17108064 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
17107882 AACCCGCCCC
* * * * *
17107892 TAAGTGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
17107938 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
17107986 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
17108031 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17108065 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:17108521 original size:31 final size:30
Alignment explanation
Indices: 17108486--17108546 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
17108476 ATTTAATACG
17108486 AACTTTAAAAAAATTACACTTTTTGCCCCTA
1 AACTTTAAAAAAATTACAC-TTTTGCCCCTA
*** *
17108517 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
17108547 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:17123030 original size:7 final size:7
Alignment explanation
Indices: 17123018--17123051 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
17123008 TAATAATGCC
17123018 GATAAAT
1 GATAAAT
17123025 GATAAAT
1 GATAAAT
17123032 GATAAAT
1 GATAAAT
17123039 GATAAAT
1 GATAAAT
17123046 GATAAA
1 GATAAA
17123052 AATGTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:17125124 original size:25 final size:25
Alignment explanation
Indices: 17125094--17125176 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
17125084 TGTAAACGGT
* *
17125094 AAGCTCCTCCAAGCTGAATAATGGG
1 AAGCTCATGCAAGCTGAATAATGGG
** * *
17125119 AAGCTCATGTGAGCTGAGTAATAGG
1 AAGCTCATGCAAGCTGAATAATGGG
* * *
17125144 AAGCTAATGCAAGCTGAATAACGAG
1 AAGCTCATGCAAGCTGAATAATGGG
17125169 AAGCTCAT
1 AAGCTCAT
17125177 TCGAGCTAAG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGCTCATGCAAGCTGAATAATGGG
Found at i:17125198 original size:50 final size:50
Alignment explanation
Indices: 17125103--17125198 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
17125093 TAAGCTCCTC
* * * *
17125103 CAAGCTGAATAATGGGAAGCTCATGTGAGCTGAGTAATAGGAAGCTAATG
1 CAAGCTGAATAACGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATG
17125153 CAAGCTGAATAACGAGAAGCTCAT-TCGAGCTAAGT-ATCAGAAAGCT
1 CAAGCTGAATAACGAGAAGCTCATGT-GAGCTAAGTAAT-AGAAAGCT
17125199 CATGAAACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (50 bp):
CAAGCTGAATAACGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATG
Found at i:17125211 original size:50 final size:50
Alignment explanation
Indices: 17125107--17125211 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
17125097 CTCCTCCAAG
* * * * * *
17125107 CTGAATAATGGGAAGCTCATGTGAGCTGAGTAATAGGAAGCTAATGCAAG
1 CTGAATAACGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATGAAAC
*
17125157 CTGAATAACGAGAAGCTCAT-TCGAGCTAAGT-ATCAGAAAGCTCATGAAAC
1 CTGAATAACGAGAAGCTCATGT-GAGCTAAGTAAT-AGAAAGCTAATGAAAC
17125207 CTGAA
1 CTGAA
17125212 ATCGGTGACC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (50 bp):
CTGAATAACGAGAAGCTCATGTGAGCTAAGTAATAGAAAGCTAATGAAAC
Found at i:17129708 original size:41 final size:41
Alignment explanation
Indices: 17129651--17129747 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
17129641 ACAGGCCTGG
*
17129651 TCACACAAGCTGTCAGTCAAGATGTAGCTACACGGTGCTGC
1 TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
*
17129692 TCACACAAGCTGTCAGTCAAGGCGTAGCTACACGGTGCTGC
1 TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
17129733 TCACACAAGCTGTCA
1 TCACACAAGCTGTCA
17129748 AGTATCCGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (41 bp):
TCACACAAGCTGTCAGTCAAGACGTAGCTACACGGTGCTGC
Found at i:17135695 original size:111 final size:110
Alignment explanation
Indices: 17135580--17135884 Score: 390
Period size: 109 Copynumber: 2.8 Consensus size: 110
17135570 ATAAAAATAT
* * * * *
17135580 ACAAAAACAAATTTAATCAACATTTCAATAAATCAAAAAAAATTACATT-ATAACAAATCACAAT
1 ACAAAAATAACTTTAAT-AA-ATTT-AAAAAAACAAAAAAAATTACATTCATAAAAAATCACAAT
* * *
17135644 ACACATTAAACTAAACA-AATAC-TTTATAACCTAATCATAAATTACTA
63 AAACACTAAACTAAACACAA-ACATTCATAACCTAATCATAAATTACTA
*
17135691 AC-AAAATAACTTTAATATAATTTAAAAAAACAAAAAAAAATACATTCATAAAAAATCACAATAA
1 ACAAAAATAACTTTAATA-AATTTAAAAAAACAAAAAAAATTACATTCATAAAAAATCACAATAA
*
17135755 ACACTAAACTAAACACAAACAATTCATAAGCTAATCATAAATTACTA
65 ACACTAAACTAAACACAAAC-ATTCATAACCTAATCATAAATTACTA
* *
17135802 A-AAAAATAACTTTAA-AATAATTAAAAAAAC-AAAAAAATTACATTCATAAAAAATTACAATAA
1 ACAAAAATAACTTTAATAA-ATTTAAAAAAACAAAAAAAATTACATTCATAAAAAATCACAATAA
17135864 ACACTAAACTAAACACAAACA
65 ACACTAAACTAAACACAAACA
17135885 ATTTATAATA
Statistics
Matches: 174, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
108 21 0.12
109 87 0.50
110 27 0.16
111 39 0.22
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.24
Consensus pattern (110 bp):
ACAAAAATAACTTTAATAAATTTAAAAAAACAAAAAAAATTACATTCATAAAAAATCACAATAAA
CACTAAACTAAACACAAACATTCATAACCTAATCATAAATTACTA
Found at i:17135885 original size:109 final size:111
Alignment explanation
Indices: 17135613--17135892 Score: 428
Period size: 109 Copynumber: 2.6 Consensus size: 111
17135603 TTCAATAAAT
* * *
17135613 CAAAAAAAATTACATT-ATAACAAATCACAATACACATTAAACTAAACA-AATAC--TTTATAAC
1 CAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAA-ACAATTTATAAC
* *
17135674 CTAATCATAAATTACTAACAAAATAACTTTAATATAATTTAAAAAAA
65 CTAATCATAAATTACTAAAAAAATAACTTTAAAATAATTTAAAAAAA
* * *
17135721 CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTCATAAGC
1 CAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACC
17135786 TAATCATAAATTACTAAAAAAATAACTTTAAAATAA-TTAAAAAAA
66 TAATCATAAATTACTAAAAAAATAACTTTAAAATAATTTAAAAAAA
*
17135831 C-AAAAAAATTACATTCATAAAAAATTACAATAAACACTAAACTAAACACAAACAATTTATAA
1 CAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
17135893 TAATTACTAA
Statistics
Matches: 157, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
108 15 0.10
109 89 0.57
110 12 0.08
111 41 0.26
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.24
Consensus pattern (111 bp):
CAAAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACC
TAATCATAAATTACTAAAAAAATAACTTTAAAATAATTTAAAAAAA
Found at i:17135938 original size:109 final size:109
Alignment explanation
Indices: 17135613--17135940 Score: 310
Period size: 109 Copynumber: 3.0 Consensus size: 109
17135603 TTCAATAAAT
* * * * *
17135613 CAAAAAAAATTACATT-ATAACAAATCACAATACACATTAAACTAAACA-AATAC--TTTATAAC
1 CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAA-ACAATTCATAA-
* ** * * * * *
17135674 CTAATCATAAATTACTAACAAAATAACTTTAATATAATTTAAAAAAA
64 CTAATCAAAAAAAACTAAAAAAATAACTTAAAAACAA-ATAAAAAAA
17135721 CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTCATAAGC
1 CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTCATAA-C
* ** * * *
17135786 TAATCATAAATTACTAAAAAAATAACTTTAAAATAATTAAAAAAA
65 TAATCAAAAAAAACTAAAAAAATAACTTAAAAACAAATAAAAAAA
* * *
17135831 C-AAAAAAATTACATTCATAAAAAATTACAATAAACACTAAACTAAACACAAACAATTTATAA-T
1 CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTCATAACT
** *
17135894 AATTACTAAAAAAAACT-TTACAATAACTTAAAAACAACATAAAAAAA
66 AA-T-C-AAAAAAAACTAAAAAAATAACTTAAAAACAA-ATAAAAAAA
17135941 TAACTAATCC
Statistics
Matches: 192, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
107 3 0.02
108 16 0.08
109 105 0.55
110 27 0.14
111 41 0.21
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (109 bp):
CAAAAAAAAATACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTCATAACT
AATCAAAAAAAACTAAAAAAATAACTTAAAAACAAATAAAAAAA
Found at i:17137358 original size:71 final size:71
Alignment explanation
Indices: 17137237--17137387 Score: 257
Period size: 71 Copynumber: 2.1 Consensus size: 71
17137227 GGGGAATCAT
* *
17137237 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
17137302 ATATCG
66 ATATCG
***
17137308 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
17137373 ATATCG
66 ATATCG
17137379 CACTTAGCA
1 CACTTAGCA
17137388 CCACCAATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:17137416 original size:103 final size:104
Alignment explanation
Indices: 17137307--17137529 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
17137297 AATGGATATC
17137307 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17137371 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
17137410 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17137475 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
17137514 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
17137530 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 46 0.41
104 65 0.58
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:17137423 original size:76 final size:71
Alignment explanation
Indices: 17137237--17137424 Score: 243
Period size: 71 Copynumber: 2.6 Consensus size: 71
17137227 GGGGAATCAT
* * *
17137237 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
17137302 ATATCG
66 ATATCG
* ***
17137308 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
17137373 ATATCG
66 ATATCG
*
17137379 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
17137425 TCGGGGGAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
70 3 0.03
71 76 0.73
73 1 0.01
76 24 0.23
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:17137891 original size:29 final size:29
Alignment explanation
Indices: 17137858--17137921 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17137848 TAATCCACCA
17137858 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17137887 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17137917 CCCAA
1 CCCAA
17137922 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17137895 original size:30 final size:30
Alignment explanation
Indices: 17137865--17137921 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17137855 CCACCCAACT
17137865 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17137894 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17137922 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17143691 original size:12 final size:13
Alignment explanation
Indices: 17143669--17143728 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
17143659 CATACCTTCC
*
17143669 CTTTCTTTTCTTT
1 CTTTTTTTTCTTT
17143682 -TTTTTTTTCTTT
1 CTTTTTTTTCTTT
* *
17143694 CTTTTGCTTCCTTT
1 CTTTT-TTTTCTTT
* * *
17143708 CCTTTCTTCCTTT
1 CTTTTTTTTCTTT
17143721 CTTTTTTT
1 CTTTTTTT
17143729 CTCCCTCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 11 0.28
13 18 0.46
14 10 0.26
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:17147771 original size:46 final size:45
Alignment explanation
Indices: 17147677--17147794 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 45
17147667 GTGCCAATGC
*
17147677 CATGTCCCAGACATGGTCTTACACT-G-ATAAATCTCGAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTAGCATAAATCTCGAGCCGATG
* **
17147721 CATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCATAAATCTCGA-GCCGATG
17147767 CATGTCCTAGACATGTCTTACACTAGCA
1 CATGTCCTAGACATGTCTTACACTAGCA
17147795 CTCGTCTCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 10 0.15
44 14 0.21
45 8 0.12
46 34 0.52
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (45 bp):
CATGTCCTAGACATGTCTTACACTAGCATAAATCTCGAGCCGATG
Found at i:17147811 original size:46 final size:46
Alignment explanation
Indices: 17147677--17147836 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 46
17147667 GTGCCAATGC
* * ** *
17147677 CATGTCCCAGACATGGTCTTACACT-G-ATAAATCTCGAG-CCGATG
1 CATGTCCTAGACAT-GTCTTACACTAGCCTACGTCTCAAGACCGATG
* * *
17147721 CATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCCTACGTCTCAAGACCGATG
*
17147767 CATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAATACCGATG
1 CATGTCCTAGACATGTCTTACACTAGC-CTACGTCTCAAGACCGATG
* * *
17147813 CCGTGTCCCAAACATGGTCTTACA
1 -CATGTCCTAGACAT-GTCTTACA
17147837 TTGGCTCTCG
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
43 10 0.10
44 14 0.14
45 9 0.09
46 46 0.46
47 12 0.12
48 8 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCCTACGTCTCAAGACCGATG
Found at i:17175390 original size:46 final size:47
Alignment explanation
Indices: 17175251--17175508 Score: 192
Period size: 46 Copynumber: 5.5 Consensus size: 47
17175241 GTGTCAATGC
* ** * *
17175251 CATGTCCTAGACATGGTCTTACACAAGCTCACATCTC-AGGTCGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGTCGAT-G
* * * *
17175298 CATGTCCCAAACATGGTCTTACACTGAC-TATCATCTTGTA-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AGGTCGATG
*
17175345 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGTCGATG
* * * ***
17175391 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGTCGATG
* * ** * *
17175437 CCATGTCTCAAACATAATCTTACACTGGCTCT-CATAAT-GTGGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGTCGATG
17175485 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
17175509 AGCCAACAAT
Statistics
Matches: 169, Mismatches: 33, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 72 0.43
47 68 0.40
48 26 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGTCGATG
Found at i:17175465 original size:94 final size:92
Alignment explanation
Indices: 17175339--17175511 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
17175329 CATCTTGTAG
* * * *
17175339 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGT-CTCGAGGTCGATGCATGTCCCAGA
1 CCGATGCATGTCCCAAACATATCTTACACTGGCTCT-CATAAT-GAGGTCGATGCATGTCCCAGA
17175402 CATGTCTTACACTAGCTCTCGTCTCAATA
64 CATGTCTTACACTAGCTCTCGTCTCAATA
* *
17175431 CCGATGCCATGTCTCAAACATAATCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGA
1 CCGATG-CATGTCCCAAACAT-ATCTTACACTGGCTCTCATAATGAGGTCGATGCATGTCCCAGA
17175496 CATGTCTTACACTAGC
64 CATGTCTTACACTAGC
17175512 CAACAATAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 6 0.08
93 12 0.17
94 51 0.72
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATATCTTACACTGGCTCTCATAATGAGGTCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCGTCTCAATA
Found at i:17175503 original size:140 final size:140
Alignment explanation
Indices: 17175251--17175508 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
17175241 GTGTCAATGC
* * **
17175251 CATGTCCTAGACATGGTCTTACACAAGCTCACATCTCAGGTCGATACCATGTCCCAAACATGGTC
1 CATGTCCCAGACATGGTCTTACACAAGCTCACATCTCAGATCGATACCATGTCCCAAACATAATC
**
17175316 TTACACTGACTATCATCTTGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
17175381 GAGGTCGATG
131 GAGGTCGATG
* * * * *
17175391 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCA-ATACCGATGCCATGTCTCAAACATAA
1 CATGTCCCAGACATGGTCTTACACAAGCTCACATCTCAGAT--CGATACCATGTCCCAAACATAA
* * * *
17175454 TCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAGACATGTCTTACACT
64 TCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
17175509 AGCCAACAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 80 0.79
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACAAGCTCACATCTCAGATCGATACCATGTCCCAAACATAATC
TTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
GAGGTCGATG
Found at i:17182988 original size:47 final size:46
Alignment explanation
Indices: 17182918--17183182 Score: 222
Period size: 47 Copynumber: 5.7 Consensus size: 46
17182908 TAAGGTGCCA
*
17182918 ATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAAGTTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCAAGTCG
* * *
17182965 ATGCCATGTCCCAAACATGGTCTTACACT-GAC-TATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAG-CTTA-CATCTC-AAGTCG
* * * *
17183013 ATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGTCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTTACATC-TCAAGTCG
17183059 ATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAA-TACCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAAGT--CG
* * * *** *
17183105 ATGCCATGTCCTAGACATGATCTTACACTGGCTCT-CATAATGTGGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTAGCT-TACAT-CTCAAGTCG
*
17183153 ATG-CATGTCCCGGACATGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGTCTTACACTAGC
17183183 CAACAATAAC
Statistics
Matches: 180, Mismatches: 25, Indels: 27
0.78 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 69 0.38
47 79 0.44
48 28 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGTCG
Found at i:17183046 original size:93 final size:93
Alignment explanation
Indices: 17182918--17183182 Score: 279
Period size: 94 Copynumber: 2.8 Consensus size: 93
17182908 TAAGGTGCCA
* *
17182918 ATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATC-TCAAGTTGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTCAAGTCGATG-CATGTCCCAAACA
*
17182982 TGGTCTTACACT-GACTATCATCTC-GTAGCCG
64 T-GTCTTACACTAG-CTATCATCTCAATA-CCG
* * * *
17183013 ATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGTCGATGCATGTCCCAGACATG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTTCAAGTCGATGCATGTCCCAAACATG
*
17183077 TCTTACACTAGCTCTCATCTCAATACCG
66 TCTTACACTAGCTATCATCTCAATACCG
* ** *** * **
17183105 ATGCCATGTCCTAGACATGATCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCGGACA
1 ATGCCATGTCCCAGACATG-TCTTACACTGGCT-TACATCTTCAAGTCGATGCATGTCCCAAACA
17183169 TGTCTTACACTAGC
64 TGTCTTACACTAGC
17183183 CAACAATAAC
Statistics
Matches: 149, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
92 25 0.17
93 48 0.32
94 72 0.48
95 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTTCAAGTCGATGCATGTCCCAAACATG
TCTTACACTAGCTATCATCTCAATACCG
Found at i:17183061 original size:46 final size:46
Alignment explanation
Indices: 17182922--17183179 Score: 220
Period size: 46 Copynumber: 5.5 Consensus size: 46
17182912 GTGCCAATGC
* * * **
17182922 CATGTCCCAGACATAGTCTTACACTAGCTTACATC-TCAAGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTGAGGCCGATG
* * *
17182968 CCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTTG-AGGCCGATG
* *
17183016 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCCGATG
* ** **
17183062 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGAGGCCGATG
* ** *
17183108 CCATGTCCTAGACATGATCTTACACTGGCTCT-CATAATGTGGCCGATG
1 -CATGTCCCAGACATG-TCTTACACTGGCT-TACATCTTGAGGCCGATG
*
17183156 CATGTCCCGGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
17183180 AGCCAACAAT
Statistics
Matches: 172, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 71 0.41
47 71 0.41
48 28 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCCGATG
Found at i:17183174 original size:140 final size:140
Alignment explanation
Indices: 17182922--17183179 Score: 371
Period size: 140 Copynumber: 1.8 Consensus size: 140
17182912 GTGCCAATGC
* *
17182922 CATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAAGTTGATGCCATGTCCCAAACATGGTC
1 CATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAAGTCGATGCCATGTCCCAAACATGATC
*
17182987 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTT
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTT
17183052 GAGGTCGATG
131 GAGGTCGATG
* *
17183062 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAA-TACCGATGCCATGTCCTAGACATG
1 CATGTCCCAGACATAGTCTTACACTAGCT-TACATCTCAAGT--CGATGCCATGTCCCAAACATG
* * * *
17183124 ATCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCGGACATGTCTTACACT
63 ATCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
17183180 AGCCAACAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
138 1 0.01
139 22 0.21
140 81 0.77
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATAGTCTTACACTAGCTTACATCTCAAGTCGATGCCATGTCCCAAACATGATC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTT
GAGGTCGATG
Found at i:17183435 original size:37 final size:37
Alignment explanation
Indices: 17183385--17183458 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
17183375 TTACAAAATG
*
17183385 TGGCGACTAGTCAATTTAGTTGATTTGCTTATCTTTC
1 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
17183422 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
1 TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
17183459 CCCCGGTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.45
Consensus pattern (37 bp):
TGGCGACTAGTCAATTTAGTCGATTTGCTTATCTTTC
Found at i:17194519 original size:8 final size:8
Alignment explanation
Indices: 17194506--17194537 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
17194496 CTAGATCGGC
17194506 AAAAGCCG
1 AAAAGCCG
17194514 AAAAGCCG
1 AAAAGCCG
17194522 AAAAGCCG
1 AAAAGCCG
17194530 AAAAGCCG
1 AAAAGCCG
17194538 GCATTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Done.